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# Rhodoferax ferrireducens DSM 15236, DSM 15236

>Rfer_2452 transcriptional regulator, LytR/AlgR family
MLTALIIDDEAPSRDELKALLAVEPDVEILGECANAIEGLAAIHRLRPDV
VFLDIQMPRVSGLEMVSMIESSALPRIVFVTAYDEHALQAFEEHAADYLL
KPIDPQRLAKTLNWLRTGAHSALKVVPGAGSALRQIPCIGHNRIFLLQLD
AVEFVHTDIAGVQVVGATQQGTTELTLKLLQERTPLIRCHRQYLVNIDQI
AEIALLENGVAEIRTHSGKCIPVSRRYLREVKDRLLIT
>Rfer_1827 periplasmic sensor signal transduction histidine kinase
MKIGTKERFVTGTGLAIIALIAAMIWWTYSEVEDANRQRRVTTEIGHELT
ELRLLTFEYNLHHNERARVQWTAVSDHVDQLIADARFRRPAQSKILADLR
GKRAIGLRLFTEITAAELAGRGDVPLDEAGRRHEAQLLSQLMVYQQENFA
DAQRLTDLATQRIMDAEWQVMIAILAGLALIASIIVATSWFLRRGVLMPI
AQLQQATRHVAAGNWNFVLDIRAKDEIGELSKNFGTMTQSLQASFAQVER
SNQDLAALNRELEAFSYSVSHDLRGPLRSMDGFSLVLIEDYGDKLDEEGK
DALQRIRAASQRMGNLIDDLLRLSQVTRAELNVTRVDLSAIAQDIADTLD
REQPDRSTKWEIQPGLSLHADLALTRIAMQNLLQNAWKFTGRSGQPVIRV
GALERDSKTIFFVADNGVGFDMAHAANLFGAFQRLHHVEDFPGTGIGLAI
VQRIIRRHDGKLWAEAKEGEGATFFFTLKESKNGSNEQDHPAG
>Rfer_1737 anti sigma-E protein, RseA, Burkholderiaceae specific
MMQEVAKNRELISALADGQLRDEDFARTVEWVNQTEEARLTWHTYHLVGD
VLRSGEPVVSARDADFLQSLKLRLQQETPQVRPVNAPELVANDPGMTVAG
VQNGSKYWSANDGRFRWKMLAGLASLSTVALIGWQIVSGWGDPGGARQLV
QVPVQALQPEVGLTQPGVGAEPQRMIRDPQLDALLAAHKQFGGTSALQGP
AGFLRNATFEGGVP
>Rfer_1538 putative PAS/PAC sensor protein
METPLSEDTARKLDIGYRLLFEKSPLPMWVYDVQTLGMLAVNDAALAQYG
YSKQAFVGLSVLDLHPPDEAAQAQQHLQLASGEPVTQTLWRHRLANGDLI
DVEVVTEYVELDGIQARLALVRDLTAQQRAKQQLQEEHQTLAAVLDSTTD
AIISITVEGLIKVFNPGAERIFGYSRERMLGQNMALLLPERYRAEHPQQL
RSFADSGATSHMMGMGVVKGLRADGQELDLEGTLSQVIVHQERRLIACLR
DVTERARSQAKFRQSRAQLSELTQRLMTQEKTLVKQLAKTLHDQLGQTLA
AVRMAHETIQAVQPKDTPVAVQRQQAQLGKLVGHAIQQVRQVLVDLRPPL
LEDQGLVAALDNELRNRSLTQPQIDFSIDVPPEIEPMRWPGEVEYAAFMV
AREALENALRHANASAIAVRLVGTQQSLQLQVSDNGVGIPAGAAVPSGHL
GVFGMHERAQAIGATVTVGAGEGRGTCVSFYWQPEPDSDSEWGAL
>Rfer_1469 putative signal transduction protein
MIALLLNELDREEPELRKISQLINTDPVLATRLLQLANSAQFQLSNKISS
VSEALALLGLNQVKALATAAAIAGAFTAVPGIDMRQFWRYSLNTAKLARA
LGGMVQQNQPAAFTAGLIHATGELVMHLGLPGALEILDRQVPPLGLKRAA
AERKLLGYCYADVGAGFARRWQFPQPIVDALEHQHAPFDNDVYEPMAGVL
HLAAWRARAWEANYDEQDLIDNFPDVVALALGIDIDMVLQQDPIDWTTKA
EVAVLASA
>Rfer_3645 periplasmic sensor signal transduction histidine kinase
MSWRAWPSSLFVRMALILLLGLLVAQGLSFWLQWGERATVVSQARGQNFA
DRMAEVVRALEATAPAERSAALATMPHGDWQVTLITEDQVSQNPPRGAIG
AMLSARLGSAREVRPLGGAAGMGMMHGNMPRGFDVRLQGGQWLRFSGARQ
LDTPALPRDLILRLAVTLMIVTAVAMLAVRQATQPLKQLAQAADTLGRDL
DAPALAEEGPTETRRAAQAFNRMQARIKRLVNERSRALAAVSHDLRTPLT
RLRLRAELVDDETLRDQMAADLDDMAAMIDATLDYLRGLQASEAVRPIDI
NALLASMSEDALALGRPTSIQGQALAPYTGRLLALRRALQNLIDNAIKYG
ACAHLRVEDDANELRIMVEDEGPGIEPHELARVTEPYYRPDASRSSATGG
VGLGLSIAKDIALLHGGDLVLVNRAQGGLCATLKLPRLAGAAA
>Rfer_2055 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MPSSPRPGAPHQQRGPHALLPEAMPFIRQRIGALVRLNHHVPIWLLAALV
FAAVWLHTFRLINDDRAKAMGGAENEIVNLARIGQEHAERIFYSVDQTLR
LVRSEYQEHSGGLDLGTMRVEGVFDERTIRQVSIVDASGILRLSSLPLSD
HRDVSDRDYFKAQREAASDTLFISKPEFDLAYGVWSVRVSRRIVGNDGEF
AGVVVVSLDPTYFTRFYGELQLGHEGVAALYGLTGSLLARKTAHTETFTG
NAVSSPVFARIARGDTSGTLTFQAQTDGIERLYHFKQLASYPVLVLVGLA
SKDVFAQQEDTLQHRVWEAVILSVLLLVLGVLLSWYVVIRRRHSTAQRQA
LVQLQSLTHHVPGVVFQYLLRPDGSSCFPFASAGLHKIFRLSPEAVAQDA
APLFALMHPDDAAGVAASIQASSRALTPWVDEYRVKFGDGTVRWLSSKAA
PQKLDDGSVLWHGFVSDVTAHKQAEESLITLSAAVEQSPVSIVISDPRGL
IEYVNPMFEQVSGYRRAEVMGQNPRILSSHEKSEDEYREMWATLLAGDIW
HGEFHSRRKDGSLFWEQAAIAPIFDDHGRPIHYLAIKEDITKRKAAEAEI
EHLAFYDLLTGLPNRRLLNDRLQQVLAVGTRSRRHGALLFIDLDNFKNLN
DTQGHEQGDVLLQQVAQRLNFCVRECDTVARLGGDDFVVMLQDLSEQQTE
AATQAEGVGQKILDALHQPYPFGHFTHHGSASVGVALFNASQDTVEELLK
RADLALYQAKDAGRNTLRFFDPDMQAVISARAEMEADMRLGLQENQFLLY
YQPQVNHAGRLIGVEALVRWQHPLRGLVAPAHFIPLAEDTGLILPLGQWV
MEAACRQLQLWRTQAHTAQLTIAVNVSALQFHGESFVSDVLATLARTGAP
ADRLKLELTESLLVKDVDGVIAKMVALKAHGVGFSLDDFGTGYSSLSYLK
RLPLDQIKIDQSFVSDALSNPKDAALVRATVAMGRGLGMMVIAEGVETQM
QRDFLEGEGCLNFQGYFFGRPVPVAELACFLVAE
>Rfer_1712 transcriptional regulator, LytR/AlgR family
MALKVLIVDDEALARARLRTLLGDCNAPAASVEAEAANAAQALAWLQHHP
VDVALIDIHMPGSDGLRLAQTLRTLPQPPAVVFVTAYAEHAVQAFEVEAA
DYLTKPVRLERLQLALQKIERNRQNGRGPQPDFPGEVLIIQDRGRTERVP
LAEVLYLKAELKYITVRTAARSYILEGSLSELEDKYGTRFLRIHRNTLIA
RRAVRSLEKYHDPQEGEGWAVRLNGIDELLWVSRRQLAAVRELVAS
>Rfer_1541 UspA
MAVSNVVTLTRDSPKVESILVPTDGSALSMAAALKAVEFAQRLQASIVAF
NSIPVYQYPVYVGGIPFEYPSEADYETQCRAVAERYLGLVADAAAKQGVP
VETRIEFNGNTAQAIVELAQREHCGMIFMGSHGRGGLSRAFLGSVALKTL
TQAHVPVMVDHPTDEEIARAEELMRQNAIEP
>Rfer_1826 response regulator receiver domain protein
MNKTILLVEDNPDDVKLTLRAFKRNNMLNPIIVARDGVEALDFLLARGAY
AERASKSLPTLIILDLKLPRLDGLGVLKAIRADEQTRLIPVVVMTSSKEE
QDLIQSYSLGANSYVRKPVNFAEFLEAVRVLGIYWMMTNQPPPERNTT
>Rfer_3395 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MATNFLPSHSGWRPPVERRGTCRLLLAVWVVLAGILGLCLPGPVQAATSL
NDWRTQAGQTRVLAENDVPRAYTQAQRLQASLPADATPVDRARVLNLLAR
IEVYLSLTEKAQKNAETALELAQRQGDRVGQAEAQLNVALNAVNQARIDA
SITATTRSVELLEDVNRPDLLGEALLRMSMMYRRVNDFDNSVTMAMQAME
IAKRTKDPLALTYAHQGLAISFDLSGRYAQAGEHYLQMRDYARIAHSKIL
EAHAVHGLGGVTASLGRVAEGERLTREAIAMFRSVGSPFSLSYGLFGFAD
LLRKQGRYGEAVLLLEEVVAIYEKYPNPIGLWFTLNARSTSLQALSRNAA
ARADAERAYGLAKEIGLPVYLSGSARRMAEIGTVDGDHQRAYQLFVEAAD
LADKVAREKASARMVELAERYATENKQREINELTRRNEQQSAELRQRALQ
ERWLWTVLGGSALVFAGSAYFLLRLRRSNRMLEALNTQVQRSQNQLQATF
DAIPDPLFVLGLDGRYYDCRSSRADLLAAPAEDLIGKTVSDVLPPEAASI
CLSALREANEKGTSTGKQFELQLAHGRAWFELSVARKSVGQRQEPRFIVL
SRDITERKQAEEALRIAATAFESQEGMTVTDAQGAVLRINRAFTEITGYS
ADEVVGHNPRLLQSGRHDKAFYAAMWESIRRTGSWQGEIWNRRKNGEAYP
ELLSITAVKENGGIVTHYVGTFMDITRRKAAEDEIRNLAFFDLQTGLPNR
RLLLDRLQQALAASARHRRQGALLLIDLDNFKTLNDTLGHDKGDLLLQQV
AQRLASCVHEGGTVARLGGDEFVVMLENLSEHLEAAATQAETLAKRILAS
LKQTYSLDGYEYQSTASIGITLFSEQQETTEDLLKRADLAMYQAKAVGRN
TLRFFDPEMQAVVTSRAALEAGLRRAVTSDEFLLYYQAQVDGQGHLTGCE
ALLRWQHPERGLVAPGEFIALAEDTGLILPLGRWVLDAACTQLAQWATRP
EMAHLTVAVNVSVRQFHQADFVNQVLTVLDSTGTNPQRLKLELTESLLIG
DVEDVIAKMSILKEKGVGFSLDDFGTGYSSLSYLKRLPLDQLKIDQGFVR
NILIDPNDAAIARMVIALGDSLGLAVIAEGVEIEAQRDFLARLGCHACQG
YLFCRPLPLDQFEAFVRRV
>Rfer_0401 UspA
MKILLAVDGSAYTKKMLAYLTTHDELFSPGNEYFVLTVQPGIPARARAAV
GKQVMDKYYMDEAERVLAPVAKFLLRHGIDAKSDWKIGHAGETIAQFADK
GKFDMIIMGSHGHGTLVNLVMGSVATEVLAHCTVPVLLVR
>Rfer_2357 CheB methylesterase
MGGSAGGLDAYIRLLKNLPPDMGVAIVVVNHITLMPTQLHQVLPPFTKMP
VELITENLVIEPNHVYIIPANRDLHVDGEVFQLRPISKPRGWPDVITVFL
KSLTQYWDGKLIAVIVSGFDGDGAATLRGIKEVGGITIAQKPGHEA
>Rfer_3574 periplasmic sensor signal transduction histidine kinase
MGKIILEKTGLSPLGVVIRLVLVVIAAEVFIHLGMNVVLESVPGSKASDS
LWAVVAVMALILIKVPALYLLVFLPLQDQQTALAQHNNDQQRALVLLRQE
DALRLERARQELENREHMIQIERLSALGTMVGGVAHEINNPLMGVMNYVE
HARDKATDASSKEVLNKALHEIDRIKKIVSNMLIFVRPDAGQQERCDLPP
TVNKTVDLLQSELTKNAVQVRIDLPPDLPPIQCSAGSLQQVLVNLLLNAR
DAMAGQTQQRITISARLEGGQVILFVCDNGPGIPEEIREKIFDPFFTTKP
VGKGTGLGLSVSRHLMQEVGGSISTDNLPESGCCFRLTFNPK
>Rfer_1870 signal transduction histidine kinase, nitrate/nitrite-specific, NarQ
MAHVRHWSLGAKLMLVGAPFLLLVFISTVATLWVSWQLDGGAAAVNEAGR
MRMQSYRMSLAIGTGETRELTALATEFDRSLATLRHGDPDRPLFVSWDDT
STARFAVIEQDWSQYQARWIAGQPRVLTDLRAQTVTFASHIDAFVSSIEA
HIAKWTAMLHLLQISMLTLVILGAAVLLYTGYLFVLEPVSQLKQAIENIQ
SGNFDARVERVTSDEFGTLADGFNDMAAHLQSMYQNLESKVAEKTAQLQE
KTARLESLYEVTALVSNATSLEALAQGFAKTLARIARADGVALRWSNQAN
QRHLILAAHGLPVSMVDAEQCIYTGDCHCGAAKAEPGLNVIPIRNIAGSS
LQHCAKAGFETLVTLPVRLHERLMGEVDLFFHARVNPTLPERSLLEALSS
HLASGMENLRLNALEMEAAVSQERHLLARELHDSIAQSLAFLKIQVQLMR
DAIKSSDPVEIAKVLEEIDIGVRESYGDVRELLLHFRTRTNAEDIEPALA
TTLRKFEHQSGIKATLAMQGQGMPLLPDLQIQVLHIIQEALSNVRKHAHA
SQVWLDVQQLPAWRFEVRDNGIGFDLGDDPLDETHVGLRIMSERSQRIGA
ELDVISTPSHGSSVILTLPLPAHPMAKVKPVASIQA
>Rfer_2737 response regulator receiver domain protein
MIAKTKILVVDDEEVVRLSYLRTLSGQHCKVDVVADGKDALQMMSQQPFD
VVLLDLRMPGMDGMTVLKTIKQKWPESEVIIITGYPAVESAKAAVTLGAY
GYLAKPVGPDDVINAANGAMLHKRWALRCDQPAQCAAMR
>Rfer_1092 periplasmic sensor signal transduction histidine kinase
MSPGDTLAGEGAGSGTAGHGLSLKRQLLLWLLLPQLVLWLVGGALAYRIA
LSYAEKGIDQSLTQSVRSLARQVKPIGSGLLIDFPRAAQDIIEQDPQDRV
SYLVSSPPGSFLLGNGRLPEPPQRLSPVPGEPLLYNAVVDGKPMRVALLE
VNYGEATSPQRLRVQVAKSLVVQRRLTTELVADMLAPLLLLGVLLSVLVY
GGVSRGLLPLTRLQAQLGLRREQNVSALSPIEMTQAPQEVHALAQAVNQL
LAAVRRSLGQEKRFLNDAAHQLRTPLAGLISQTELALAETDPQALHARLS
KVLAGAQRSAHLVQQLLSLARNEAEVRLQTLDLAALAREVARDWTPRAMA
AGVDLGYEGADSLGVQGEAMLLREAMSNLLDNALLYAGRGSVVTLRVKRL
TQQAVLEVEDNGPGLSATELAHLFERFWRASELPGGCGLGLAIVAEIAQR
HGGSASAHVVQPHGLRISLSLPVVSWDTAL
>Rfer_3370 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MLTTPASHHKPTQPMRVAGVVFLLAAVLSAGLIWHQERQRREHARAEVYT
LAQDHAKAAREQLDRALSAIYAMAALVQQGRGQVDNFDAVAARMLPFYPG
VSVLILAPGGVIRNAVPLAGNEKAIGLDLLKDPVMQQEAQRARSTGQLTL
AGPLELRQGGLGLVARLPIYLDNAQGTPEFWGFTNVVMRFPQTLESAHLP
SLLQRGLDYKLWRVNPETRQTQIIAESQSAPLIEPVIQGFEVPNGAWSLS
VAPRLGWGDRAGLAGKTFIGLLFSWLLAYLAKLLTRQRAYKINLEQQVTE
RTAEIQASERQLSATLDAIPDLLFEMDLNGRYLLCHSPRAADLLDAPVQA
LLGKTVSEVLPPAAAEVVLQALKQAHELGLAHGQQFELASPEQDRWFELS
VARKAVSAGQEPRFIVISREITERKQAEKDIQKLAYFDALTSLPNRSLLN
DRIRHALSEADRRQESLALMFLDLDHFKNINDTLGHGVGDQLLVALAARM
QSVVREQDTVARLGGDEFILLLPDTGSKGAARVAQKLLQTISLPVQIGPH
ELTVTPSMGIAQYPRDGDDLETLSRRADIAMYRAKQSGRNGYQFYTTEMQ
LTTDRALQIENALRRALERDQLRLHYQPQLSLSTNRIVGVEALLRWQHPE
LGQVAPAEFIAIAEASGQIQGIGEWVLRTAAQQAKQWRDLGLAPMTMSVN
LSAVQFRHPDLPELVARILAEAQLPPQFLELELTEGVALHDPLGAIAVME
HMHQQGVKISIDDFGTGYSSLSYLKRFHAHQLKIDQSFVRDITDDPEDLA
IVNAIISMAHSLGMNTIAEGVETQAQLTLLRAQGCDEVQGYFFCRPQPPE
ELVAFLRAHS
>Rfer_1978 PAS/PAC sensor signal transduction histidine kinase
MNALARLMLDNSPEMVLLVNPATLQIMMANASVVKTLGYSLAQLQGLAIT
EIESALQDVFYWEDVRTGQCLEVQSQEGQYRCAQGELLTVSKSIRLLDQD
GAPLLLVQAVQTRNERKAEDALAQTLSQLRATLESTGNGILVIGWQGRIE
SMNRLFGKMWEISDDLLDSHDDARILGFVAGRVIESGLLHARLGAIVDKR
ETEDLLHHQDGRVFEVSSRPQYLGEQIIGRVFGFQDITQRTLAEAALRES
RDLLEQRVRSRTADLNTANETLQQEKERQAILIKRLEEAQNQLLQSERMA
SIGQLAAGVAHEINNPVGFVNSNLGSLQRYVTDMLRLLSVYEKAEGALPG
AATQEINQVKADIDVEFLREDVANLLVESLDGLKRVTRIVQDLKDFSHVD
ESERQWADLEAGLESTLRVVWNELKYKAEVIKEFAGIPQVECFAFQLNQV
FMNLLINASHAIEGRGTIAIRTGHDDACVWVEVQDSGRGIQPEHLSRIFE
PFFTTKPVGQGTGLGLSLAYGIVKKHDGRIEVKSELGQGTVFRVILPKKT
KTL
>Rfer_0782 two component transcriptional regulator, LuxR family
MQMSFVDAPRAVIDAPSRPIRVFLVDDHQITLWGLRRLIEATNPRMEVVG
TASSRTELLNHDAAATADVILLDLDLGGEDAAASLADLRQRCPGRVLVLT
ASDDPAQHRAAMVKGARGVIHKSEAAETILRAIEKVNNGEVWLNRALLGE
VLGMLTDDSPAAAPRQADPDAQRIASLTTREREIVVTMVHCAGAKQLAVA
DELKMSEHTLRNHLTTIYDKLGVRGRLELHVFSTMHGLGAATGRACGA
>Rfer_2355 MCP methyltransferase/methylesterase, CheR/CheB with PAS/PAC sensor
MTGQDPSPAPTQAVPTPPPSSFPIVGIGASAGGLAAIEAFFSGMPADVDP
GMAFVLVQHLDPDHKSILTELIQRTTRMQVSEVKDGMPVQPNCVYIIPPN
RDMAFLNGTLQLLEPAAPRGHRLPIDFLFRSLALDQHEHAIGIVLSGTGS
DGTLGVRAIKIDGGMVMVQSPASCEFDGMPQSALATGLVDYELPPAEMAP
QLIAYVTHAFGHPPQSATVAEPHTENALKKIFVLLRSQTGHDFSQYKPNT
IYRRIERRMAVHQIDGIGGYVKYLQQTPVEVQALFNDLLIGVTNFFRDPD
AFAVLESQVIPKLFEGKPAGSAVRVWCAGCSTGEEAYSIAILLQERLETL
KVSYRVQVFATDIDSRAIAVARAGLYPGSIADDISPERLARFFTAEPDGS
AYRIHKNIRDLLVFSEQDVIKDPPFSKLDLISCRNLLIYLGPELQKKLIS
LFHYALQPGGVLFLGTSETAGEAGGLFAVLQRKAKIYQRKEDFQGAQRAA
LGRFLPPLTDQDITRPVAPGKGAQLPKLSLRELTEQTLLQQVAPVAALVN
GHGDILYLHGRTGLYLEPAPGEAGINNILKMAREGLRRDLTTTLHKAATS
RDTVRASGVRVKTNGHFTLVNLSICPVAGGPAAALESPLFLVMLEKAPDA
NAAESKSPPAPATLPAISAAGGSDKLRSDASAQIAELNEELQAKEEYLHA
ANEELETTNEELKSSNEEMQSVNEELQSTNEELETSKEEMQSINEELSTV
NTELQTKVSDLSRANNDMNNLLAGTGIGTIFVDHALRILRFTPAASQIIN
LILSDVGRPVAHIVSNMVGYNTLVEDLQAVLKTLIPKEVEVQTTDAKTYT
LRILPYRTLDNVIEGAVITFVEITEVKRTRAALHKTNELLRLAVVVRDAH
DAITVQDLSGRIIAWNPGAERLYGWSELEALQMNVRTRIPAELQEEALAQ
VHLLSQAQTLAPYPTRRLTKDGRVLNVLLTATALLDEAGQVYAIATTERP
SDDPVAKG
>Rfer_0752 HPr kinase
MLFDEFRGALKWEWLAGLGASERRFDEVAVRAARSGADLVGHLNYIHPYR
IQILGQREIAYLTNSTPDDCARRISRIVTLEPPVLILADGQDAPQALLSM
CERAQIPMFATASSSAFVIDVLRAYLSKYFADRITMHGVFMDILGLGVLI
TGESGLGKSELGLELISRGNGLVADDAVDLYRINQDTIEGRCPELLMNLL
EVRGIGLLDIRGIFGETAVRRRMRLKLIVHLVRRETMERDYERIPYEPLT
QDVLDVPVRKVVIQVVAGRNIAVLVEAAVRNTILQLRGIDTYQEFVERHR
KAMKLSE
>Rfer_3743 two component transcriptional regulator, LuxR family
MIKVLIGDDHRIVREGLKQVLADAPDVSVLAEAASGPEVLAQVQALGGSA
GLDLVLLDIAMPQQDGLEVLQILRRTHPTLPVLMLSTYPEKQYAVRCIKL
GAGGYLNKSADPDDMVAAVRKVAAGGMYVTPDTAEALAAAMASAGRSGAA
AQAVVAGVDALSHREYQVFRLLSMGHAVGEIGAQLKLASNTVSTYRARIL
EKTGTKNDVELALYAQRHSRSTPLR
>Rfer_2337 diguanylate cyclase with PAS/PAC sensor
MSIRQNSHPPTQSDGQDSFAKAEHMMAIAMDKGLHRFEWIHTRADGTNFV
AEVTLSIVELESRPVIYCVWRDITERKRIEETLQRQNYILSAVIENFPGG
ISLFDAELRLAAHNDQFKQLLDLPDSLLGNPGVGFEDIARYNTGRGEYGP
GDPKQQIAAIVARASHFQAHKFERVRPNGTVLEIRGMPLPDGGFVSTYMD
ISERKLADSQQRIAATAFESQEGMFITDAAGTILRVNRAFTDITGYTAEA
AVGQNSRLLKSGRHDTAFYAAMMDSLRCSGRWQGGLWNRRRNGEVYPEWL
RITAVKGDAGEITNYVATLTDITVRKRAQDEIRNLAFHDALTQLPNRRLL
SDRLSQALAASKRSACYGALMFLGLDNVKPLNDTHGHEVGDLLLVEAADR
LTRCVREIDTVARFGGDEFVVMLVDLEVNLPQAALQARCIAEKVRVALAP
PYLLTLNHGSNTNTTVEHHCTVNIGVALFMDHKGSTDDFLKWADIAIYKA
KEAGRNAAAFHDCDA
>Rfer_3546 putative PAS/PAC sensor protein
MVSTADILNARILIVDDQEANVQLLEQMLRGAGYQRLTSTMDPFAVCDLH
RANHYDLILLDLQMPGMDGFQVMEGLKEIDPDGYVPILVVTAQPGHKLRA
LASGAKDFVAKPFDLVEVKTRIHNMLEVRLLYKKLQNYSQVLEQTVAERT
AELTESEARFRRLTELASDWYWEQDAQGQFTKVYGPVLDMLGISMESLLG
EIKQEQALRWNEAERAVLKANVAARRPFLDFVFSRIDDAGERQYFQVSGE
PMFDASGRFTGYRGVGRDVSAIMREVAQPRAA
>Rfer_0904 MCP methyltransferase, CheR-type
MQPISDSEFSQFQHFIFEEAGITLSTAKKALVTGRLSKRLVHHRLDSFGE
YFRLLKSGHQAQEVQMAVDLLTTNETYFFREPKHFEFLRKQALAAHNRPQ
MFRVWSAASSSGEEAYSIAMVLADCLESTPWEVMGSDISTRVLAGAQRAL
YTMERARHVSPAYLQRFCLRGRDEHEGSLLVDRQLRSRVHFRQVNLNTPL
PDLGSFDVIFLRNVMIYFNEETKRQVVARVVSALKPGGYFCIGHSESLND
ITQAVKAIAPSIYQKPA
>Rfer_2356 PAS/PAC sensor hybrid histidine kinase
MSNPDTPSSNGRESSVTHDAPSAAQLMRRRAEDMALEKLAQLPQSLQVLS
PGEMQQLMHELAVHQIELEMQNDELRRVQQELETSRARYFDLYDLAPVGY
ITVSDAGMILEANLTAATLLGVPRSALVKRPISRFIVKSQQDIYYQYRKQ
LVETGQAQTCELQVLHSEGSALWVSLAATVAQETDGATILRIVLNDISER
KLLDQSLRETNVKLESALFLADKANLAKSEFLSGMSHELRSPLNAVLGFA
QLIETGTPAPTPGQQASLEQILRGGWYLLTLINEILDLSLVESGKLSLSM
EPVLLSEKFSDCRAMIDPQAQKAGIRVSFASFDSPCFVEADRTRLKQVIV
NLLSNAIKYNRAGGSVEVTCSTPAAGRIRISVIDTGPGLSDNKLAQLFQP
FNRLGQEAGTQEGTGIGLVVCKRLVEMMGGEIGVHSRVGIGSEFWFELKL
AAPPPTAVSGEASELAQAQVQDEAEVHTLLYIEDNPANMELVERIVERRS
ELRLLKAGNGSSGIALARMHLPQVILMDINLPGINGFQALKTLREDPATQ
HIPVLALSANAMPHDIQAGLAAGFLRYLTKPIKIKELMQAFDVALEAAKL
PQ
>Rfer_2398 BolA-like protein
MTAAALSTAPTAQQLEQRLRDTLQPSALEVIDESCQHHGHAGANGSGFGT
HFRVRITSHLFTGKSIVMRHRLVYDALHDFMAHGLHALAIEAQAPTA
>Rfer_0503 two component transcriptional regulator, winged helix family
MRILLAEDDSMLGDGLRAGLRQLGFQVDWVRDGLAAERELACGDYAAAVL
DLGLPLKDGIDVLQAVRASKITTPVLVLTARDAVPDRIRGLDLGADDYVV
KPVDLHELGARLRSLVRRAHGQMQDVLRCGAVLLEPSARRVSLNDEPVAL
STREFDLLHVLMLNADRVLSREQLEQQLYSWGYEVESNAIEVHIHHLRRK
LQPDLIQTVRGIGYTVQRGSAPASAST
>Rfer_0055 metal dependent phosphohydrolase
MTRPDPSPPPAADPMYAAMAVAAFAIVTLAGTRSSDTGQHILRVQQYVQA
LVQRLKEHPRFAAALTESYCRVLFQSALLHDMGTIGIPDRILLKPAALTP
AEYEIIKSHTTLARDAIEQAELTLGYQAPLLQTVKELAYSHHEKWDGSGY
PQGLSEENIPLSARLMAIADVYDALISERVYRAGLPHDQAVGIIFQGRAS
HFDPDMVDVFIEIQDEFRAIALRFADTGQDMQRKMAYMANAIAEEVQL
>Rfer_1738 putative sigma E regulatory protein, MucB/RseB
MAGLLLMVLSATAMAQTTIAAAAPAAVDRPVAERSVSDWLQRMHDASRQR
AYVGTFVVAGGGRLSSARIWHVCDGMQQMERVESLTGAPRSTFRRNDQVL
TFLPENRVVLAEKRESLGLFPQLLQANNAAIAQYYRVHEFGRDRVAGFEA
DVLELQPVDSLRFGYRVWIEKDTGLMVKLQTLNARGQVLEQAAFSDLQFD
VPVSMDKLAQMMSHTEGYKLEKPQVRKTTAEAEGWVLKQVVPGFQPMSCY
QRSVKGSAPSQYEHTLQWIFSDGLASVSLFIEPFVARRHGQPASQAMGAT
HTLTRRLGDWWLTAVGEVPTETLAAFAQGLERQK
>Rfer_2943 BolA-like protein
MTADEIKNIIAANLLCEHIELTGDGQHWYTTIVSPEFEGLRAIKRHQRVY
ATLGEKIHSNEVHALSIKAFTPAEWAASPQ
>Rfer_3329 metal dependent phosphohydrolase
MHLQEFCGSWMEHPFFRTSFVLKDPKDIESIVGSSIKEVWIDCDKGLDVA
SGEAAVSEAESEAQVEHELKQIANGRRQLAPVSAAQELERAAKICGRAKQ
AVVSMFEEVRMGNAVDVGGAKLLVEEIADSVSRNPGALISLARLKTADDY
TYMHSVAVCAMMVALAKQLGLDQAQTRSAGLAGLLHDLGKAVMPMDVLNK
PGKLTDAEFTIIKSHPVQGHKMLLGGVNVDPIAIEVCWHHHEKMDGSGYP
DRLEGDQISLWARMGAVCDVYDAITSNRPYKSGWDPAESLRKMAEWTKGH
FDPQVFQAFVKGMGIYPVGSLVRLSSGRIGVVTEQTSKSLTTPRVKVFFS
TKSNMRIVPQLIDLSSPDTSEKIAAREDPAKWHFPDLNELWSGLPSAPW
>Rfer_0367 Glutamate-ammonia-ligase adenylyltransferase
MTGIMTGPALSAHSRFGQRIRRRFESQLHLLPPGLPSPASMAQACDALRA
LGLDSASALRTTRQLVLERLLCLDCDQQAPLQQVTQAMTDLAEFALNTAC
AEVELTLDQTHGAPTTAAGARAQLWIVGMGKLGARELNVSSDIDLIYVYD
EDGDTAGDSQGRGRISNQEYFAKAVRAIYALVGDTTEHGFVFRVDLALRP
NGNSGPPAVSLDALEQYLHVQGREWERFAWLKSRVVAPLGCVADGSTLAL
RNVVMPFVFRRYLDYSVFDALRVLHRQIREHASKRSAGHPERANDVKLSR
GGIREIEFIVQLLQVVRGGQFPELRTRATLRALPRLVKAGLMPKNTAQAL
ADAYVFLRQVEHRIQYLDDQQTHVLPTQDQDLTWIASTLGFATACQLLHQ
LDAHREVVAEEFDKLLGGGADQSCKGCNGGNGAKSAAAPGFDEVLEQLAD
QFRQRVANWREHPRVLALKEESRTRLLRLIARTAQWVREGRATEAAAVRL
VDWMEPLLRRESYLALLLERPNVHERLLRLLDAARWPARYLLLHPGVIDE
LASADFLDERFSASDFEHELDHRRAALAGTGEDDDETLLNLLRRAHHAEV
FRTLARDVEGKLTVEAVADDLSSLAEAVLRVTTRWCWSRLKNRHRETPQF
AIIAYGKLGGKELGYGSDLDLVFVFDDDDERAPEVYASLVRKLINWLTVK
TGEGDLYEIDTALRPNGNAGLLITSFDAYANYQQQRGSNTAWTWEHQAMT
RARFVLGDDTLRQRFDVIRKSVISAPRQAEGLKTEIKAMRERLRDAHAGK
EGYFDVKYSPGGMIDAEFVMQYLVLSQSAQLPELLDNLGNIALLERAEVM
GLLPVGVGHAAASAYRTLRQVQHRARLNDEPYQVRLPQLQAERDAVLALW
HAVFGAALP
>Rfer_2855 periplasmic sensor signal transduction histidine kinase
MKPIALSAKPRRVKATFIWPFAIVLTFILAAFVATAYYLQVQVRDRALAA
RVAAVAKLVDQKLSKDTSLMQAVLRTMMGNRAIEAAFASRDRDALVREAG
PLFETLRADHRITHLYFNGPDLVNVLRLHSPGQFGDLIDRETSIKARDQG
IAVHGIELGPLGTLTLRLVVPWRSQDRLLGYLEIGEEVGYLVDEIRDSLS
VDLLVMVDKDLILPQQWQHGLALFNRQGSWDRFGAQVLVAQTASQVPAAL
NDGVLASLRAGRTAVFEDGQRILHLAMLPMADAGGRRISDLVVMLDISGL
QKTFQMSILAATLLSLAAGVGVLGSFYFALDRVERDYQRQHDLEHQLLRV
GSEHQRMLQIEKLSALGTMVGEIAHQLNNPLVGVVNLAQLAKREADDPQR
TRELLTEIHRAGADCHALIQSMLRFAKVSSCEIRPTSMAQVIEETVLLFR
QTERRQLPVELRLPAQAVVLTVDPILIRHALFNLLLNAAQATVGDGAIVI
ALDRAVHPDSGAPGWRLSVTDQGRGIAPDILEKIFLPFFTTRRDGTGLGL
PVVQHVALLHGGYVSASGQPGGGTQFAIWLPEDHKLWKDNTSDQLEHAA
>Rfer_3511 transcriptional regulator, Crp/Fnr family
MSTHINLKSDLAALTVAGGWFASIPQALREALLVNAEIRTIAAGQRLFAR
GDAPDGIYCVLTGVVRVTGITENGQEAILAMLESPQWFGEIALFDNEPRT
HDAWAESDAKLLRVSQRALEKMLSERPDDWRHFGRLLTQKLRSVFVAMED
IFLLPPTARLARRLLSMAKGYGAWTDHTSRVISISQEQLGLMLSLSRQTV
NQSLRELEDAGSIHRHRGSIEMVDLRKLEAAGR
>Rfer_2482 putative signal transduction protein
MILSASSIPRICQRSCVAVDLNTLLASQFVLPSIPKVVALLLSELGRSEP
DLKTITQLISTDPALTTRLLQTANAGFFKLSGKINSVSEALAILGLAHVR
AMAAQAASAASLKAVPGINLQQFWAYSLNVAKLSRSLAGVVRQNPQAAFT
CGLIHAVGELAMHIGMPDEVAALDREVDPLDLRRARLEHRSFGFCYAEVG
AGFASKWQFPQPIVDALAHQYAPFQDEVYEPLAGVIHLATWRVRAREGGL
SANALAVTFPGAVGEVLGLDIDIVLQQDPIDWSAQMPGRSLI
>Rfer_2755 metal dependent phosphohydrolase
MTDIATDPKHFTKAVTELGEKRPVVTTQAIFNDRGVKIIEKGVQVNAGLY
ERLMAHKLTVPIEQSVASTPTVTGQFLRVHAEQVMREVPFFERIGANTKT
RSLMLDALTKLPLPSPIAFQLTLAYEVRPVLFRHSIFMALFAAWMTQGLM
VSRFDVSVASAAGLLHDLGMLHLDPLLLMPQSAIGHDQTRQLYSHPLVSE
VLIERHHEYPRDLLQAIKVHHEFLDGSGYPGNLAGEAISPLGRVLSLGEL
VTSMLASNEAASELRLWVLLRMNMHRYDVALVEQVMQNIEPQTELQSKGL
AVMTDPVSRLVEIDATLSEWPTELTQRADLSAPRQANLAGLTEQSAQLRR
TLAGVGVAPQQLAQLGDDTLDDFLQLELTLLAQEAAWQLRSLARQTRRRW
HIEADARFPDQLTAWLDRVDTVVAGINGIAPAQLHDTE
>Rfer_0922 multi-sensor signal transduction histidine kinase
MPAYSLVAVKSLSLSLSLLRRLSWQRWLRWSLLALVTGVVIALVGQWAER
RELHNRIQALQQAAQSTVLGLGGIAAKHGYLPYAATRHPDVQALLRHPAD
PLLRDRVNRYLADFQTRTDSAALFVMSVDGLTLAASNWNSAGSFVGQSYR
QRPYFRQALQGRHSYFYGVGLTTGTPGFFISEPVRSGDEVIGVMVIKVSL
DTLEHSWADSSDPVVLQDSRGIVFLSSEPEWLYRSRAPLSADDLAWLAKN
WQYGERTGYDVLPWRVLRTTGSPAYELHAVVKGQLRSFLALESVLPELGW
TLVVTSDLKGVTQARREALVLAALLAAVLLLAGLYWQLHERRYSEQRQAK
LELERRVQERTHDLEQAQAFRKAMEDALLVGMRARDPQGRISYVNRAFCD
MVGYRDDELLGCAPPYPYWHPDELDKYRRDREGSMVAEAQPYGFESRIRH
RDGHDVITRVYTAPLIDAQGQNQGWMSSVVDITAQKQAEDRQHDQELQLQ
RSARLASVGEMASTLAHELNQPLMALSNFALAARNIASQAQMEVLVSALD
DMVEQSQRASEIVQRVRGFINPSRGSYEACDVHAVIAHSLVLLKSELERQ
AVTVTRRLAEHMPSVRGNRVLLEQVLINLLQNALQAMQDLPAAERVIDIE
TMLLGRTVQIRVGDAGPGVPEALLAQVFTPFFSTKPEGLGLGLNICRTIV
EAHGGHLTVANRLGGGAVFAFTLALSV
>Rfer_3572 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MTENLINFQLILTTISDGIVVVDQRGVVLYANESAERLFERGELVGKDLA
VPIHSGETRQDINLIRPSGIGWAELRSAPITWDKQPAFVICVRDITERKT
SDLGLHLADTVFDSTREGLMVTDSAQRIVRINPAFSEITGYSAADVLDQT
PALLRSGRHDSAFYAAMWDSINVSGHWQGEVWNRRKNSEIYPQLISIDVI
RDHTGRVCNYVAVLTDLSKLRSSQLELDFLAHHDPLTRLPNRLLLLSRLQ
HGIELAQRDGTHLALLMLDLDRFKDINDSFGHLVGDELLQLVATRLVKQV
RTIDTVGRFGGDEFSVLMEDVAGAEQAARVANDIIRVLSEPYGLSSGVEV
RIGASVGISIYPDNGLTPELMLQQADSALYQAKIEGRGRFAYFSESLTQA
ARARIDIEVRLRRAITQGELRVYYQPQVDIPSGRIVGAEALVRWQCPIEG
LVPPARFITIAEATGLIGEIDDWVLRETCQQGQRWRAAGLPTLTLAVNLS
AYQFLQGDISQTVAQVLRDTGYPAAFLELELTESALMQREAQAIQMLDRL
KALGVRLAIDDFGTGYSSLAYLKLFPLDVLKIDKRFIDDIPAHRDDMEIV
TAIIAMAHSLRLKVLAEGVENKEQLAYLQTQGCDQFQGYLTSRPVPAAEF
EKLFLSGR
>Rfer_2766 PAS/PAC sensor hybrid histidine kinase
MRILSRPRMPSVLKPKRLLRGRATGQKQTVLARGYSLAKMVEDLRNYQAE
LEIQNKALRYSQIAAEGASERFLTLFSNVPLALLVVDENGLVLESNAMAL
RLFRPLESDPPLNFLLPLVNSEYLDKVAQAFVSAKMVGTNETTEVVFSSG
FSGVFTGDLHIARIENFQDDLAQFICAVIDQSPLLAQRQALQLSAAELQQ
RNEELQLSKNRLASIINSSLDAIICIDQNYLITIFNPTAAALFQCPSSQA
LGSQLTRFLPDAVQTLSYNKLTTHAQLGEMTGLTASGNSVSIEVSVSFEL
HPEGDTTTIFARDLTSRKKIEAHRNALESQLRESQKMQAVGTMAGGIAHD
FNNIIGAILGNVELAKQDAGARSPALVSLSEIDKAGRRARDLVRQILTFS
RNESPQRIPIQLADVVQETVHLLKVTLPPLVDMQVRIDPSTPLVLADATQ
VEQALLNLCTNAIHAIGPRRGTLSIELGHKLTADLGRIERRGGVRGQHVK
LVVRDTGSGIDAQTLQRIFEPFFTTKPVGQGTGLGLAVVHGIMRTHQGTV
DVKSTPDTGSVFTLYFPVADLAALPETPHAAKLSEPQSVRGGGKRVMYVD
DDEALVFLVQRVLKRKGFVVSTFTDPRLAAAALRARPLDFDLLVTDYNMP
GYSGIELLRETRLIRPDLPVALASGYVTAEIEQSALSAGARALIHKPNDV
DELCETVQRLLQSVDAR
>Rfer_2742 periplasmic sensor signal transduction histidine kinase
MRSISLRVKISLYLFIVLSAVAVLFTLVFVEHREEELQSEISRHVTQISD
VIIASTRSSMLVNERDIAGKIIEDIGKQKGIERVRVIDKDGTIIHSNRTS
EVGYSVEQQDEPCVQCHKTSTPLEQVSDDKRWKVIEMPGGHRVLGTMQAI
RNEPSCSSASCHEHSASQSVLGIVDVAYSLDEIDQSRKTHTIHMIGMAAG
FILIFAVSIGVLLQRFIYVPLKDMDSGAKQIAAGRLDQNIPVRSDDEFGR
VAASFNHMTEALKASRSEMQDMLHTLESKVTERTRELLAAKAEVAQGEKL
ASIGVLASGIAHELNNPLTGVLTFTSLMRKKAADGSEDAADLDLVIRETK
RCASIIRRLLDFAREKVPVKGFFNLNLVIEDTVRFVERPASLQQIEITTA
LDPALPQVWGDADLIKQVILNLLVNAQQAIEGKGNIKVASRLYPGMASDK
PGVDTLPMVEISVTDTGCGIPPANLERIFDPFFTSKEVGKGTGLGLSVSY
GIVKAHGGKINVESVVGEGTTFYVLLPITSPFDETESQAAEITP
>Rfer_4055 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MTGSEGNSGIPATVSARQSLKTKVTLITLLVFVLSLWSLSYYASRMLRQD
MERLLGEQQFATVSQVAAQLNQALQARVSALETVARAISPALLDKPQALQ
VFLEQQIILKTLFNAGVHVLGPDGGVLGLVPEASRVGADYFQNPTVQAAL
SEGKTSIGAPTHEVLLKQPVFPVITLIRDAGGRVIGALAGVTNLDQPSFL
DMISQSRYGKTGGYVLIAAQQRRVLAATDKSRVMEVLPAPGGNPAIDRFL
QGEEGSTVMRNPLGLEILASDKSLPAAGWVLAAVLPTAEAFAPVRAMQQR
MLLATSLLTLLAGLVVWWTIKRQLAPLLATARRLAAMADEKQALRALPVT
HPDEIGQVVKGFNRLLGTLGQREALLQQILDTSSVAIFLVDRQGRITKAN
QRMATLFGYPLHELQGMEYVALVHPAQRETGRKNMLALLDSALQSVDLER
LYWRADQTEFWGHLTGQRFVDGNGEEQGLVGVIADITQRRQTEAELRIAA
IAFESEQGMAITDPQGVMLRVNRAFSAITGYSAPEAVGQNPRLLSSGRHD
AAFYAAMWDSLVREGAWQGEIWNRRKNGEVFPEWLTISAVKDPAGQATHY
VATFTDLSTRKSAEDQIKSLAFYDTLTGLPNRRLLLDRLKQALASGARHR
RQGALLYIDLDDFKTLNNTYGHDVGDQLLQEVAQRLSHYLRAGDTVARPG
GDSFVVLLEALSTNSVEAATEAENTGEKIRLALSQPYQIADHAHRSTASI
GVTLFDDRQQEGIDEPLKRAELAMYQAKTAGRNTLRFFDPQMQTAVMAMA
ALEADLREAVRSNQFLLYYQAQVSGERQVAGVEALVRWQHPVRGLVPPAE
FIPLAEQTGLILPLGQWVLETACAQLAAWASQPERAHLTVAVNVSALQFH
QADFVAQVLAALKRAGANPQRLKLELTESLLVHDAEDVIAKMITLKEQGV
GFSLDDFGTGYSSLSYLKRLPLNQLKIDQGFVRDILHDANDAAIAKMVVA
LADTLGLSVIAEGVETEAQRDFLAAQGCHAYQGHLYSRALPIDAFEAFMR
QV
>Rfer_0489 HD-GYP domain-like
MDYVMLPVARLKLGNTLPIDVWAPDGRLLLRRGQAILSEQQREMLHAHQA
CMTASDARAWQKSYERLINTLLQRGADLDAIMRAELPSELVETDYLSGAQ
VLGGWLDLQEILRGLLYQGEAAINPLPRLAGTESRALELLRADPDECLFI
LFQALADISLGYCATHALLSAVVCALTAEKLDMAAAAGGSLFRAALVMNI
GMAREQDKLAMQSSLPTEAQRVLVREHPCKSVELLRLMGVSDEDQLDIVR
WHHEVNESHGLAHNVMARRLLRLADGFVAKMAARKTRLAMSPLGAAKSVF
LGATPDTASIGSAMATALGFYPPGTYVQLFNGEKAVVVARGLRANQPQVV
SIVNAGGMPVSKYLYRETSNPRFAIRTPINAERIKVKVSLEKVQKARKEH
TD
>Rfer_0504 periplasmic sensor signal transduction histidine kinase
MRTARRLKSLQARLLAPLLGLLTVVWLGAAVMIWFDASHELDELLDGHLA
QAAALLIMQQAHAHEADSVEDAPSLHKYAPKVVFQVFHEGRLVLSSANAG
TAPIAGNAQGFSTVRLADDAQWRVFATRGAEHDVQVYVGEQTESRDSILL
AVLQGVLLPLVIALPLLALVGWWAVRQGLAPLRHLSRVLAQRRPQAMEPL
LVPDLSTEMVPVVQALNGLFERIEQMLVSERRFTADAAHELRTPIAAIRA
QAQVALGAGHDAAQRDHALQFTLAGCDRATHLVEQLLTLARLEAAPASAA
DAVARVDLSALARRVAADLAPTALARGQTLQLEAPTACQVAGDEALIGVL
VRNLVDNALRYSPNQAQVWVSVAMESGQAVLRVQDSGAGMTEPEIARLGE
RFYRVLGSDQPGSGLGWSIVKRIATVFGAQVQVSRSERLGGLAVTVRWRR
>Rfer_2786 two component, sigma54 specific, transcriptional regulator, Fis family
MSDLPDDPVTPPAAALRAPGPHLLVVDDDADMLRLLTIRLTAAGYRVTAV
TSAEAAMTQLHIERPQLVLSDVRLPGRDGLALFDDIRAQHPSLPVILLTA
HGTIPDAVQATERGVFSYLTKPFDGKSLLDKIAQALSLSAPAHSVKPGSP
QAWQNQIVSRSSRMAEVLAEAHMVAQSDASVLLRGESGTGKELLARAIHQ
AGSRAGKPFIAVNCGAIPEPLLESELFGHVKGAFTGAVANHIGLFQAADG
GTLLLDEIGDMPPALQVKLLRVLQERMVRPLGSSQSIPVDVRIISATHRD
LDLAMAEGQFRADLYYRLNVVTLSLPPLSERREDIALLANYFLVKLADKY
KKRLSGFAPEALIALTTAAWPGNVRQLYNVVEQVCALSTSPLVPLALVQR
ALRSPSVEVLTLAEARQRFERDYLVGLLKLTDGNVADAARLADRNRTEFY
RLMQKHGLTPGLFKADSNGPASPPAAS
>Rfer_0469 diguanylate cyclase/phosphodiesterase
MCDHSLSYCPDTLAAHDPDPSRELGPALVQANLPDTAEKLGLFGRWWCEP
QTGQWVLSTGAASLLDVGAGLHPTGHSCFEQVVPDDVLRLMAGLREPGQA
IACEFRIINEFDGLRWLRMVSEPHLAPGQALQTGVVVDVTSSRLAAMRER
FCFESTQFLIGTPTLGEAVTKVIQLVCDNLGWECGAYWSLEQSQMGEHRL
ACQHEWHQPDCPLASFIADTAAIRLAPGEDLVGNVWRTMQPAWVEDMVND
QDFVRRKSAHACGLQSGYAFAVSYVTVGGRRHSHGVLEFYSSLSRQREAQ
LPGLAATIGELIAQTVQRLEQQELIRQLAQVDDLTGLANRKHFHHLLDAA
CLSATASSTSFAVLNIDLDRFKQINDAFGHEAGNLVLHEFAQRLQRLGPA
GSALGRLGGDEFALLVTPAGSAAQLQALGERVLLAARQPFLFERQELTMS
ASVGISIFPDDGWTGSELMRCADAAMYRRKHGGRNGLSFFSSGTSGTLAE
QRSALARQLTMEAELQRALVNHEFFLAYQPVFGRDAEHMVAVEALIRWRR
PGGDVVPPDLFIPVAEQSGLIVQIGRWVVKQACHDLAQLHRAGFTDLQVN
VNMAAPEFVNPNLPGELMAVLQACGVAPRHLCLELTEGLVMKQPDKVIPV
MVALRQLGCKVSLDDFGMGHSSLSRMKMLPISSLKIDRSFVSGLPDDRGD
AAIVRTILDLGRHMKLQVIAEGVETDAQLLFLRQFGCTLIQGFLLGRPKT
VPELMAAHPQTTRD
>Rfer_3120 two component transcriptional regulator, winged helix family
MICHDFWTTSQQLLAMRILVVEDNTELAQWLGRTLRKEQYTVDCIDNGAD
ADFALKSEKYNLIILDLALPKLDGKEVLRRLRARDDQTPVLILTANNTIQ
SRVSKLDQGADDYMAKPFEIEELEARIRMLLRRSSGQASPLIACGDLSYN
TNTREFHISQQLLALTPRERAVLEMLLRKSGTTVTKHALAQSLFSLSEDA
STDAIEIYVHRLRKKLEHSSAQIMTLRGLGYLLRPAGNE
>Rfer_1869 two component transcriptional regulator, LuxR family
MQTVSPQPIRILVVDDHTLFRRGLTALLARDPQLCVIGDAADAGQALRKA
QEMQPDLILLDNHLPGVNGVDALPALREAAPNTVILMLTVSEDENDLAAA
LRGGAAGYLLKTIEGDALTAAIVRAMQGDSVVAPEMMNKLVAAYRGTSKE
VPGIGTAQPPAVSAGPAMASLSPRERDILRGIARGASNKEIGREHGIAET
TVKIHVQHILRKLDVSSRVHAAVIATEQGLL
>Rfer_1908 PhoH-like protein
MPLPPAPAKRAALLSERDYDVPVARLPQTRKTASPLAEPGLTETPQARVA
SEVTPASGQAPAAALADRSASRTRTPRTSPSARKTRPESDVQVQTPLFAP
VPAPVPASTRTQPPADIKPKKTKHNGAAKLFVLDTNVLLHDPMCLFRFEE
HDIFLPMIVLEELDAHKKGTTEVARNARQTSRSLDALAGHQGTDIASGLP
LNATGHREASGKLFFQTQLLDYTLPTSLPQGKADNQILGVVEALRQQQAR
QHKELSTSAPEGAARPVAHEVVLVSKDINMRVKARALGLATDDYQNDKTL
DDGDLLYSGAIALPANFWTSQAKTVESWQQGAYTFYRISGPIVASLLINQ
FVYFESPGEPSLYARVTEIRGKTAVFKTLKDYTHLKHAVWGVTSRNREQN
FALNILMDPEIDFVTLTGQAGTGKTLMALASGLTQVLDDRRYTEIIVTRA
TVSVGEDIGFLPGTEEEKMGPWMGALDDNLEVLGKTDTSAGEWGRAATSE
LIRSRIKIKSMNFMRGRTFLNKYVIIDEAQNLTPKQMKTLITRAGPGTKI
ICMGNIAQIDTPYLTEGSSGLTYAVDRFKGWAHGGHITLARGERSRLADF
ASEVL
>Rfer_0022 transcriptional regulator, Crp/Fnr family
MLCQPQARAAANVMMATALRPTELYPALAQVQPSLAELGPGAAPMSVPAG
TVLFSENTPCQGFPLVLGGEIKVSRSSGDGRALELYRVVAGELCLVSSSC
LFRSQPLSAHGITTQASTLMLIAPDIFRRWLETPAFRNEVLGLFAERMAD
LTSLIDAVAFHKLDRRLAAALLGHGQQRKVTHQMLADELGTVREIVTRLL
RRFEREGWVTLGREQIQIVDGAALRALGN
>Rfer_3096 periplasmic sensor signal transduction histidine kinase
MRLFDLSLRFKLPLWGGGLILATALAVSTSFVVQAWDNLNHDLLQNAEDI
GRTMAPSLFPAILHDNVWGAFEIVSLPFSANPETALYESLIVVDNDKKIY
VSSRPQEHPVLSELARLGPEYQTLSEDLPLAPDAGIFTVSMRGAQRIFVA
VPIANDGVRLGTLIVSYNKSLLWQRFQIVLVRSIWITLLALAVLLPITAY
WGRRMMLPMRLVTERISRIGSGDLEALDPALYPYKDEVGQLFLAYETVLT
KLREKAEFEKEMLKSERMAAVGRLTASIAHEINNPLGGMLNAISTLKRHG
NPDPVTQKTVSLLERGLSQIRETVAALLVEAKVKSRPLDAADLEDIHILV
TPAANKQGAHLSWVAALPHALSLPSTLVRQMLINLLLNAITAAGRDGLVA
VRILASESQLVMVVENSGRPLLPEQLARLFEPFTSFSESGNGLGLWICYQ
IVTQLGGTISAESNTELTRFTILIPLNPQSDANPTQNLPD
>Rfer_1647 putative transcriptional regulator, Crp/Fnr family
MDAAINRNQNHLLAALPAVEFGRIAPELELVAMLQGEVLYESGQALQYVY
FPTSAIVSLNCVTESGATSDIAWVGCEGVIGTALVMGCHATPTAAVVCVG
GYGYRLKEQMLMQELRRTGGRRAGVMQHLLLRYTQALMTQLSQTAVCNRH
HSVEQQLCRWLLSTLDRLPSNELTMTHEHIACMLGVRREGITEAAGHLQQ
AGLIRYYRGHITVLDRAGLETHVCECYAVVKKEHQRLLHDVGERAELFPS
QSPQIFHLASDFA
>Rfer_1983 diguanylate cyclase/phosphodiesterase with PAS/PAC and GAF sensor(s)
MDLNIFQSHSLKARVTLFSLTIFVLSIWALALFASRMLRADMQQQLGDQQ
LASVTGVAAGISHKLEERLVALDQVAERMDPALLRHDAALQEFLEAQPVF
RGLFNAGVIVTTLDGTVSHAVPFAKERIGVTTLAIGAIAAALRQGRTTVG
QPVMDKALPAPLITMAAPIRNPQGQVIGALAGMINLTLPNLLDPISQGRY
GKTGSYLLVARPARMVITNTDKKRVMEAAPAPGVNRLIDRFMQGYEGSAI
FVDPFEVETLTSAKGITLADWYVAAALPTAEAFAPIDAMQRRIVLATVLL
TLLAGGLTWWMLRRQLAPLLATAETLVALPTAQTFPIALPVAHPDEIGHL
IDGFNHLLAHLHQRETLLKQILDTSSAAIFVIDSQGRITQANQRMAEMFG
CPLDTLIGHDYVSLVHPAERNVGQQNMLALLANKVSSSDLERLYWRADES
EFWGHLACRGFHDASTHQHCFVGVITDITERIQVGKFEQLRSRILELLAS
GEPLPLILEALVRGVEQLNPTMLCSILLLSGDGQHLGQGVAPSLPDFYNA
AIDGIEIGAGAGSCGTSAFTAERVIVSDIATHVYWQRYKELAARADLGAC
WSQPILSSLGQVLGTFASYHHTTHTPTSAEIASVERFARIAAIVIEGQAA
AKKMRDSEERFRTLIEESPAAILVHRELRIIYLNPAAIAMFGARTAQELV
GKALLDLIHPDSHQVATARVRHITNTGHAAPLIDEKYLRLDGTPIDVEVQ
STSIIYEGLAAIRTAFRDISERKLAHDKLQLAANVFSHAREGIAITDARA
TIIDVNEAFCRITGYSRDEVLGQNPRVLGSGRQDKAFYAAMWHDLGEQGH
WYGEIWNRRKNGELYPEMLTISAVRTDQGQVQNYVALFSDISAIKAHQHE
LEHIAHFDALTNLPNRVLLADRLQQAMAQAQRRGQMLALAYLDLDGFKAI
NDRHGHEAGDLLLMTVATRMKQTLREGDTLARIGGDEFVAVLLDLSDSKA
SAPMLSRLLAAAAEPVRLGDLALQVSASLGVTFYPQVDEMEADQLLRQAD
QAMYQAKLAGKNRYHFFDAAQDRSARGHHESLERIRQALDRREFVLYYQP
KVNMRTGAVIGAEALIRWQHPEKGLLAPALFLPVIEDHPLAVDIGEWVIA
TALIQNELWQADGLDMPISVNVGARQLQQADFVPRLRELLAAQPGVKPFQ
LEIEVLETSALEDWVGVSQSIEECREMGVLFALDDFGTGYSSLTYLKRLQ
VDLLKIDQSFVRDMLDDPDDMAILQGVIGLAGAFRRNVIAEGVETIAHGT
LLLQLGCDLGQGFGIARPMPADLFPAWAASWQRDAAWVAAGGTDHPSLMA
TLQ
>Rfer_2038 periplasmic sensor hybrid histidine kinase
MKLGGIRHRMLLAAVLPVALIAVLLAAVFLFTRFDDINAAHRQRARSLAR
QLATASEYGLFSDNVSQLRTLAGGALREADVRSVAIVNAQGKVLAHAGKP
SYQTQPLLDRQEREQYEPGADLDLLLQPVAATQVPLDDLYQAQFDTAGGA
GQAMPAPLLLGHVLIEFSRESLNQRARQMLLAGIAITLGGLLFGALLAAR
LGRGVIRPIARVSRLIERIGAGELSARAEVLPGDPLREVQQGLNVMAQRL
ESGRDELEQRIATATQALREKKEEAETATRAKSRFLAAASHDLRQPMHAL
GLFVARLAQLPHDAPTTHLIGNLDASVQALQELLDGLLDVSRLEAQAVQV
QLRPFPLADLFEQLRASLALTAQQKGLRLRVRPTQVWVLSDSALLHRVLL
NLLSNALRYTQTGGVLLACRSGADGQHVRIEVWDSGIGIAPEHQSAVFKE
FYQIGNSERDRNKGQGLGLSIVERSAQLLGYPLQMHSSLGRGTRFSLCVP
VAPPGVALERRSPLRPRNFEDIAGLRVLVIEDDQLVREALVSLLDSWRVE
VAVAEGLAMALALLKSGVAPEVIVADYRLRDGENGIEVIHQLRAAAGQPI
PACLISGDTDATLMQAAALASLTLLQKPVRPAKLRSLLRRLTRSVQADGG
EAV
>Rfer_3391 putative PAS/PAC sensor protein
MKAGMAVHRFLSQGNLLLSIVFAVLIIFLALPHSFAESANQNKLVFLGNK
NIAPVVYQNNMVPAGVVVDIVRALEKYMPQPIEIKTMDWLEAQALVAQGK
ADALIQINPTQERREIYDFSDTLLESQFSIFTTTNRVGISGMSSLRGLRV
GVEAGGLPQQLLGKDPQILLTIIPNFIEGFKQLNAATVDAVVVDYRVGSY
IIAENKIQNIRVTGEPVAFSYSSIAVKKGNEKLLSAINNGLKSIKADGSY
QTVINNWKPKEVVFQTREQITQRIYYVSVITLFILFLIAATWTMTLKKQL
LRRKAAEERLGEQYSTLSSIINSANALIFSLDRQYRYTSFNQGHADVMKA
LYGAQIEQGHSLLDYMTVPQDRETAQHNIDRAIAGEQVVEESYSGDELRS
RQYFQVSHSPIKSGEDVIGVAVLAQDMSARKRSQLAQELNSQRMQMLLQL
NQMAGATLKEIEDFTLEEAVRLTQSKIGYLAFVNEDESVLTMPAWSKLAM
AEGVITEEPIVYPVETTGLWGEAVRQRRPVITNDYNAANPLKNDWPRGYV
NLKRHMNVPVFDGARIVIVAGVGNKVEAYDEGDVQQLTLIMEGMWRLLEG
KRSQETLHRLNRELRAISSCNQALLRTQDEQTLLNDICHIVCDEAGYRMA
WVGYAEHDAGKTVRPAAWGGFDSGYIADAKLSWAEDTPRGQGPAGVAIRS
AEIVYFQDLANDPSMAPWRESALQHGYRSGIALPLKNEGAEVFGVLLIYS
AEINAFSPAEIRLLQELSGDLAFGITVLRARLERTRAEEALKNMAMKFRT
IYESTSDAIMLIDEQGIFDCNAATLRIFACQARDDLVGKQPSQLSPPTQP
GGEESMQLANEYIATAYRNGSHQFEWTHRRLDGAQFPADVLLTAMELGGK
PVLQATVRDITRRKQDELALARANRALRTLSACNEALVRATNESGLLDAI
CRLIVETGGYRMAWVGFPEQNAAKTVRPAAHYGYDEGFLAEAPISWADIE
PGRGPTGTAIRTGTVQVNQNFLLNPASAPWGDEAQSRGYQSNIALPLTSE
AGTLGVLTIFAAAPDAFNETEVILLKELASDLAFGIATLRTRAERDRIAY
EHQHHEDILRQSLEDSIKAIADTVEMRDPYTAGHQRRVGQLAVAIARELG
LPEDTMRGIELAASIHDLGKISIPAEILAKPIKLTAIEYMLLKNHPQAGF
DILKDIRFPWPIATMVLQHHERLDGSGYPQGLQGEQILLESRIMAVADVV
EAMASHRPYRAALGVDAALAEIGRGRGVIYDTLAVDACLRLFAEKRFSFS
S
>Rfer_3149 (p)ppGpp synthetase I (GTP pyrophosphokinase), SpoT/RelA
MADLPSPAAVNAAAASFAGLTAKLDYLSASDLAQVRLAYRYADQAHLGQL
RNSGEPYITHPIAVAAQCADWKLDAQALMAALLHDALEDCCVTKIELIER
FGSPVAELVDGLTKLDKLHFSTREENQAESFRKMLLAMARDVRVILIKLA
DRTHNMRTLSDAPRDKWARIATETLDIYAPIAHRLGLNQTYRELQNLAFR
YLRPWRYAILSKAVAKSRGRRRDLIQKVQEEVDTAFANSGMDVRIAGREK
TLYSIYKKMEEKHLTFAQVTDIYGFRILVPSVIDCYTALGTLHQLYKPVP
GKFKDHIAIGKLNGYQSLHTTLVGPSGVNVEFQIRTEAMHLVAESGVAAH
WLYKVNTPQGTGTGDWLGSKWLQSLLDIEDETRDAAEFWDHVKVDLFPDA
VYVFTPKSQIMALPKGATVVDFAYAIHSNVGDRTLAARINGEQVPLRTEI
KNGDVIEIVTAPGAAPNPAWLGFVRTARARSKIRQHLKTLAQTESEDLGE
KMLAQALRAEGIEKLPDDTGSNRLLWEKLLRFTGNKSMSELFLDLGLGKR
IASIVAKRLLTLLTDRGEKPDALLLTRERYTTNEAVAQGGVVLDGSENAS
IRFAPCCGPVPGDAIVGYLGRGEGLLVHAADCAVAQKLKLNDSERFIDVQ
WSDDPVRPFETEVRVTVVNGRGVLARVAAALAAAEVDITHIDMEDEAAQD
ATDLRFVIAVRDSKQLETALGNLRRTHAVLKAQRSKVTQ
>Rfer_0423 heavy metal sensor signal transduction histidine kinase
MIGRTSITRRLALLFVTASSAVLLALGFVIATSVEKHFEQQDMEVLSGKM
ELARHALKTFKSQDDLDRISQLLDNSLVGHHGLELIVFGPNHALLYATPN
ANFPFDMMAARAAQSPHRPMTWLLGDQTYRGIAAELPTGISERSRVVVAV
ALDIAHHQAFMRSFQQTLWFFVAGAALLTGLLGWLIARRGLAPLRAMREQ
AQVVTAQQLSHRLQVETVPVELAELAQSLNDMLARLEDAFHRISDFSSDI
AHELRTPVSNLMTQTQVVLSRARDADEYRSILESNAEEFERMARMISDML
LLAKADNGLVVPSRETLHVAAEVLALFDYYDAGAEERGLGLSVEGDGEVS
ADRLMLRRALGNLLSNAVRHSTAHTTVRVRVHTDQDAVSIGMENTGDGIA
QEHLERVFDRFFRVDPSRQRSTEGTGLGLAITKSIVVAHGGTITVASIGK
VTTFTIRLPRVP
>Rfer_0899 response regulator receiver domain protein
MAKTIMIVDDSSSMRMVVTIALKGAGYNVLEGRDGQDALAKLNGQKVHLI
ISDVNMPVMDGISFVKAVKQLPAYKFTPIIMLTTESEESKKREGQAAGAK
AWVVKPFKPEQLLGAVQKLCLP
>Rfer_3013 MCP methyltransferase, CheR-type
MNRNGLAPRERPFSIVGIGASAGGLVALEQFFSQVPPDSGLAYVIVQHLD
PKREGMLVELLQRHTPLPVAEVQDQTLVEPNHVYVIPPGRDLSLLKGVLH
LMVPPELRGLRLPIDFFFKSLADDQQQNSIGVILSGMGSDGTQGLRAIRQ
AAGACFVQTPASAQFDSMPRSALDAGVADVVAPAEELPLKIMAYAGRSQL
AVAADVRLQSDQKDDGFLDKVIVLLRNQTGHDFSFYKRSTILRRVERRMG
LHQLPHVSEYLRYLRENPDESELLFNELLIGVTSFFRDSSVWNQLKNEVL
PVLLARHPQGAALRAWVPGCSTGEEAYSLAMVFKEALELAKPEPRFTLQI
FASDLDRDAIATARNGIYPRSIAADVSEERLARFFVEDAAGYRINNEIRE
MVIFAEHNLVVDPPFTKLDLLSCRNLLIYLEAELQATLMQLFHYSLGAGG
FLLLGSAESIGAATELFAPLPGKSRLYRRLDAPDRALRVGVPAAFMQAHG
KSGAGAAALTSDGSATTPSLKVLVETLVLQRYAPAAVLVTEKGDALYFSG
KTGGYLEPAAGKPSLNLFAMARDGLNQALSEAFHRALRDKTLATRKNIKI
NSETGVQYVDVIVQPLQEPAALRGLALIVFFDVPKPRHRLSQAKGVDLAI
DGTQVETLLQALRQSREDAKSMREEMQTTQEELRSSNEELQSLNEELQSA
NEELTTSKEEMQSMNEELQTVNYELQAKVADLARASNDMKNLLDSTEIAT
LFLDDALHVRRFTPQTTRVIKLIPGDMGRPITDIVSDLVYPELVQDAHDV
LRTLVFCEKDVPTVDDRWYKVRTMPYRTQENRIDGLVITFSDISKSKKLE
AELRATQARLAAQPDNSKPQGNGDGIS
>Rfer_0629 UspA
MTILVAYVPRPEGQAALDKGIEIAQRRNEKLVVVNASPGGKKEDASFADV
QDFERVQQLLENTGLDAEVKQFVRGKNAVEEIEALIESLPASLLVIGMRK
RSPVGKLIMGSVAQELLLSVSCPVLAVKSAG
>Rfer_1767 response regulator receiver modulated diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MNETHPIQSEKPLLLLVDDLAANLHVLVAGLKADFRLKTAISGASALALL
AQQADQPKLVVLDVKMPGMSGIEVLRRMRDDPHTSDIPVILLSADASEQS
EIAGLHLGANDYLVKPVSTNVLIVRVRNLIQRNADRIQLRLAAHVFEYSG
EAIMITDRDNQIVDVNAAFTTLTGYHKSEVLSKNPKFLSSGRTTRKEYQA
MWAAIRTGGFWQGEFWDRRKDGSVFPKMMTVSVVLDRAGDIDFYLANFVD
VSHYKETERRIEHLAHHDTLTGLPNRLHLQVFLEQSILIAKRMSEQLAVV
FLDLDRFKTINDTLGHPVGDDLLIQVADRLKTSVRQYDMVARLGGDEFVM
ILRGHDMPSVASAVAEKIRLHLNQPFQIGQHTLRTATSIGIALYPGNGER
MDDLMKHADTAMYFTKSEGGNGFCFFSSDMNLHAHEKLELENLLHGALEN
QQFELYYQPQLSLPEQQVIGAEVLLRWHHPEKGFISPAVFIPLAEATNQI
GAIGEWVLENACRQASQWLRDGLPLPRIGVNVSGRQFQDKNLFTLVKRVL
AETGLPADRLELEITETAVTASPDEAARLLQSLRECGIMVALDDFGQGYS
SLGQLRDLPIDRLKIDAAFVRDITDEPGHPGGAIAAATIGLGHNLGFSVI
AEGVETQAQLSFLMAHGCDEVQGYYFAKPMPREQFEAFLRARMEAGTVGR
NLPLTPEPRMILTAAK
>Rfer_1135 two component transcriptional regulator, LuxR family
MHKETVFIVDDDASIRDSLSLLLSLRGFATALFANAEDFLAALQPDWRGC
VVVDIRMPGMSGLELQRCLRERGPSLPVIVITAHGDVAAARQAFLADAVD
FIEKPFDGKQLLGAIENALSGFRALDTAQARAAFTKPTLGQLSIREREVM
TLMVKGLHNRRIAETLGISPRTVEVHKARVMEKLGAQNIVDLVRLVDKGL
T
>Rfer_3082 two component transcriptional regulator, LuxR family
MHKETVFIVDDDASIRDSLSLLLSLRGYATALFANAEDFLAALQPDWRGC
VVVDIRMPGMSGLELQRCLRERGPSLPVIVITAHGDVAAARQAFLADAVD
FIEKPFDGKQLLGAIENALSGFRALDIAQARAAFTKPTLGQLSIREREVM
TLMVKGLHNRRIAETLGISPRTVEVHKARVMEKLGAQNIVDLVRLVDKGL
T
>Rfer_1872 response regulator receiver domain protein
MQQLKTYIVEDNPVIRESLIVTLEELAPVKVVGTAVDEFTAVQWMSQPGN
QADLVIVDIFLKAGSGLGVLRAASGLTPRQRLVVLSNYATADIRRKCLEL
GADRVFDKSNEIDALIEYCAQLPVDPGDGSSQPGPGTSA
>Rfer_2210 two component transcriptional regulator, LuxR family
MSLIPKKGTVYVVDDDEAVRDSLQWLLEGKDYRVRCFESGESFLSRYDAR
EVACLIVDIRMGGMTGLELQSRLLESHSPLPIVFITGHGDVPMAVDTMKK
GAMDFIQKPFKEDQLVTLVERMLEQAKDTFADHQSAASRDALMARLTLRE
AQVLERIVAGRLNKQIADDLGISIKTVEAHRANIMEKLNANTVADLLKIA
LGQTPAKA
>Rfer_1825 response regulator receiver modulated diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MNKPIKVLIVEDSEDDAILALRALHRGGFDPTHQRVQTAAGLQAALAQER
WDAVISDFSMPGFTGLEALEIFRSAGLDIPFILISGTIGEATAVAAMKAG
ASDYMMKSSLARLAPALERELKEAQIRAANQRAQAALIDSEERFRQMAEN
IRDVFFLADVEDERILYVSPAYEEIWGRSSESLYANPQSWTEAVHPDDRA
SAYEKYGQIVSAGKTEFEFRMVRPDDSIRWIKVRGFPVRDDADKIVRIAG
IATDVTDQKTDAEKIKTAQDRITHLNRVYAVLSGINTLIVRVRNRDELFK
EACRIAVEEGGFRMAMIATVHHSTTQIVPVATAGKDDELMTAINNILSSS
EHAPKTMSARAIRDKKAVVSNAAQNDPQVLFSAKYIKAGVHSMAVFPLIV
SDEAVGVLALYASETEFFKEEELKLLSELAGDVAFAIDHIEKQERLNYLV
YYDVLTGLANRSLFLERVAQAMRSAVRSGDKLALFLIDLERFKNINDSLG
RPAGDTLLRLVAEWLTSKVGDANLLARVGADLFAVVLPEVKQDGEVARAL
DQLMAAFLEHPFRLNDAVFRISAKVGIALFPYDGADSDTLFKNAESALNK
AKTSGERYLFYTQKMTDMAAGKLTLENQLRQALDKGEFVLHYQPKVNLAS
GKMTSAEALIRWNDPRTGLVPPGRFIPILEETGLIHEVGRWALRQAIKDA
LRWRSAGLAAVRIAVNVSPLQLRHRGFIDEIRQAISIDAHAAAGLELEIT
ESLLMENVQHSITSLHAIRDMGVTLAIDDFGTGFSSLSYLSKLPVDTLKI
DRSFVIEMTDAPESLALVSTIISLAHALKLKVVAEGVETEEQSRLLQVLN
CDEIQGFLFSKPVPSDIFEAKYLALPSSP
>Rfer_3626 diguanylate cyclase with PAS/PAC sensor
MFLQRFQPQSLKTRVTLLTLLIVVLSFLSLASYMKGLLREELLRFTGEQQ
RSALNLLTAEVNHGLQDRLDILKTVASRVSPTQVDDQAAMNAFLLERPFL
AGLFNSGAMIWNRQGVLQANMQFLKDGLVANALDPQELATVLKDGEAVIG
RIHFHSKPNAPAFAMAVPIRNLQGEVIGALAGVIRLDQANFLSQLASHRY
GKTGNFFLLDARQRLIFATSDTPRLMEVLPAPGISPWIDRFVQGFEGTAR
VVNPHGVEVLVSIRQIPLAHWYASVTLAPEETFALIEAIQPRGRLAALVL
ALFCLTLIWLMLRRQLAPMTAAVNTLDGFVRHNQPPQALPVVRQDEIGQL
VGGFNRLLDTLAQQKKVLQDSEIFKQAVLNSVTAEIAVLNRNGVILTVND
AWRRCSQACAAELGQSASSTEVGANYLAACQSVEADPAASGTLSAQDGIQ
AVLDGRSPRFYLEYTCHSSQQQRWFSMSVTPLQGEALQGAVVSLEDISER
IQMEKQVRDLAFYDPLTHLPNRRLALERLTQQLVRARRAQTRLALLFIDL
DKFKPINDALGHEVGDWVLHAVAQRIQACLRESDTAARLGGDEFVVLLPD
LQTSDAALAVAEKIRAALAQDFVTTQGLVLSISSSIGVALYPDHGETEKD
LLRLGDEAMYRAKKSGCNAVQLCVKPLSAPAPEACDPAPKSHVHLRWKAA
FASGNPVIDQEHETLFRLANTLLDEAALRRQQPAAFEAAFEALLAHVVEH
FAHEEAILLAHGFAGMADHARQHQVLLARAHALHLSALAADAGDATEGEL
VKFLVTELVAGHMLHTDSAFFPLFATPGVQTLAAPKFSGI
>Rfer_0751 PTS IIA-like nitrogen-regulatory protein PtsN
MNRLAAILPLAQVLVQVDATSKKRAFEEAGLLFENLHGLSRSLVTDSLFS
RERLGSTGLGHGVAIPHGRIKGLKLPMAAVLQLTRPIGFDAPDEQPVNLL
IFLLVPESATQKHLEILSEIAEMLSDATLREKMALSASAEELHGFIVKWQ
SAQVV
>Rfer_2453 histidine kinase internal protein
MFTEINHLVLVGDLMQQMCVYLVVAYLLSKTPLFAPLMQVTVRLPDKLVC
YFVFSGFCIMGTYLGFQIEGAIANTRAIGAVLGGLLGGPLVGFAVGLTGG
LHRYSLGGFSASACAVSTITEGIIGGCVHLYLLRRHQADRLLSPMIAFGT
TLVAELAQMSIILLMAKPFDKAEHLVAQIILPMLLTNSFGAALFMRLILD
RRETLEKYSIAFSAKALRIAERSVGVLMQGFNEQNCARMATIIQEETGVG
AVAITDCEKLLGFVGVGADHHLPGTPIASSHTFYAITHNEVVYADGAAVP
YCCSVSKDCKLGSCLVIPLRGEQNRVFGTIKLYEPTSKFFSSLNRTLGEG
IARLLSNQVLAGKIEEQKRLLTQSEVKLLQAQINPHFLFNALNTLAAVIR
RDPEAARHLVHYLSTFFRKSLKRVGNDATLKDEIEHVDAYLRIELARFPD
RLNVEIAIADELLGLRLPAFSLQPIVENAIKHGISQMLEPGKITISAQLE
NKLLTIFVEDSAGLYQPRPDSDGLGMNLVDRRIKLRYGVAYGVDVTCQPE
SLTRVSICLPIEEELVPC
>Rfer_1372 response regulator receiver domain protein
MAIHKVLIVDDSKTELMFMTNLLQKNGMSVRTAEGADEALRRLAEEKPDL
ILMDVVMPGQNGFQLTRSINRTPEYSDIPIIMCTSKSLETDRVWGMRQGA
RDYITKPVDAAELLVKIKALG
>Rfer_1305 diguanylate cyclase
MIDLHDLRLDDARALLAHDAYGSLPEADESRTQYLQRVIDQLCELSLKDP
LTGLANRRHFRHVLGREIDAVARSGESALLLMMDIDHFKKVNDTYGHLAG
DRVLQAVAKALASCLRPMDTVARYGGEEFTAILPNCPPSFGKIVAERIRA
TVGSLQVLVAPLVSLQVTISIGGAFAPEWVRSTTALWIDRADTQLYRAKS
EGRNRVYIDQQPEIAVSAEERKMLFGHLSIGDPAWLESVSTDAAVGAADG
AMKRVN
>Rfer_1719 diguanylate cyclase
MSTLIEHILKLTDHRDRDLLELTLSKALIDLLPIQRIVIARVMSEEAEQR
WLEVARLDARGGGKVVDPMRVDFLTLARLNDATDRLKCLLGREMIEIAWA
GDEGPRIYMLPLFSDSRKDDAGVIELHSDSTLAAEHLLMVEQLRRIYRNM
YTLLEYSDRDALTGLLNRKSLDDAFYSAVLEELDGLAGEARTAGSPKGLD
QERRHRVPANYWLGSAIVDNFEQVGEKHGHLIAEEVLLLVARVMNNTFRT
YDRLYRFGGEHFGVLMHCPDEALVLAAFERFRVSVEKFNFPKVGRVTVSC
GFTNVLADDSPSSALEKTERAVDFAQRSGGNKVCSHIGLVRRGYFGDAPK
VGAVDIS
>Rfer_3398 periplasmic sensor hybrid histidine kinase
MPCHGGCHAPAVAWKLHHSGVTSDTHPIPHAAASTRARPEALQRITLVRR
DYNGWVASETLEDYALRFTPQRFRKWSEWRVANTAFGAASFLILEAVGAT
LLVQYGFTNAFWAILATGLIIFLAGLPISIYAARYGVDMDLLTRGAGFGY
IGSTLTSLIYASFTFIFFALEAAVMAYALELALGIPPSWGYLICALAVIP
LVTHGVSTISRLQVWTQPVWLLMLVVPFVYVLMRDPGAFSGVVHYIGERG
TGPGFSLPLFGAALTVGIALMTQMGEQADYLRFMPAKTPANRQRWWCSVL
VGGPGWVILGVLKMLGGALLAYLAISHAVPVDRAVDPNQMYLAAYEYVFP
NYGWAVAATALFVVISQLKINVTNAYAGSLAWSNFFSRLTHSHPGRVVWV
VFNTLIAFMLMEMNVFQALGDVLGLYSNIAIAWMMAVVADLVINKPLGLS
PPGIEFKRAHLYDINPVGVGSMALASLLSVTAHLGLFGPMAQAFSALIAL
GTAFVAAPLIAWATQGRYYMARQSAAPAGGAVGEGACKRYQVQRCVICER
QYEGPDMAHCPAYQGAICSLCCTLDARCGDLCKPHASLSSQWSATLRWLL
PRRSWSYLDNGLGYFLLLMGVTVPLLASVFGLLYHQELRALTLSVTDIVQ
LQAPHAALRSGFFKAYMALLVIAGLVAWWVVLAHKSRQVAQEESNRQTHL
LMCEIESHRQTDEALQTARRVAEQARHAADQANQAKSRYISAISHELRTP
LNSILGYAQLMGEDPSIPVHRQQAVSVIKRGGEHLLSLIEGTLDIAHIES
GKLTLNPRPMHFASLMQDIASLFELEAQAKGLSFRYVEGAALPAVVRADE
KRVRQILINLLGNAIKFTQKGQVTFDIRYAREMAVIDIEDTGPGLSPQEL
NRIFEPFTRAHTPGATASGSGLGLTIAKMLTDLMGGELTVTSTPGMGSVF
KVKLFLPEVRVTSGAVGALCLSGSSADMPRSLANKPRHGYAGPRRRVLVV
DNEEADRELLVNLLQPLGFELRTAASGHDCLDLLAAGYQPDVIFMDLAMP
GIDGWETIRRLRALGSTQAQIAIVSANAFDKGLDNDVDMPSEDFILKPVR
HSELLDWLALRLSLTWLDSAAPVAEPAPAPLPVALVYPERPQLDALREVV
SLGFFRGIMNKLDEIEASQTQCTAFVTGMRGLARQFQFETMSQQLNQVIH
EN
>Rfer_2030 diguanylate cyclase/phosphodiesterase
MVTRSYAVRRGCGPLADLMRGTGLYPVYQPIVSLEGGAIYSHEALIRGPQ
GTSLHTPDMLLAAAAHERLNFEFETLCVIAALDQWGTLLQNGRLFVNISA
QVLVQVLKQCGRDALIEMVSGLGVLPRRLVLEITEYERVTDMDYFASVVG
ELRAIGVSIALDDFGDGRSSLRLWSQLKPEIVKIDKYFTKDLSLHADKVK
TIQALQQIAAIFDTALVAEGIETEDDLRVLRDLGISYGQGYLLGRPAALP
REQIEEPAMAVMQDRRVAVFPELRRASNAGSLKRLLVLEAPAVGLDATND
ELASLFMTHTKLHAAAVVDGTRPVGIINRSRFMNEYSRLYYREVWGRKPC
LVHANLEPRLIERDHNVDELIGILTSDDQRYLADGFVVTDNGRYAGLGTG
DQLVRSVTETRIEAARHANPLTFLPGNIPISQHIERLLNSGVDFVACYAD
LNNFKPFNDQYGYWRGDEMIRLVARLAQAHCDPRRDFVGHVGGDDFIILY
QSDDWRVQCEQFIAEFAKRAVELFDPSARAAGGIEAEDRFGVPRFFPLTT
ISIGAVKVARDEYANAEQVASEAARAKHDAKTHNVGLLVRDTLDFSTR
>Rfer_2039 two component transcriptional regulator, LuxR family
MNRLKILVVDDHALVREGLHQVLQGLNEPVEVLEAPDCERAFELAALHPE
LDLVLLDYDLPGMNGLEALKVLGQAHPELPILMLSGMANPQMVRKALASG
AAGFLSKNGHSADLLAAVCLVLAGEVYVPMDLLTPGASPGKSAPQVTPRQ
AEVLALLLDGRSNKEISEALALTDDTTKNHVTALLRAFDVKSRTQLVLAA
SRQGYTASPPSA
>Rfer_3471 diguanylate cyclase
MCQPLRKRPAPSFGLCLSATRCTLMRCMLVFCAIFGLSTSVAALSAPAPI
LLDESNPLVQAWPAVTLLSDPQKKLGIKEVMEARDRFTTPETAYGTLGLR
KDAVWLLVPISVSSQSNGLWVLDIDYPVLNRIDVYLTHDKTLMEQARLGS
LQPQDQRPIRSRSHSFGLKLKAGANYDLYLRIESKGALILPITLSKPSEF
HANALGEQMLQGLLTGLALCLLVYSLAQWLTLGEPLYVKYAILIFGSLLF
SMLQFGVGAQYVWRGNTWMELHTAGLASLIAATGSFLFIEQALEGPDVHP
WISRLMKAGAGFTVFFALCFSFDLIDIYIVTAVISTLGLAPALLGLPGAI
SRARRGDSVGIYFLLAWAAYFVTTAVMVEVIKGRVGVNFWTLHSFQFGAT
FDMLVFMRVLGLRTKALHKAVEHARRERDSLHSLAHTDPLTGLPNRRSLN
ASMADAINHAGPENVVAVYMMDLDGFKQINDQYGHDVGDELLIAVAARLR
ANVRHSDLIARLGGDEFVVISSGLHSVQQARDRADKLLEAFNDPFALSEK
ICRIGLTIGYALAPQDGSDAISLFKRADAAMYAGKNDGKHCARRGDGTVP
ASSHTDWQPLDGSKVTEF
>Rfer_2738 response regulator receiver domain protein
MSALRKILVVDDDPVVGKSFNRVLSQDKGYVVITAENAAEALEKLHEQEY
DLVFTDIKMPGMDGVELAEHVKASRPWTPVVIITGYGTAENEVRAKAAGV
SDFMRKPLSPEMIEESAAHALLQPALTVVPTLQASPVEQSQIEVLEEKSN
FRNIALFLAAPFIGLAYAVMLPLVGTGMLVWMGAQALMKKSRPE
>Rfer_2270 two component transcriptional regulator, winged helix family
MNATLSPAPIGQRCIYILDDDPDLCRLVSGTLREFGFETYECASAAALRN
LLLWRVPDLCIVDLGLPDADGLDVVRELQARFACGVMVLTGRGYLSDRVM
GLELGADDYIVKPFEPRELVARVRSILRRHDKSNSAQAPERSQIAEFSGW
RFLVDSNTLTAPSGQQWTLSSGESHMLLLFLKRPNRILDREQLCGDRDLS
ALDRSVDVRVSRLRRKLESDPEHPKTIRTVYGAGYLLAVEVKWL
>Rfer_0458 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MQPFQQGRFVMPILAKPMRPALVGIVVFLLAGLVAGGLVYRSEQHRRQLA
QSRALAMAADHAQSLQQNLQQALGPAQFEQVVARGYDYVLWRIDPASQQR
QIIAQSAKVPLDAVDFELKVPNAKWTLSVAPTTGWADPQGLSLKVALAAL
FSVLLAYSAKQAGAARVRANELQVDVNAQAVELVALNQRLQSTLDALPDL
LFETDMDGRYLAYHSPRSELLGKTLHRVLPVAVADICLAAVHEANAVGYS
HGKQIQLALPDGAHWFELSASRKPGLPGDAPTFIVLSRDITERKKAEIKI
ERLTKLYAALSQCNQAIVRCSDASELFPIICRDAVNFGGMKMAWIGMLDE
ADQLIKPAASFGSGVEYLEGIEISVDLSGDKGRGPTGTSIREDRPFWCQD
FQHDDATAAWHERGERFGWGASASLPLHLKDRVIGAFTLYAGEACAFDEA
AQNLLLEMALDISFALDRFADERERKIMQDDLRDSEERYRKAFQTSPDAV
NITRLVDGLYVDVNTGFERITGWRHDEVVGKTATELNLWGNPADRMRLVD
ALQSEGRCNNLEATFVKKNGDIFHGLMSAEKVRFKDVDCILSITRDITEK
KLAEAQIQQLAHFDQLTGLPNRSQLHDRFRYALSLAQRHGDQLAIMFLDL
DHFKNINDTLGHSVGDQLLVDVSRRLKAALREEDSLSRLGGDEFILLLPG
TDEAQASQVATKLLAAVAQPCQIEQNELVSTVSIGIALYPNDGQDFETLS
KNADAAMYRVKQASRNDFRFFTQEMQTHSARTLQLVNALRHALPRHEFEL
HFQPQVALQDGHIVGAEALLRWRHPELGMISPAEFIPIAEDSGQILAIGE
WVLRTAVRQLKQWLDAGLRPMVIAVNLSAVQFRHPNLMALVTRILDEAAL
PPEFLELELTEAAAMDDPPAAIAIMNKLDEHGIRMSIDDFGTGYSSLSYL
KKFKVNKLKIDQSFVRDISDDPDDKAIVTAIINLASSLGMHTIAEGVETA
SQLAFLRLQGCDEVQGYYVSKPLPKDQFEAFVRNSIS
>Rfer_1539 two component transcriptional regulator, LuxR family
MTGVYLVDDHQIMREGLRALLEAKGHKVVGESADPTEALADLLRMRPEVL
LLDLNLGERSGFELLAELQRRHLPTRCVVLTMSAQPRQVAEALRMGASGY
VLKGSAVSDLLSAVDAAVRGKKHLGAEVADLALQVFTLKDEDPLSTLSPR
EQQIIIMVVKGASSSQIGTQLHLSPKTVATYRSRLMAKLGVRDVPGLVRL
AVRHKLIDADESTNRSRRATDGALGKVEQQ
>Rfer_3250 diguanylate cyclase/phosphodiesterase with PAS/PAC and Chase sensor(s)
MSWARLSRLPLLILVVSLGVTWLLWNHERQISRNQVRSQFDFALRDAVSR
VEQRIASYEQMLRGVQGLLATTDAADRDKFRDYVSALQLDANFSGIQAIG
LAEWVAASGKDAHLAAMRRLGFADYAIYPLGERENYAPIIQREPYTGNNR
IPTGFDPWSEPVRRLAMEKARDSGMAAISGKVRLTVDSQPDALPGFIMFL
PVYARAQPHDSVALRQAHLSAWVYASFRMNDLMASLYGEQPPGLSVAIYD
GVEPSASTLLYSTSGDAAKPRRAAMAADEYLVVAGRTWTLSMSAKDEFKD
SVGSSAESLIAVAGTGLSLLLALLAWLMATGRDRAVRLAATMTRELRESE
EKFRAIADCTVNLEVWWGLDGRPRWINPSVKDYSGYTVQECLAMPDFAGT
LIHPEDMPRVAPELQKGLQGLRGDDLEFRCVRKDGSVFWLSASWVPIQDA
KGVFTGFRTSGRDVTDRKQAEAELRIAAVAFDSLEGMMMTDASSVILRVN
KAFTEITGYSAEEAVGQTPRLIQSGRHGEDFYRAMWDDIRRKGGWQGEVW
NRRKSGEVYPQLLSISVVKDADGTVTHYIAAHHDISERKNAEERIKELAF
FDQLTGLANRTLLLDRAVQTMAASSRDGSFGALMFIDLDNFKMLNDTLGH
DMGDILLKQVAQRLNTCVRDGDTVARLGGDEFVVKLAGLGTVAGEAAVSA
ETVADKILTALNQTYQLGSVAYHSTPSIGVTLFKGQSVAIEELMKQADLA
MYRAKAASRNTVRFFDPAMESVMMVRAALERDLRQALEEHQFVLHYQAQV
AGDYHLTGAEVLVRWQHPQRGMVWPDDFIPAAEETGLILPLGHWVLQTAC
TQLTIWAARPETADLTVAVNVSAQQFRQPDFVAQVLAVLAATGANPQRLK
LELTESLLVSNVQDLIEKMAALKAKGVGFSLDDFGTGFSSLSYLKRLPLD
QLKIDKSFVRDVLTDPNDAAIAKTIIALAQSLALGVIAEGVETSAQRDFL
AQAGCQAYQGYFFSRPVPLEDFEQLCAAGLRAPAGV
>Rfer_2994 SOS-response transcriptional repressor, LexA
MLGSPKLTARQQQILDLIQNAITLTGSPPTRAEIATELGFRSANAAEEHL
QALARKGAIELVSGTSRGIRLKSEALRSINESRSKQFPLSLPGLSQLMLP
LIGRVAAGSPILAQEHIDQTYYVESSLFQRKPDYLLKVRGMSMRDAGIMD
GDLLAVQSTRDAKNGQIVVARLGDEVTVKRFRRTKDLIELCPENPDYQII
VVEPGEPFEIEGLAVGLIRNTMLM
>Rfer_1982 response regulator receiver modulated diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MTMNPVTRTPDDLAGTSLIRAAGRLVLVYAVFAGLWIWLSDELLAWLVSD
PAEIVQASIFKGWLFVVATSLLLYGLLRRLLRQSLVASMREQEAQAENHR
SQQLLTALIDSSTDAIFAKDLAGRYLLFNHETTRVMGTTPERALGHDDTA
LFPPEQAELIRANDQRVLALNRTTSYEETLETVDGERVFLATKGPLRDSN
GQVIGLFGISRDITDRKRDETRLTLEARRAEALLTLPGAAEIMTESAFMQ
HGQELAEQLTGSQIAFIHLVHDDQETIELVNWSRSTLAQYCTSAFDRHYP
VSQARIWADALRLRTSVVINDYASVMGKHGLPEGHAQLDRLINVPVIDGG
LVRMMAGVGNKPEPYTEADVETVRLIADAVWRIVRQRRAETALHESEQRH
RLLADNASDVIWTMDLKGRFTYVSPSVEKLRGFTSAEVMQQTLAQTLCPS
SIPVATEALGKSMASMAAGLPFIGFRGELEQPCKDGSTVWTEISTNGMRN
EQGDFVGIVGVSRNITERKAQQQQLQLAAQVFAQGREGITVTDARGHIIM
VNRAFSEITGYTQAEVLGQNPRILKSERQSPEFYLDMWTALTTSGHWAGE
MWNRKKDGTVYPEWMAISALRDSQGLTTHYVASFSDLSTAKAAESRIQWL
SQFDTLTGLPNRTLLQDRTALALSMVQRAREPLTMLLVAIDHFGAVNDTL
GHQLGDELLVEMARRLSDSVREQDTVSRMGGKEFVLVLPGTPAMGAAHLA
TELLWKLSRPCSLGMHELTLTASIGIASFPDNGADFDTLFKAVEIAMHRA
QLKGRDTYQFYSDDMYEQVLAHDRLIKALRQAIVLDQLQLVYQPQVDLQT
GQICGVEALLRWQHPELGAVSPGQFIPLAEESGLIIGIGEWVLRRACQDI
RRWLDHGIKVPHVAINASPLQFRDNNLVLQVKAALTESQIDPALIYIEVT
ESALMDDVPRNEAMLKALKDLGIKLSLDDFGTGYSSLSYLKRFPFDQVKI
DQSFVRDIATSQSDSLLVKVIVSMAHGLGMKVIAEGVETEAQCEIMRTSI
CDEIQGYFFCKPISAQAIEELFSEGRQLPAHLLRLQKPQRTLLLVDDEPN
ILASLKRLFRRDGHLILTANSGAEGLELLSRQKVDLIISDQRMPGMTGVE
FLRAAKALYPDTIRIVLSGYTELQSVTDAINEGAVYRFLTKPWEDEPLRE
HINKAFEYKELLEENRQLDVKIRTTNQELIAANRQLGDILQNKRHQIERD
ETSLAIAREALQHMPLPVIGVDDEGLIAFANVAAEHRFADAGALLGIELA
RALPAVDAAIAAAVEGTPCELLIDDTRYLVKWNPMGINSRSRGKIVTLIH
TGPAA
>Rfer_1456 diguanylate cyclase
MNLKAVVLCGLTCVLGLLAPALHASPSSADASFPVFEVSAQTPGRIDVDT
RMGMLTDSTRTLTPDQVMSPKQTWQTITRKSPNFGFTEDAYWFRFQIDNL
ASQDLARFVELPIPFLDDVQLYHYTAGQLKTSYALGDEKPFAQRVLRHQN
FVMPLNLAPGANLIYIRLASSGTIEAPFRIWDPTQFYETNGNEKLLQGMV
IGILLIMIVYNLFVYFSTRDINYLFYIGFVASYLLFHLTLNGYTFAYAWP
NAVRWNSFAISTFMASAELFTCLFADGFLRLSKFSRPAHYLTRALATVSA
LLLALTFVLPYSLTVRVGAALTIPIALTALALGYWRWWRGAKFARFYCLA
WTTVLISLCVLNASKFGLIPSNAWTHNASQIGIVLLVLLLSFTLADRINH
DRMLRVNAQAVALGHERWARASQEALIKTKEDANRELEQRVTARTNDLNR
TLGQLKLANDQLQRLSNMDGLTQIGNRAFFDRALALEHRRADRQKSPLSL
IMIDVDHFKLVNDSYGHMGGDACLRAVAHLLQPRIQRVGDVLARYGGEEF
VILLVNSNQQDSVALAEGFRADIEQLHVPFEGGTIHVTASFGVACGIPDQ
YLSPQELLAHADKALYQAKHDGRNCVRSVATINRVS
>Rfer_2854 two component, sigma54 specific, transcriptional regulator, Fis family
MLPKILVVDDDRYTRTLIEQLMRKSAEVHLAESGELARELFAAIDFNLVL
MDQRLPQVKGLDLLREFRLQRPKLVAILITGHADVRDAVAAVREGLFDYL
TKPFEDLEALEAVIGKALELDRAYREIDSLRTRLAVESGAPDIIGQSPPM
ERLLGQVREVAALDTTVLLEGESGTGKDVIAKLIHAWSLRSSKPYLEVNC
GGLPESLLESLLFGYEKGAFTGAAQANPGYFEKAHGGNLFLDEIADMSPK
LQSSLLRVLQDRSFCRIGSTNPRKTDFRLICATNRPLAGEVKAGRFREDL
YYRINVVALNLPPLRERGDDIVRLAVHFLDRYNTKFGKDCGPFTPAAVRA
LEACRWPGNVRELQHCIERVVALQPGGVIDASHLSPTCDFLPELDPQDKT
TALPTLAYQEARTEFERDYMRRLLEAAGGNMSEAARCSGIPRQNLYVRMK
RWGFVID
>Rfer_3282 transcriptional regulator, LuxR family
MTEPLSTRTAQHTAASQEPALAEDDLGLVFDLAPVGLCISRERTIQRCNA
AFGAMFGYAPAELQGRSLECLYPSRSEFEHIGAQGFPVMQRTSHYSDERI
MCHRSGRLFWCHVAGRSLQRDQPFACAVWMFEDISSRRPVAMTLTARERE
IVRQLAAGQGTKQIARTLGVSPRTIDGHRARIMRKVGAQSSSEMIAKLIG
LS
>Rfer_2480 diguanylate cyclase with PAS/PAC sensor
MNSILISPNIRHPYGLLLFVFLVAAGLAGNYFSFPVFLNIDFLFGSIFAM
LALQYFGLGWGTLAAALIGSYTYVLWNHPYAIIILGAEALWVGVLMTRRR
VGMVLADTLFWLLVGMPLVFFFYRLVMHVPLSSVTFLMTKQASNGMANAL
LARLIFTGLVLGFRSSQTSFREIIYNLLTAFVVFPGLIMLAIGSRADFAE
TDHRIRASLLQDSARLDHYVNTWVINRKSAVLKLAETAAVKTPQQMQAHL
EQAQKLDSNFLRLGLMDAQATTTAYYPLLDELGHSTIGKNFADGPFIPDL
KRTLQPMVSEAIMDRIGIARPMVAARAPVLLDGKYGGYVTGILSLTQIRE
QLDSSTVGHAVLYTLLDKKNQVIMSNRSDQTVMTPFKRGRGQLSQLDAGI
SQWVPSVAANTSISDRWQESVYVAQTAVGDLAEWTLILEQPVAPFQKTLY
KNYSDKLTLLFVILLAALILAEVLSRQIMGTLDVLGALTRNLPFRVAASD
NDIVWPETAIKETNDLIGNFREMSKLLKAQFDEIQEVNETLEQRVADQTA
ELKASELHLQTIIENEPDCIKIIDAQGRLLHMNPAGLAMIEADALAQVAG
RPVLDLIAPEYRAAYWDLHQRVLAGARMQMQFEVIGLKGGRRWLETHAVP
MLDHAETMQLAVTHDITERKQMEEQVRQLAFYDPLTLLPNRRLLTDRLGQ
AMAASKRSACYCALMILDLDNFKPLNDTHGHLLGDLLLIEVARRLTHCVR
EIDTVGRFGGDEFVVMLSELSTDQALSTAQAQAVAEKIRSSLSEPYLITV
HHESRSDTLLTHYCTASIGVVIFMDNETPQDDILKWADAAMYRAKKVGRN
TVRFYDSKA
>Rfer_3543 transcriptional regulator, Crp/Fnr family
MSSDVSLHQRRRPLTAAELDTIPWLDRLSPAEYERAVDDLKISDAVAGEY
VCRTGRPVTYWFGVVDGLLKMSSDNAEGQTMTFTGVPPGGWFGEGTALKR
ESYRYNIQALRKSRVAGLNVDTFHWLLDHSIGFNRFVMNQLNERLGQFIA
AREIDRMNNPDIRVARSLAALFNPVLYPGVGEVLRITQQELAYLVGLSRQ
RVNEALTALAEQGVIRVEYGGLRVLSLVALRSQIFL
>Rfer_3951 periplasmic sensor signal transduction histidine kinase
MTIPHHEQRSLFGEILDWMLTPLLLLWPVSLVLTWLVAQNIAGKPFDRAL
EYNVRALAQLVTISDQRAQFQLPLPARELLRANDADTVYYQVLGTRGEYL
SGEREMPLPPKEEALEPGEVRVRDDVVHGDEVKVAYTWVKLPLPGAKPAL
VQVAETLEKRSLLATEIVKGVMLPQFAILPMAVLLVWLALVQAIKPLHQL
EERIRARKPDDLSPIEAQAVPLEVAPLVHSVNDLLLRLKDSIATQKRFLA
DAAHQLKTPLAGLRMQAELAQREGASAEELKQSLRQIGRASIRATHSVNQ
LLALARAESSGQAMPRQVCDLAELTMAVVRDCVPRAIEKQIDLGYEGTQP
GTESGQLAGNPTLIKELIRNLVDNAINYTPSSLSQPGVITARVLTDPFGK
TLMLQVEDSGPGVPEVERELIFQPFYRALGTEADGTGLGLPIVMEIAHQH
NATVSLEPTHPGQTRPGARFSVRFWASSSEAAPA
>Rfer_1673 diguanylate cyclase
MSQLVDKLADLTDLRDRGALDLALVSAIHDLLQPQTAAICRVVGEAGNER
WLTTAQIKADQRVPVFDSAWSDLLALPRLAEYPLRQQAGVGKLVMQSRLY
PGITVFPVSSSPGTIGVLEIATQEPLSEELSRLVSGVLRLYLNFQSLLDY
GERDALTELLNRKTFDGAFLKATLAQQVAVDGAPDKRRDTSCSGSFWLAM
IDIDHFKHVNDNFGHLIGDEVLLLLARLMRVSFRFHDQLYRFGGEEFVVL
MRCNGEAEAAAALERLRTNTENYLFPQVGSITISIGFSEIKTGDTPSGAF
ERADKAVYYAKEHGRNQVCSHAALVASGVLVEQAANVGDMELF
>Rfer_3344 multi-sensor signal transduction histidine kinase
MTPPPDTHSWFGPSLLEPGVEKVDKPEEFQRLWRGFMTARVTLGVVLMLL
QGSIYVLGASKDSALLLICTGYFAAALAVRLLAHPRQLGRTFDVQWISTI
GVDLLAFTALQWVQGSSINYAPLFALPILMASILGSLLVAMGTAAGVTLL
LFGYASWMSIQAPGEMAAHFLQAALTGAGCFVISFLASQIATRLVNVELR
AQRSQLAARVQRRVNELVIESLTEGILVVDRRGIVRAANPAARQLLGFGH
KPGDRSFNLNAMIEWQCLVDLMQRSFSGHAAQQADVTIHPAGQGPRHIQV
RTQLTATQAGDDERLCVMFVQDQREMQARIRTEKLASMGRMSTAVAHEIR
NPLAAITQANALLDEDLIDPKHKQLTRMVQQNAKRLEKIVEDILNVSRVQ
QLESVNSTPALDLKESVERICRDWQNQTASEHLLSVQLPPGLIEVKFESE
HLRRILVNLLDNARRYASHQLNAIQVSVRPTTLEHCTLSVWSDGQPMDQS
VERHLFEPFFSSESRSSGLGLYICRELCEGHGATIAYDRTRRTMTGKPVD
GNEFLVTLRTRSATSSAQMTHKHTPDTPWHQTQR
>Rfer_2540 two component transcriptional regulator, winged helix family
MTLRVLVVEDDREIRALMQSSLSVEGFEVQTAVSLSEASALLRHSPPDVI
VLDLGLPDGDGVQLVREVRTRHSLPIVVVSARHQEAQKIQLLDAGADDYL
TKPFSVGELLARIRVALRHRGTALAAAVTVHELDDLRIDLAAHSVLRNGE
VLHLTPTEFKLLARLVRSAGRVVTHRQLLLDVWGPEFTEHTHYLRLYMAQ
LRAKIERDPAEPRHLLTETGVGYRLAAV
>Rfer_1020 UspA
MTILVAYAPRPEGQAALDKGIEIARSRKERLVVVNAGPGGSKDDASLAEV
ADVERVEALLAASGLEAEFKQFVRGASAVSEIEALIDSLHISLLVIGLRK
RTAVGKLIMGSVAQDILLSVSCPVLAVKAG
>Rfer_2451 carbon starvation protein CstA
MNLVSKHAIWLFLTVVGVFSLGTVALSRGETINALWIITAAVAIYLVAYR
YYSLFIAEKVLQIDPTRATPAVRHNDGLDFVPTNKYVLFGHHFAAIAGAG
PLVGPVLAAQMGYLPGTLWIIVGVVLAGAVQDFMVLFVSMRRDGRSLGDL
VKSELGLVPGMIALVGTFVIMVIILAVLALIVVKALAASPWGTFTVAATI
VIAMFMGVYSRYIRPGRVGEISIIGFVLLIASIILGGQVAQSATWAPLFT
FDAKQLSWMLIIYGFVASVLPVWLLLAPRDYLSTFLKIGTIVGLALAMVF
VAPNLRMPAVTQFIDGTGPAWSGSLFPFIFITIACGAVSGFHALIASGTT
PKLLDNEKNTRMIGYGAMLMESFVAIMAIVTASVIDPGVYFAMNSPAAII
GTSVDGAAQIISQWGFIITPDVLLQTAKDVGESSILSRAGGAPTLAVGMA
QIFSQVIGGKAMMAFWYHFAILFEALFILTACDAGTRAGRFMLQDLLGTF
VPSLKRTNSWGASLTATGLCVAAWGYILYQGVVDPLGGINSLWPLFGISN
QMLASVALMLCTVVLFKMKRQKYAWVTILPTSWLLICTLAAGWEKVFDSN
PKIGFLALANKFQAAVDKGVLLAPAKSLEQMKQIVFNNYLDAALAVFFIF
VVVSMLYYTVIACMKALREDKMTSCELPYVAIPAAL
>Rfer_2629 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MNPAAWGLLIDGLIEAVWLVDPVSLRILAVNHAAADLLGLKAEDLVGKPA
IELTVTPEDQFFWEDIAAGLVDGIHSETLLRGADGMAVPVERRVSRVWPE
TGRAVYVVGIRDLRQQRRTEDELESLVAELRATLESTADGILVTDRSGDI
RNYNRHFAAMWDVPEELLLNPNDRALHGHLASRVLDAAAYETRLRAIAES
PLLETTDVLILITGRLLERVSRPQFSRGQATGRVFSFRDITQSVDAQSRL
RLAAKVFESSVDAIFITDPDLTILAVNPVCERLTDTSQAQLLGESAKSLF
QDPCDPELMVRVEQVLRDEGFWRGQVWLDRAGRSACAVHLSWVLLRDEDG
AVLHTICFFKDLTEELAAQKRIEQLAYSDALTGLPNKLLLSQRVGFALRM
AERHGSQFGVFFLDLDHFKNINDSMGHVFGDRVLVEVAERIKRCLRDADT
LCRLGGDDFVIFVQEIDARGAEMLAQRILDLMAQAFLIEETSFSVGCSIG
IALYPADGRSLDELIKCADTAMYLVKERGRGSFRFYQPQMNVDLLSRMKM
DHAMRRAMEQGMFRLHYQPQISLANGQLVGVEALIRWLDGELGNVSPVLF
IPLAEESGFIITIGTWVLKEAVRQAVLWQNAGTPVTVSVNVSALQFQQTD
FVEIVANVLKDSGLAPYLLELELTETILVRDANETLNRLHALAALGVALS
IDDFGTGYSSLAYLKKFPISKLKIDRSFVMGLPDDEGDRAIVSATIGMAR
GLKLKVVAEGVETIAQRDYLAGLNCESFQGFLCSPGLPAEEFERLMASFP
RD
>Rfer_2220 diguanylate cyclase/phosphodiesterase
MTRVPGYLYKVAAHLLHATFHASLRRPLKWLRVQGLREKVTLNAVPDGVL
RIVCVHDLSERKKFEESLRYQATHDELTGLPNRWLFHLHLSQALVRARRT
GLRVAVLFLDLDYFRSVNDSFGHTTGDALLVQVGTRIRSTLRENDTLARL
GGDEFAILLADMKNVDEAVRVASKLLLSLQASYRLQDQDVYSGGSLGLAF
YPDDAQDSDTLLRYADMAMYQAKQAGRGGYACYSQEMDLRGHENMRLHTR
LKEAMAQGILQLHYQPQVDVESGAIVGAEALLRWHDPELGHVSPARFIPV
AEATGLILPLSDWVLETACQQIAAWTQAGTPLRVAVNVSAQQFRQRNLPE
QVRAALARTGAQAQWLDIEITESVAMTQPAQAREQLDALVGLGCRIALDD
FGTGYSSLAYLKALPVSKLKIDKSFMDGIPQDANDVAISRAIIALAKSLG
LTLVAEGVETDAQLAFLRQYGCEVYQGWLFAKAMTVQELTSRLHGVQVP
>Rfer_4102 two component, sigma54 specific, transcriptional regulator, Fis family
MSGRAPLAVLVVDDEQRSLETLKRTLDDHFTVFTASSAEQGNAVMAQELV
QIVLSDQRMPGTSGVAFLRGVRAQWPNTVRLILSGYTEAEDIITGINEAG
IWQYLLKPWHPDQLLLTLQSAGELWRLQQENQRLTLELRASPENLALRVF
SLRQKAKALAGFDKLIRADSSPLNEVCALAERVAGHDLSVLITGESGTGK
ELLARAIHYASARAEQPFVVENCGAMPDTLLESELFGHKRGAFTGATDTH
IGLFQQADGGTLFLDEIGETSPAFQVKLLRALQEGEIRPVGSPRSVGVDV
RLIAATNRDLEADVASGRFREDLYYRVAGITLYLPALRERAQDIEPIVTD
MLKKSPLVGRRMSREALNLLTRHAWPGNVRELQNEIRRALALGDGPVLGA
ELLSPRVRQTAALPDPVSDAVEEESGQLKHHLDRMEAQLIRDAMLRHKGN
KTHAADELGLTRVGLRMKMMRLGLG
>Rfer_3345 two component, sigma54 specific, transcriptional regulator, Fis family
MASNTTLSNARILVVDDEPDLRTLYELTLLREGYRVETAGNLAEALQHLG
ERRFDVVITDMRLPDGLGLELIQQLRAQQRPERCVVITAYGSAENAVESL
KTGAFDYLTKPVDLKQFRSVIASAVQDPAPRPTAVGRAGSPLPESSDAVL
QRLVGESDSMRRVKERIVKVARSMAPVLVHGESGTGKELVARAIHANSHR
TGSAWVAVNCSAIPESLLEAEFFGSKKGAYTGSTQDRVGFFQAASGGTLF
LDEIGDLPLSMQSKLLRAIQERCIRPIGSSQEEPVDVRIISATHKDLSLE
VLAGRFRQDLYYRLDVIEIEIAPLRERREDLPALCQTLLRRIAFEAGIPV
PTLSKAGLEQLSQDPLPGNVRELENLLQRAVALSDGDELQLELTARQPLT
QDASFLDSGPTPLDDDQTTIPSDLQSHLDTQERDILIQALRETGFNRTAA
AARLGLSQRQMGYRIARLNIVTPHSGELSDESL
>Rfer_0422 two component heavy metal response transcriptional regulator, winged helix family
MKILIVEDEPKTGDYLKQGLGEAGFVVDLLRDGTDGLHHALTEDYDLAIL
DVMLPGMDGWAVLAGIRKAGKDMPVLFLSARDHVDDRVKGLELGADDYLV
KPFAFSELLARVRTLLRRGGKGSSTEFLRAADLELDLLRRRVTRAGKRID
LTSKEFALLELLLRRQDEVLPRSLIASQVWDMNFDSDTNVIEVAMRRLRA
KVDDNFEPKLIRTVRGMGYVLESPACA
>Rfer_1540 transcriptional regulator, Crp/Fnr family
MMNVQTLPSAARWDHSFHQPALKLESDERWSDFSEVLSLLRFDGHLQGLN
DTSLFRRRRLKAGQTALGMGQVFDGLYVVRLGALKTTMTHVDGAEHVLAF
PMKGDLLGFDGVCKNKYLSEVTALTDCDLIKIPSSELFSPGRSCNDIERM
AYWAISREIVQEQSAYSSYHSTKSEARVARFLRIQSERFNTMGYSPNRFT
LPMTRRDIGNHLNVTLETVSRAFSALDHLGIIAVERREIKILSLEALRKF
EH
>Rfer_2016 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MMNAARQHRTRQWILATSVFVFSAVAIAVLIWRWEQQTLIEVRARAADLT
ADHAHTLQRDIERALSATYAIAALVRQGQGNIADFEAVATEMLPFYPGVA
ALGMAPDGIIRNVVPLAGNEKSIGFNQLKDNTQNQEALMARDTGRLTLAG
PLKLAQGGLGVVGRLPVFLNDAQGHKVFWGFTYVTLRFPDALASARLPLL
TQRGYAYELWRTAPDTGERQSIEASGNGVLDAPVERTLELPNGQWTLSVA
PINGWGQSDRLGFEATINFFLSLLMAYLAWLLYEMRVRDQGLEVQVNERT
AEILATQRQLQATLGAIPDPLLELGLDGRCYNAHSSRTDSLPWPTEDLIG
RTIMELLPPQACQIVLAALQEAKEKECSIGKQIKVPLDNGMHWFEMSVTR
KSALPGEEPLFLVLCRDITESKQAERKIQLLAHFDSLTGLPNRVLLTDRC
NLALSAAQRNGTPLALLLLDLDHFKNVNDSLGHRVGDEVLIALAGRLKGA
VREQDTVCRLGGDEFILVLPETNAAGAAHIAEMLLQSALVAFELEPHELT
VTPSIGIALFPGDGSDFDTLSRCADAAMYRAKKDGRNNYRFFTAEMQARS
ERTLTLENALRRALERNQLQLHYQPQISLASGRVVGAEALLRWSHPELGA
VPPAEFIPVAETCGLILPIGEWVLRTSVQQLKAWIDAGMLPIALSVNLSS
VQFRHADLPELVTSILNEAQLPAHLLELELTENVAMTDPLGAIAVMNNLH
ERGVRMSIDDFGTGYSSLSYLKKFRVYKIKIDQSFVRDITEDSDDKAIVG
AIISMATSLGMQTIAEGVETEGQLEFLKAKGCTEVQGYYFSRPLPVEQFE
AFMGTKSSSNQPFVPAQSAIDIRL
>Rfer_3523 two component transcriptional regulator, winged helix family
MRLLLVEDDVMVASGIKLGLTDAGYAVDWVSNAERALEAMRHESFDVAVL
DIGLPGMDGLALTQRLRKDAPAMPVLLLTARDALHERVQGLDTGADDYMV
KPFELPELLARLRALLRRSQAATSAVLSFGALELNTATRLACLRPSGQAI
ELGPREWTVLEYLLINAPKPANKDKLLQALTGWDKEITPNAVEVYISRLR
GKLEPHGIGLRSIRGFGYRLELIEAGISDSRHPAP
>Rfer_0563 two component transcriptional regulator, LuxR family
MIHVILCDDHAMTRRGIRDTLAEAVDIQVTAEAGSYAEVREAMRNATCDV
LVLDLNLPGRGGMEVLSSLKEAHSPIKVLIVSMFPEDQYAIRCLRAGAQG
YLNKAGDPADLISAVRTVAQGGKYVTPAVAHMLVESLSIPENQTLHAALS
ERELQTLLKIASGKRLADIAEELMLSPKTVSVYRARVLEKLKLSNNAELT
VYAIRNELV
>Rfer_2495 diguanylate cyclase
MRFLGSLHIAVAILLLSIGVGLYADLKSEQMHGQSLRIQTGLERMVRLNQ
SLTSVMATAVIEKNSLRAASYNSLHTKLEATMQEVQALTQHMTLAGEILA
LRDEQRALRAQESQVFVHIRDEQWDAAYKVLLGGDYVMALKIYEINSESA
VGALTIELSNTARRQDLLRQATLMLRLAAAALLLWTGWRYSRRLQAELAE
QVRLRGEVTAANEALEEKVRLRTAELQAANSQLETLSTTDGLTGLANRRR
FDKYWAEEWQRALRQATPLAVIMMDVDHFKTYNDHYGHQQGDECLRRVGE
VLRATVRRAGELAARYGGEEFVVVMPGASLAQAQETAESILAAIRAEQMP
HASSPVASVVTISLGVAAGTPGPAGDRARMLNEADVALYDAKHQGRNRVV
PSLPGLTQPNVTNAISNTVTLL
>Rfer_4030 diguanylate cyclase
MFVASGMHIFAKNYGVAAWALLALLFLLYPHVQYWRAARAADSVKTELDN
LLIDSFLLGLFMAALEFPLWLSFAAIMATLTNNAANKGWPSVPKNVLAML
AGALIWVTVRGFKFSPDTGWPLTIFCMVGICGYVLVIGNVGFQRNLQLRR
VREELRTREQELLKANQSLVVNLQEIEALQQQLREQASRDSLTALYNRRY
LDTTLDRELASCKREGKPLSLIMIDVDDFKKYNDLHGHQAGDQCLIAVAK
TLQASAKRASDLAARYGGEEFLLVLPGMDATAAQGLAEELRRSVEALKIP
HEQSRGGSVTISIGLAVMTNDSHKDVAGLLRAADEALYHAKHGGRNQVRL
ATQTRRAARVAESVAVNLVQLVWHPAYESGQAELDAQHRALFGHVNNILA
ALLLERPVDEVAALIDTLIGDVAKHFEDEEKIILAAGFPGAAAHAAMHRE
LIAHAGYLVSRFKTRDLDRGEPFQFLAHDLVARHILGEDREFFPHLSA
>Rfer_1371 response regulator receiver domain protein
MNTTGSTFKVLVIDDSNTIRRSAEIFLKQGGHEVMLAEDGFDALAKVNDY
QPQLIFCDILMPRLDGYQTCAIIKRNAKYSDVPIVMLSSKDGVFDKARGR
MVGAQDYLTKPFTKDQLLQAVQQFGKVAQGVN
>Rfer_3666 protein tyrosine phosphatase
MNILFLCTGNSCRSILAEATFNHLAPKGWHAMSAGSHPSGYVHPRSLALL
AREGIATAGSASKSWDNLPQTPDIVVTVCANAAGEVCPAYLGPVLRTHWG
VEDPVHAVGTDAEIDAAFMTAYRILRARIEAFLALPLDALQHYPQKLKVE
LDHIGTLLPG
>Rfer_1980 response regulator receiver modulated metal dependent phosphohydrolase
MTDNSTTTPGASAALLPTILCVDDEPNILSALKRLFRGKGWQVLSAEGGQ
AALALLQTQSVDLVISDMRMPEMDGAQFLAQVRVRWPDTVRLLLTGHSDI
DAIIDAINRGEIYRYITKPWDDNDIVLIVRQALERQALEHEKKRLEALTT
RQNEELKALNTSLEAKVEARTTELRIANESLQDANERLKSSFVTSIKVFS
TLMEMRGGNLAGHSRRVADLARRMATKLKLDSKLVQDIFVAGLLHEIGKV
GFADELLNTPVAMMKPEQLDAYRKHTVQAEQLLLPLAELRAASDIITAQF
ERFDGSGFPARLGGPNIPIGTRILSLASDYDNMQIGTLTHSRLKPEEAKT
LIVRGSGQRYDPEVVSAFLEVFSGVPRQAADKESFSEMRVKACNLKAGMM
LARDLLAPSGLLMLSAEHVLDQRMIGKIITFEKSGGMELTAYIRVASAS
>Rfer_0246 histidine kinase
MALVAYVGAGDLILSQERSNLLLYFSEMERIYTTESALGKTTYAVSHSML
KLEERFFSNDSLPPAFEEHIALDVELIQAGLMGLQDYYPWLKKRNDRLDQ
DMARLRTEPSHGSMVSLREHGKELSSELDQITRELRERKSLLWQRYRNEY
DIMSFTAAVMTLVGALIFGALIALFLTRLASDIRRLATRALDIVVGYRGP
PVEVTRDDEVGDLMKAINRMQSELRLRERQLEISREQRFHKEKMAAIGSL
AAAVAHEINNPIAAIAGIAQSLKDSGRHASCAEFGIDPSDLILEQAKRIT
AISRQIAELTAPHSPEHELLDLNSLVRNTCNFIAYDKRFDKIEMALNLDS
QIPAINAIADHLTQVLMNLLINAADALEDVHQRSPTIWVATLATKSELLL
TVSDNGKGMDSSVLAHAFDEAYTTKPPNKGRGLGLFLCKSLLESCGNRIE
LESTLGVGTSVRVRLTLASHPGA
>Rfer_3475 diguanylate cyclase with PAS/PAC sensor
MPAEITIERIIHPHILTCTPDTLLSDAAQRMVETRCSSILVAVDGAIVGI
WSEQDALALDITTPQAFRCPIAQHMTSPVKTINVKTSLGEAALRFREEKV
RHFLAVNDDGKHKGIVSQTDIVINQGIEYYISLREVQSVLNRQYPIIPSA
APLGEAVRNMHSGRFDALITQYPDGDYGILTERDVVRLISGDKPIAIVGE
LASRPLICVPGATSLYQARNLFIDKHIRHLGVTGSDGKLLGLVTFAELLA
SIEHDYIRELRETLKKRERSLVISKQHQRLAAKVFESTFEGIMITNAESV
IESVNPAFTQITGFMAHEVIGKTPAILSSGKHQEIFYRKMREDIAATGHW
QGEIWNRRRTGETYPEWLTINAVSNDDGEVTHYVGVFSDITTRKAAEEQV
LFLAHHDGLTGLPNRALFADRLHQAIVHAHRDRAKVAVMFLDLDNFKQTN
DTLGHHIGDQLLQMVAQRLTNCMREGDTVARLGGDEFTVVLESITNTGDI
AYLSQKIIDTVSHPLLLDGHEIAVTCSIGVSVYPDDSEESDDLIKYADTA
MYRAKEGGRNNFRFFIAPGKK
>Rfer_1560 diguanylate cyclase
MSWIEEQHLSSSNRHQRWWLGLSIALLSGLVIFVSTIVAVTGQPMAALLT
VCSMVLIGISFVLYRRLHLARLQREEVLALLSRKQWPTCEGLCHLESSLA
KCAARRIQVLQAEIADLQDREQRLKVQAHHDGLTGLANRFLLTDRFQFTV
ERAKRSGQSFALLMVDLNDFKAINDHHGHVAGDEVLVVTAQRLSSAVRAS
DTVARIGGDEFVLIIESIEDPQEMLHIGEKLFDMLTDPITLNTGVVAKLG
ASIGLALYPDDGASLNDLLNVADQAMYECKSTGSMSLQ
>Rfer_1628 protein serine/threonine phosphatases
MKFSIFQISRKGSREKNEDRMGYCYTRESGIFFLADGMGGHPQGEVAAQL
ALQTIAAMYQKEAQPKIVDIAAFLTSAVLTAHRQILQHAIQNGMLDTPRT
TAVVALVQDGAVSWIHCGDSRLYLVRQGQLLVRTRDHSFLEQQRATAAGK
KPAERINRNVLFTCLGSPTKPVFDIAGPVGLQQGDKLMLCSDGLWDRLSE
ADIVDCLAHKPVSEAVPQLVESALRTAGDRSDNVTCIALEWEMPDGFEST
RGSISTDTLSDGFFASTFQADTLDAALEDLDDAAIERSIAEINEAIRRSA
LKKSA
>Rfer_3684 periplasmic sensor signal transduction histidine kinase
MAPLSHLSIRARLVWGAALVLLAFLAGAGWAVQQAHADSVRAARFARLQA
TIYLLMAGAELNAQGALLMPAALAEPRLSVPASGLYANIANADRGEEWQS
ASTLGLNPPFQRQLATGEWRFETLVAPPAQRGDQAEAAAAFLAATYAVKW
SDKAHTATLVFSVLEDKAVLDRELAAFKGTLWRWLGGTGLLLLFTQTLLL
RWGLAPLARMTREIQHIERGEQTRVQGSYPRELAGLTHNLNTLIDQERAR
QTRYKHALDDLAHSLKTPLAVLRAALPEPSQLPKLVAEQVSRMDDIVGHQ
LGRAGASGAARFAPQLALAPILQRVCDSLAKVYLDKQLVFNVDCPPELTW
RIDEGDAFEMLGNVLDNAAKWARHSVSVRLWLQAGRLCLRVIDDGPGFGD
RQAVLQRRVRLDEQVPGHGIGLAVVSDLVASHQGELTLSRAQAGGAQLDI
VLPAA
>Rfer_4122 PAS/PAC sensor signal transduction histidine kinase
MPVPQPSPLHHLPVGALEGMDEATWLDVIHKMDEVYSKLVTDEIELEEKN
AQLEQSQQFIFSLLSAMSDVLIACNQNGMIEETNAALCELVGLSEQALRG
TPVLGLLADEQSVQRWQLAMYQSASHDAAVVEINLRSASGEVVAVDFNCT
PRHNSAGRQVGRVLVGRPLGELKRAYQQLRQAHEALKNAQAQLLHSEKMA
SLGRLVAGVAHELNNPISFVLGNVHVLQRYGARLSRYLQALHQLDLPAPV
QALRAELRIDHLVGDLPSLMAGTLEGAQRTTDIVNGLKRFATAAHEDVTQ
VELNAVVERAMLWVKKGTSPRFEMVWTRGPDCFVTGNAGQLLQVVMNLIQ
NASDAASTDDATAPQLRISLQQDGGQVRLRFADNGPGIAPEHLSRVFDPF
FTTKSVGKGTGLGLSISYGLVEQHGGQLSAANLPQGGAVFTLTLPMPKA
>Rfer_3438 transcriptional regulators, TraR/DksA family
MFSSFFQLMGFPALKPVNSPAKQVAQSQPSKAGAEGISLKASGGAANTRQ
TSTRDVIEQKKSARRQDVKSQTVKAKETRKATHAIVKVKPGVKALAKPKP
VARPQDKPAVKPAPVAKSAQGAAAKPPVGKKAPAKPSVPTKVVGKESKSA
PETVVKVTKVAKASPAKVAKAPSVKVVKPTATIQAKDSVKTTLAKAAKPE
VAAPKLPVAPAVTPVKVALAPVASAAPSVPVRAGRPSSRLAQLTVPSMAQ
SVASTAAKASFSQTIVAPYIVPPVASAVKKDPALANNWKLKPVEQLTEAE
LIAMPDDEYMNDTQLAFFRRVLTALKQDILSNAGQTTEHLRADTVVVPDP
ADRATIEEEHALELRTRDRERKLLKKIEQSLARIDSGDYGYCDETGEAIG
VGRLLARPTANLSLEAQQRRELKQKMFGD
>Rfer_2541 periplasmic sensor signal transduction histidine kinase
MNSPELSASNRPPARGWVIVVLLLTAATACSFLLDRYVSLTSQAMIYVLA
VVIASYKLDWIESAVCAVAAVTALNFFFVPPRWTFEVENQEHFIALGTML
VLALVISHLAKGVRRETELAHLNERRARQLQALATNLSNVNSPADIEALG
HKALDAAFAGPCSLALTRDGRELDFAADLDPAVRDGMRCCVKEEAVLGPG
TGRWPGLLAWYLPLGERGHVTGAACVRPALAADEAGREHAQALCALLAQA
LWRLRVTASMLAAQSEAQRQQLQSTFLAAISHDLRTPLAAIVGAASSLQT
QRDKLSEPEQDRLLGSIVSEASYLSTVTENTLQLVQLTGAAQALKRDWES
MEEIVGAVLARVRQRDSQRRIKSNVPENLPLVKADPVLLAQLISNLLDNA
LQYSDGAIDLSVSVEAQELLVSVKDRGPGIPEAEQKVIFEAYTRGDQSGQ
RGAGLGLALCRAIALAHGGRLTLRPRRGGGSNFVLALPLDAQQPGQELNQ
ELP
>Rfer_3397 two component transcriptional regulator, LuxR family
MKTSAPKPSLDQTLDRANSDLVLIVDDVPDNLSVLHDALDESGYTVLVAT
HGEAALQRAAQALPDIVLLDAMMPGMDGFEVARRLKAAPQTAHIPIIFMT
GLLDTEYLVAALEAGGVDYVTKPIKPKEVLARMQVHLQGAREKRQARSAL
DAFGYASITVRVSDGKLMWQTPLARELLLRYYGTEAPKTPEPVCQWLRRH
VNDAVALTEPPRLSIELGPKRLTFRLHQQIGDSEGGGDWLIIMQEVSDES
VIEAIALSFKLTPREAEVLYWVVKGKINRDIGDILGSSPMTVKKHLEHVF
AKLGVETRTAAAGMAMSRIRQLHPQFEG
>Rfer_1928 two component transcriptional regulator, LuxR family
MAQATTILVVEDALGDFGLIKSCLQQAGFCRDDHEPSLIWAKSLAQGIAQ
ARQVRPDVILLKTSLPDSSGMSTVVAMNAALPNVPIIVLNGVDDDNFAIA
ALEAGAQDYLIRGQFDYKALGRTMRNALVRAKLESRLRLFEVALDSAANG
IVITDVQGKIEWANLAFTQMTGYCVEEALGCNPSQLVSSGKHDGAFYRHM
WATILSGQVWRGELINRRKDGSFYDEAMAIAPVTASDGSIRNFVAIKQDI
TESKAAELLIQKSEQQLELALAGSGLGLWDWHVGSGEFATSARWCAMLGY
GQDEIEPNIRSLEKLVHPKDWPLVCAARDAHLSGETRAYESEHRMRHKDG
HWVWVLERGKVVVRDADGGPLRAAGTQLDISDNKRLNQEGSELLRRIESL
MREVSKPPALVERERSGELDRSARISARQRQVLELVAMGCTSAQIAEKLQ
ISPATVVTHRRDLMGKLDLHTVAELTRYAMQSKLGSE
>Rfer_1427 diguanylate cyclase/phosphodiesterase
MTRLKLPRITVWVLGLAGAFLLSLALAAASLVWSLKQAAVNEAEAEAARF
VSGAVVALNRSLLGVDVLLASQDEQLGLSLLVPDWIDSAAASRQMHGTVQ
QNLMVRHLALLDAQAHVLASSDVDGVALDSWLPAGFVAQALAQPMSELSI
SAPVVNFASSERVIYFGRPIKLADNSRVLAVAEVQVSLLNAILSQGVSIS
GLEITLERGDGQLLSSEPAQEQLWGTQLSPPLGQVGTQKQVLRGAARLSG
QAAIVLAQPTLYRDIFIAASIPIDAVLANWREQRNFILGVSLLFALMILA
SGGLALWYLERLAQARQAIASSKAEIEQLAFFDPLTNLPNRRLLMDRLQH
ALSANARSGRCGALLFLDLDHFKTLNDTLGHEVGDLLLQQVAQRLKTCLR
EQDTVARLGGDEFVVMLEDLAEHSLEAAALARRIGEKILASLNQPYVLMT
QTYRSTCSVGAALFEATTPITAADLLKQADIAMYQVKARGRNDLCFFDPQ
MQASITAHAQLEDDLQAALVRGEFALYYQPQYQLQEGVVGAEALIRWLHP
LRGLVPPVEFIAVAEESELINQIGLWVLRTACQQLARWQGDPRACDLHLA
VNVSARQFRQPDFVAQVSTVVHESGIKPHLLKLELTESLVLDNVMDTIAK
MNELKDLGVRFSMDDFGTGQSSLSYLTRLPLNQLKIDQSFVRNIGLQATD
DVIVQTIIGMARSLGLSVIAEGVETPAQQEFLALHGCTLYQGYLFGKPTA
LPDFEALLGAAPALP
>Rfer_0893 response regulator receiver sensor signal transduction histidine kinase
MPLAVNPPRILIVEDEAIVARDIEQQLVALGYQAVGRATRGEEAIRLAGQ
LRPDLVLMDIQLASVMDGVAAAQAIRTQFALPVVFLTAFDADQILARAKL
TEPFGYILKPFSERELRNVLAMALYKHQAEAKLLTTTRQLQALSRRVLEA
QEFERRRVAIELHDELGQSLTAIKINLQLSERLHDGSSSELNAENIRIVE
DALQQVRRLATGLRPAMLDDLGLSPAVQWIAEVIAARSNFTVHFCPEDMP
QRLAPDIETACFRIVQEALTNISRHAQAKRVTITLRRMSNALLLCVQDDG
NGFDLHAMRERAMLGGSIGVLGMQERAMLIGGQLDIESAPGLGSMVQLSC
PWRTHLEAA
>Rfer_0510 two component transcriptional regulator, winged helix family
MTQHLLMIEDDTRLAQMVSEYLAQSGFVVGHAGDGQTGLTDLQSDPPDLV
ILDLMLPDMDGLEVCRRIRSLPGALAQIPVLMLTAKGDPMDRIIGLEIGA
DDYLPKPFEPRELLARIRAVLRRHVEGAHPVQTQLRFGTLEIDRDARSVS
VAGQLCDLTSYQFDLLVALAERAGRVLTRDQIMEAVRGRELDAFDRSIDV
HMGRIRAAIELDAKDPKRILTVRGVGYVFARQQD
>Rfer_1986 metal dependent phosphohydrolase
MSPELSLKLAAAVDGMPAFPKSVQKILELTRDVNCSPKDLVQVIDKDPVV
TVKVLRVVNSAYYSLPKQITSINHAVVYLGFNTIKNLALSIAAIGMLPAS
NAAGFDGAQYLIHSLSTAAIAKQLALRLDDADPMDCFIAGLLHDFGKVVF
AQFMPTEFRKALETSQWNESSLHLALRDVIGADHAVVGAMLVEKWRFPAD
LVETIRYQYGPEIKDTPMIACVFAANQISKKLEFGFAGNPYIEQLPPAIA
QRLGGTLDELIVSLGDLAPLLEEAKIFSKV
>Rfer_2630 metal dependent phosphohydrolase
MDEAQFELIEIHQLRPGMFIELELGWMSHPFPTRSFKISSEKQLEVIRGL
GLKRVRYFRDKSDLLPGLANAGGAKVLAGDSPGEQARPESTLASTDENRL
RRQRSDLLSAQHNSLIVCERRFVDAIQHYKLAVEQISAFPGAAKQQCLGV
VGGFVGDMLQEGELAIRLLSEGMGDKASMHPVNVTILSLLLGRSLGLSQP
DMLDLGMAAFLHDIGKSRLPDRVRWPDENFSKAEYNLYQEHVAQGVPLGR
HMDLTAGALQAIAQHHEAMDGSGFPARLKGDSLSVASKILSLVNQYDNLC
NPSRPSTAVTPHEALALIFAQLKARFDSVTLGAFIRMMGVYPPGSVVQLA
DERFALVVSVNSTRPLKPQVIVHEPRVPKHEALILDLEHAPALGIRRSLK
PASLPREAMDYLLPRQRICYFFEKVIESPSDEVGL
>Rfer_2733 periplasmic sensor signal transduction histidine kinase
MNTFADAPVTPQDNSGLMPLEAGPTERRTRSRVPLSLFWRTFFLLALLLV
GSILAWLQTLRALEFEPRAIQTAQQMASLVNLSRAALIHSDAINRVSLIK
TMKEQEGVRIVPREPGDVFEPFDTDALSQRIAEELQSKLGPGTVVANSVN
KEEGLWVGFTIDEDRYWMLTDRARFNRTTGRTWLIWLMTAGALSLAGAAL
IARFINRPLKQLSFAASRVREGDFEASSLDEGVATSEIRAVNIGFNRMTQ
MLAKIEQDRAVMLAGISHDLRTPLARLRLETELSVVDVEAQANMSADIAQ
LDAIIGKFLDYARPGSVDLSPVSLREVFDTCLYSTRHRTDMRISLDVPED
LTVLADEVELGRVFTNLLENAARYGKSVATGVAVVDIVAKARDQWVLLRL
RDHGTGVSNEQLTTLTTPFYRGETARTAANGAGLGLGLAIVEKTISRMGG
TFILSNASSGGLAANIRLQRAPKA
>Rfer_2148 UspA
MTPIRNIVVATDFSPGSNAAVDRAVLLAQTHGASLRLLHAFDVSAWHSLQ
GVFDPHRLAREPPPDVQIQRRLTEVAASLAAKTGLQVEARFTVGKAASAI
NAYVNAHDTALLVIGSRPEPGLLGLGSTASRLLRSPTCPVLTVRWGHARP
YAKVLVAVDLGADAMRAATFAVAGFPAAQHHLVLALAPALERAAWLQALA
QEELAGPHDSMRAQALRQLEQLALTLTRQTQHPVIAEVLEDSPARAILER
AAALPADCVAVSHHGQGAGAERLLGSMAQQVLQHTLRDVLVVP
>Rfer_3168 transcriptional regulator, Crp/Fnr family
MLSIHTIARAVKREVAARGALLLRRANLSPWVTYVESGRVALGVMDGDVM
EHQLGVVEGPCWLEATSAVLNLPHAVDAVAETEVILRRVPVAEFLRSLAT
MSMSAQTVLRDVAKAHRQQTELAISRLAKDAEARCAEWLLQHAQTGDRGV
LAVLLQQRKRSVAAQLGIAPETFSRVLRHMRERSLISGSGRTLNLVDPGG
LRLLAGV
>Rfer_3088 two component, sigma54 specific, transcriptional regulator, Fis family
MKRILLIEDDPIMGESLVQRLELEGLQVQWCHSLGQAQLEVTKDHAAIIS
DVRLPDGLATDWFVQLPASIRSVPWFFLTGYGSVNDAVLAVRGGAREYLT
KPFDIEKLLELVQNAVANRPLPTPEVVLGISPAMRRVEALVVKVSQQKVS
VLLNGESGVGKEVAAQLIHRLDPRPDKGEFVAVNCAAIPETLLEAEFFGY
EKGAFSGAGRQHRGYLERADHGTLFLDEVGDLPANMQAKLLRALQEKCFF
RLGSERTTHSDFRVVAATNRDLYADMTAGRFREDLFYRLAVIRINLPPLR
ERPEDIRWLTERLLATMVIEQSRPLAMSEVFMRDIMGRDWRGNVRELRSY
LEQAVVMSDAGILDEPLPDHPHNRGPIPAPPTEAIIPLQAMVEDAERVHI
RKALNRCEGSVGKTAELLAISRKTLWEKMKRLAISA
>Rfer_3764 diguanylate cyclase/phosphodiesterase
MSLIKQLWIAIALVMTLAFGGSMVVSVLSARHYLEQQLQVKNIDNANALA
LSLSQLPKDPVMIELQVAAQFDAGHYSVIRITSPTGKTLVERVFSGALTG
VPHWFIALTPINAAPGQALVQDGWNQYGTLTLESQEQYAYQSLWDGTLKL
LLWFVLGGLVTGAVGTLLIRIITRPLGEVVAQAQAIAERRFLSIAEPRTP
ELSSVVRAMNSMVERLKAMFSEEAARLETLRQKVNLDALSGLSGRDHFLS
QMRELVTGESFGAEGSLVMVRLTSLNTLNARLGHQRADALLKQLGRVLQD
SCQDRLGQQAGRLKGGEFAVVYPTTASPGEAGADLHQRLTQNWLPDWVAD
VPDLFQVGAVPYHRDQDVGDLLSRADEALARAEAQGSNSCYAGEADSGST
ARPAEQWRNLLTDAVAGGKLRLAFYRVVGSANQAAIHQEGVIRLQLDTAG
ALLPAGDFMPMAAHLNLTAPIDLQVVKLAIEYLRTTPGDIAINLSAETIV
DFNFRRELALLLQANPDMCKRLLFEVPEYGVFKQFDAFRDLVHAVKPLGC
RVGIEYFGQRFAEGDKLADLGLDYIKVHPSYVHGIANNPGNQEFLKGLCS
VARNFGIVVIALGVESEADLPLLASLGFDGMTGPGVK
>Rfer_3012 diguanylate cyclase with PAS/PAC sensor
MGFRRNPLSMDELRELARKRFLGRTASSAKALSVAEAQRLFEELEIHQIE
LELQNEHLNTTRMQLESALTQSNEFNDFAPVGIFSLDAAGTITKLNLAGA
SLLGRERARLLGSRLGLFVADVDRPQFNALLAQATNSGDVQSSELTFSNK
GPLVSHVQIKVAGLGPAQGWQIILVDITERRLAEEQLRASEERWKLALEA
AGDGVWDWNVVTGEQIFSRRFEQLYGFAEKEYGHHLDDWVSRIHPDDKDR
VISEHQACLSGKTASTFIEFRGQCKDGSWKWVLSRGAVVSRNAHGNAQRM
IGTHVDISKQKMTEEALRVASHFQQAVFDSLAAHIAVLDQAGTVMQTNAA
WRQYTVDSGFAARPCCQEGSYLKILGCLTEQDPQTVQAAQAGITAVLAGE
LPYFQLVQPFFTPLDKRWFSLKVTPVHDGEERLVVSHEDVTQIKTAELNS
LTLANRDTLTGALSRRNFFNLAEQEVVRSIRYALPLMVLMLDLDHFKVIN
DRYGHAAGDVILQKFVQNVTGVLRESDLIGRIGGEEFAVLLPNTPLEGGR
ALAQRIVERVRADPVQVNGHLIAYTVSIGAGCLSSETSFAALLSLADAAL
YRAKDGGRDRLEVGPAGAP
>Rfer_2400 periplasmic sensor signal transduction histidine kinase
MRLRSHLLRWLLIPTLALWLLGSVIGYLHSLELAHEAYDRTLLGSAMAIS
EQITVVDGDVVADVPFTALEMLRTDAQDRIFYRVTDLGDGGYITGYEDLP
SVGSGSSEEPRFYDTIYKDQAIRVVAIESTVLDGDAQRHLLVQVAETLDA
RHQLTRSIAGDAALVQLILIATAASMIALGVARGLSPLTRLQDEVLKRTA
HDLTPIETGTVPFEVAPLIHAINAHTERQRQFGAAQVRFVANASHQLKTP
LTVLRAQVDHALLQTDLASMRAIVSHLHESTDETGRLLAQLLSLARSEAQ
YAREVQDLDLTDLAHEVTFEMLTLARGKGIDLGFEAPCAVQVQGERVLLR
EMIANLVHNALVYTPEGGRVTVSVGRQDERAALWVVDNGPGIAVAERPRV
LERFYRIAGSREHGSGLGLAIVREICDRHGIVMELGDALDSVSGLRVQLV
WPGEVSDNERGYISKANHFNA
>Rfer_3588 multi-sensor signal transduction histidine kinase
MSHVGPSIEPAGRFSLRNSRTLRWTVGVGLVVMVVVGLVLLFLLTQATTN
RDMYERNYARLFVLNVVVASLLLMVIVWIAYRLVKRLRQGKFGSRLLVKL
AAIFALAGFAPGVLIYVVSYQFVSRSIESWFDVKVEGALDAGLNLGRATL
EALSSDLASKARGAASQLANTPDVSAALPLERVREQLGESDVLLWSAAGQ
LIAAAGQSRYQLNPERPSQQQFRSARAQKFITWIEGLDDWVPGVVVNARI
KALVLVSSNSLGLLEQPRFLLVSQTLPSTLVANALAVTQANQEYQERALA
REGLRRMYIGTLTLSLFLAVFGAVLLAVVLGNQIARPLLLLADGVSQVAA
GDLTPKASLQGRDELDGLTRSFADMTQQLSDARQAVQASMQQVNSARANL
QTILDNLTAGVIVLDAQGVIVSSNPGATRILRVPLAAYEGQRLSDIEGLQ
TFAASVQAQFDSFLASNDQHRFDHWQQSFELGNGVTNLAGRQPSNALVLV
ARGASLPGATRLLVFDDISEIVSAQRAQAWGEVARRLAHEIKNPLTPIQL
SAERLEMKLTGKIAPPEQALLTKSVKTIVTQVDAMKRLVNEFRDYARLPA
AELRPVDLNALVTDVLQLYASETSPVPVQMELDPSVPTIMGDAQQLRQVM
HNLLQNAQDASESAGNTDAEHPVIIRTQWLENAGLARLSVLDCGTGFPDS
ILKRAFEPYVTTKPKGTGLGLAVVKKIADEHGARVDIANRVADGQTLGAQ
VSLSFATENVAPGEPGDSCIPKERA
>Rfer_1887 diguanylate cyclase
MEPEKLDGGASWPLILDAVELGLVLVDADARVLLWNAWLARHSGVSAQTA
RGQPLAGVFGAGLSASFLTALSNTLRYRLPVVLSNVLHFCPLPLYAQTPA
DAAAARMPHAITMTPLVLPPWGACCLIQITDSSRAISREKVLQRQSERLN
REVMTDSLTRAFSRGFFDHFYQQEFARAQRKGTKLSLIMIDVDYFKDYND
AYGHPAGDKVLIAVVQALQAVLLRSTDKLARYGGEEFAVILPDCGEHKAL
AIAELLRTAVLALNLPHRKSAISNQLTVSLGTSTLKAGQTSSAQALLDAA
DQALYAAKNQGRNCVQSRSPQTVAAPA
>Rfer_2637 diguanylate cyclase with PAS/PAC sensor
MTPESNDAVGSTVGGKSDFRLLRYFATASLVAFVVVAVLLGYVFRTLSVD
ALIDGYQSEHINHARVIANEMWEEHFGPLVLSMADKPAAQLPTAPQIPVL
HQMVLKLLNGTQIYKVKVYDLRGRTVYSTELNQIGEDKSDNAGVMNGLRG
LNSSELVHQNQISSFEGELQDRDVIESYIPRYDPVTGQVSGVFEIYRDAT
SVLAEVGQRQWILVAAVITLLTLLYLVVFIIVKRAQDQIIEQNQERKRAQ
HALALSEERWKFALEGAGDGVWDRNLQTGEVVFSKRYKEIYGFAADELEN
HTEAWDARVHPDDLARIEADRAAYFAGEKSSYANERRMQCKDGSWKWILS
RGMVVARDAQGQPLRMIGTHTDITARHEREEALRLASTVILTMDEAVTVT
NMRNEIISVNPAFTVITGYFASEVIGRNPKLMASGTHSATFYQDMWAKLA
TTGNWHGEICNRRKSGKLYVEWLSIKQVRDEQGVPSHYVAVFSDISERKA
SEVRMQHLAHFDVLTNLPNRALFSDRLRQAIAKARRDKTQLALMFMDLDR
FKPVNDQLGHQVGDLLLQEVARRLLDCVRRESDTVARIGGDEFVVMLPDL
ETVQAATLVAEKILAALNLVFEIGEHRIHISSSIGIAIFPEHGQDENHLL
KSADAAMYLAKENGRNRVQVAAAASSPV
>Rfer_0566 response regulator receiver domain protein
MSLILAVDDSPSMRKMVSFTLTGAGYQVVEAVDGVDAYEKAQAQSFDLVL
TDQNMPRLDGLGLTRKLRDHPQFKTVPILVLTTESSDLMKQAGRAAGATG
WLVKPFDPARLLEVIKKVIK
>Rfer_1486 two component transcriptional regulator, LuxR family
MNQPAIHIVDDDPDIRDGLAWLFDSRGYVAATWDGGPAFLDAAKAMLGHW
GHAVVLLDVRMTPLSGLVTFERLKALCCPWPVLFLTGNGDVGMAVAAVKS
GAWDFLEKPFQDNELVDRVEQALAAASAISDTDLEVYRLKQALTSLSPRE
REVLDELIRGHYNKTIADHLGITPRTVEFHRSHIFEKMGVSSAVELAHKL
GRLQPLSIIQPPQT
>Rfer_2636 transcriptional regulator, LuxR family
MTLRYYLTSYVVFRKVQTLSPGHPQRMDINYRLAFDLAPVGLALSSNRSM
LDCNRHLCEMFGASRELLVGQSFQVLYPSAIEFERTGSRIAPILNRNGTY
ADDRIMKRANGETFWCHVTGRALNPSAPHETGIWTFEDLSSRRPVKAELT
AREREVAAHLMDGLTSKEIGKTLAISHRTVEIYRARLMRKYTASNTGDLV
HKLMAG
>Rfer_0704 two component, sigma54 specific, transcriptional regulator, Fis family
MTPETVRSLLIVEDDLALQKQIKWSLDRFESVTAHDRSSALLQLRKCLPA
VVTMDLGLPPDADSVSEGLKLLEQVMAFDPDIKVIVLTGQNDQANALRAV
AMGAYDFFAKPFEPELLNLTVERAFRMFELQRENRRLQALQQPDAMAGLI
TRDPEMLRICRTIEKVASSNATVMLLGESGTGKEVLARGLHQASPRRAEK
FVAINCAAIPENLLESELFGYEKGAFTGAAKMTLGKIEMAHGGTLMLDEI
GDLPLSLQAKLLRFLQERVIERVGGRQEIAVDVRIVCATHQDLAALSKDG
RFREDLYYRLAEIVVNIPPLRERVGDAALLAHAFVRRFAQEQNRSAMTLT
EDAVQAVENHLWPGNIRELENCIRRAAIMADGSQIGCDDLGLKSLQNDET
DTSLDLRVIRDDAEKRAIVAALGRVNGNMVRAADLLGVSRPTLYDLMHRL
ALK
>Rfer_0657 protein tyrosine phosphatase
MIQRLKNFCFFRGSAPIKCASMTKLLMVCMGNTCRSPMAQAVIRKLALET
GLAQPFEVACAGTHAHHLGERLDPRAALTLTRHGYEMGRVRSRRITEQDF
QSFDLILAMDSSNLTELHRLCPAEQGHKLHLLLDFAEEISETEVPDPYYG
NQEGFEQVLALCEAGARGLIRRLLQKPSKIDAAVPPAG
>Rfer_2198 UspA
MFKHILVPVDGSPTAQLAVEKAIQLAKAFDSRVSTIFVIDPYPFTGVGTD
FAYGQAEYLSAATAEANAAVKAAKAAFMDAGVSVEASVIESHSAWRGVVQ
AAESMQADLIVMGSHGRSGLEKLVLGSVTQAVLSHTKLPVLVVRD
>Rfer_0570 CheD, stimulates methylation of MCP proteins
MNMFASGTAALPLRASGVVVAPTVLAGGALSRVDQLKAQIRNPGEASFFY
RDHHFQYDAVKVLPGEYFVSAEDLVIMTVLGSCISACIWDGRVRAGGMNH
FMLPDGDSVDGFGRYGSYAMELLINELLKKGARRESMQAKVFGGAAVMAG
FTTMNVGERNTKFVLDYLATERIPVVSQDVLDIHPRKVCFFPVTGKVLVK
RLAHSHPETLAVEERKGNAATVAKATSGGSVDLF
>Rfer_0509 periplasmic sensor signal transduction histidine kinase
MFFKKLYVRIWLAVVLAVAVLTLLVGWAWRLTAEPPLRNVVIRDHVGRII
GNGHSRMRRPPDVGFGENSDRAPDAQDRWLGPYSQYGNDPEFVVVMNDGQ
MVHLQFPRPPQSPWSRPPFGFFWTLSLVGIAVALATYPIIRKLTRRLELL
QNGVEKWGEGDLSIRVPEAGADEVTFLAARFNHAAERIETLVKSHESLLA
SQKSLLANASHELRSPLTRIRMGLELMGSSASPAFKNEISRNISELDQLI
EEILLASRLDAREADMGTIESVDLIGLAAEECARVNAELDVQLASDSSAT
PTEPAGPSDLPVQGVTKLLRRAMRNLLENARRHAAGEITVTLRKTDRQAV
ISVCDRGPGVPPELRERIFEPFYRLPGATERDGGVGLGLALVKSIALRHG
GTVSCENRPDGGACFVVRLPLSPVDKV
>Rfer_1136 periplasmic sensor signal transduction histidine kinase
MTNIGLTQPNRTSHRIPWLMGLGYILVFLLLDWASYIRPFQGLNITPWNP
QPALAVALLLLNRRWLWIVWVSLITAELVVRGNPADWLVVLTSTAALSLV
YAAIAHSLTTRMDRALALATQRDLLWFTGIVVTGALLSGVVYITAFSVAG
LGPSGPTYEPIVRYWIGDAVGLIVLLPMLLVVMDPLRRATLVETLKSRQW
WAVAVLTCLLLWVVFGPGGQDHFKYFYLLFVPVVWASAKLGVPGAVLASG
LTQLGLIFAVQSVPNEDLTVFELQVLMAAVTMTGLLLGVAVDERTRAAAE
LRGSLRMAAAGQMAAALAHELSQPLTALSNYAQACQMLVTDAPGLQPDHR
DQLVEVMQRMVDDANRAGNVIKRLRDFFRTGSTHLHLASPTAIVEEAVQV
HLRRADALKLRMESQIQDNLPMVWMDPIQIAVVLRNLVTNAIDSAAATRN
GDLVVIRACVTDGELLIEVRDNGPGVGTARLQTLFEAGPSDKPGGMGVGL
SICRAIVEAHGGRLWAEPGSEGCFRFTLPVESENHSEVKNA
>Rfer_3821 periplasmic sensor signal transduction histidine kinase
MSLPPSHSLRGRLLWLLLVAIIFLAGVQAVIAYRTALAEADVIFDYQMQQ
MAMSLRPGLPVGGGLDESYETKDEENFDFVIQVWTADGLRVFQSSARAEL
PQRAVLGFSTVQARGTTYRLFSVAAGAQVIQVAQDMAARREMAGTLALRT
VSPMVLMVPLLMLVVWWVVSASLAPVSRVRRQIATRQADELGELSEDDLP
DEIRPLVHELNLLFHRVRQAFDAQNNFVADAAHELRSPLAALKLQVQGLR
RAADDATRDVAINRLNAGIDRATRLVEQLLVLARQQSNSALGAKAVPIDL
TTLARLALADAAGAAAARQIDLGLAQADPGIVMGHEEALRILMRNLLDNA
IKYTPVGGTVNLAIRGEDGQTLLTVDDSGPGIAAEDRQRVLDRFYRVAGT
EGSGSGLGLAIVKTIADLHQATLSIDRSESLGGLRATVTFTRVS
>Rfer_3453 two component, sigma54 specific, transcriptional regulator, Fis family
MTEIFQVLVVEDDPDVRLGCEQALQLEDIPASGLDSAEKALRRVTRDFPG
VVVSDIRLPGMDGMALLKELRAIDPDLPVVLITGHGDVSLAVQAMKDGAH
DFIEKPFSPDYLVEVVRRALDKRRLTLEVRQLRARLSNRDQLEAKLLGRS
PAMARVRQLVADLGNSAADILIQGETGTGKELVARCLHEAGPSRSGHFVA
INCGGLPETLFESEIFGHEAGAYTGAGKRRIGKIEYASGGTLLLDEIESM
PLSMQIKLLRVLQERSLERLGSNSPIPVNCRVIAATKVDLKELSDQGRFR
ADLYYRLNAVTLQLPPLRERREDIPLMFEHFLLQGAARHQRPVSAAEPPR
QGRLMAYDWPGNVRELRNVADRWVLGIELGFPPFAAEVSAGPRQLAETVE
AFESALIAEALSRNGGSLARTAEAVGMAKTTLHDKIRKYRLGKLN
>Rfer_3654 diguanylate cyclase with PAS/PAC sensor
MLAREEKIKNTDEPLARLDGGADPLIAGAPSLTLARYAVAAVLIGAVASM
MALGVLLPEASVRTVGPLLLFLIAALAWYPLSRGKIKTAVCVLTFGVWAV
MTGIAVFAGGVRAPVVIIYPVLILMSGWLLNARVAMLLTAMTVLTTVGLF
LAESWGFLPPPLASPVVIYFGDQILMYLLSAALVVFVLRAYQNRLRELRQ
ASSDLEHRTLALQERKAELHRAQAVAKVGSWVYDIAQETMSLSAEACRIF
GLAEGSSVSLATYLSQVHPADRNELEHAWQRALQGDAIDHTHRILVGKTV
RWVRQKAESGFAPDGLKRRAVGITQDITELKEAQAALQESEERYRTMIEW
TPESILVHRMGKILYANPAAIKLFGAPDAASLLRKSTSELIHPDDLKSQT
ERMKSISNHVPITPMVAARFLKLDGRVIDVEVQGTAIIYDGEPAIHVCIR
DISTRKQMEDQIRQLAFFDHLTLLPNRRLLTDRLSQAVAASKRSSCFAAL
LFLDLDNFKPLNDQHGHAVGDLLLMEAAARLMNCVRGVDTVARFGGDEFV
VLLTELDARHAESTEQAAIVAEKIRTSLSIPYQLTVKTKEQVATRIEHHC
TISVGAVVFRGPESDPDDVLKWADTAMYQAKQAGRNSIRFYASTEQATGH
RS
>Rfer_2217 putative serine protein kinase, PrkA
MNVFARYQGRFEAAKEEEMSIQDYLDLCKRDTTAYATVAERMLRAIGEPE
LVDTRTDPRLSRIFANKMLRRYPAFRDLYGMEEVIEQIVSYFRHAAQGLE
EKKQILYLLGPVGGGKSSLAEKLKALIEVVPIYTIKGSPVHESPLGLFNP
LEDAQILEDDYGISRRYLGTIMSPWAVKRLHEFGGDITRFRVVKLHPSVL
SQIAVSKTEPGDENNQDISSLVGKIDIRKLETYSQSDPDAYSFSGGLCLA
NRGVLEFVEMFKAPIKVLHPLLTATQEGNYKGTEGFGAIPFDGLVLAHSN
EAEWLTFKNNRNNEAFLDRIYIVKVPYSLRVSDEIHIYEKLLANSSLVKA
PCAPDTLKMLAQFAVLSRLKEPENSSIFSKMRVYDGENLKDTDPKAKSYQ
EYRDFAGVDEGMTGLSTRFAFKILSRVFNFDHREVAANPVHLMYVLEQQI
EQEQFPAEVAERYTRFLKEFLSPRYAEFIGKEIQTAYLESYSEYGQNIFD
RYVTYADFWIQDQEYRDTNTGEILDRGALNSELEKIEKPAGISNPKDFRN
EVVNFVLRARAKHEGQNPPWTSYEKLRAVIEKKMFSNTEELLPVISFNAK
ASGDEQKKHKDFVNRMISKGYTEKQVRLLCEWYLRVRKSS
>Rfer_3685 two component transcriptional regulator, winged helix family
MRLLLIEDDAVLRLGLKRQLEADGYRVDQAGDGADGLFQAREYPLDLAIV
DLGLPKVNGLTVVQTLRAEGRTLPILILTARGSWQDKVQGLEAGADDYLV
KPFEYPELAARVKALLRRSLKATSDVLTLGALRIDFSGQSARLHDVPLQL
TTFEYRVLEYLVRERARVVPKQELSDYLYPHDEDRDSNVLEVLIGRLRRK
LDPDGTLLPIETLRGRGYRFALQ
>Rfer_4051 HD-GYP domain-like
MLAGSPHPVSSCWPAFGVGRPRAHQIFACMGIIHHFMNLVTVSIDSVLIG
RPLPFSLWDESGVLLAPKGFVVKSRADLDSISDKRGQLFMDAADSESYQR
AYVGKLHSLVRQEKPLGQIAESQFSTFELENSRATRDSTGTDEPDWLDLQ
GQTQTMLLDVNPASFCARLDKLQAQLSRHLRQNPDGTLFALIHLTGSEMQ
LYSATHAMLVSAMCSLAAREVLKWPAALETLLAKAALTMNIGMTDLQNRL
AMQTTEPSPEQRAAIDEHAALAVTLLKQLGITAPLWLEAVLHHHTKTPGP
LAGRSEGQRIARLIQRADMFAACLAPRASRPAKSPANAMQASYFDENRQI
DEAGAALIKAVGIYSPGTYVRLATDEIAVVIKRGANTTTPRVAVVINRSG
MPTGELIVRDTSKREFRIVIGVAQRDVKVKINLERLLALTKLPSTDRPW
>Rfer_1666 UspA
MKILLPVDGSTVALDAVRFAIRMAQDGLESSMVLANVQESATLYELMVAH
DPQVIEEVSAAAGAHTLAAAEALLQEANIPYESEVASGDPAHTLIDILER
FGCDLVVMGASGMSPLRSALLGSVSNEVLHAANVPVMIIKAAQAPDVDEA
DLDEVQ
>Rfer_0116 diguanylate cyclase
MKSSRNPNKSLWLVLLALMLAFVFETAAWWWASQTPRASSLQGPIWLGLG
AALCGLAAAVLLWRQLRTATRATRRARQLLASSLDTLDVGLEIWDEHDRL
VLYNKKINLIYKGFHTPADIGQTFEALMRAKLKRQAIPAAIGCEQEWLAQ
RLASRGTHKAHTLKELTRNQWVNFYETRTSEGYLVAAWVDVTELVLKGKV
LEANNQRLAQQTAMDGLTGLANRRRFDEALTVEWQRAARGRTPLSLLMVD
IDHFKNYNDNYGHLAGDQCLRRVSSVLSRCVRRAGELVARYGGEEFVLLL
PGADMAHACEIAQMCLDLMQQECVAHAASPTSVYVTLSIGVACALPDAML
DDPASLVNAADAAMYRAKSSGRAHYEVADQADWEIDDNTPRTQPSSLS
>Rfer_3932 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MKTRSSFETKVLVAFTAAVLVVAGLATTTWKVAQGAAEAAHWVAHTHEVL
DSLAQTRANTLQIEFSTQSYRISGDPARLAERDATIATRETLLSQVKQLT
SDNARQQERWMRLREVIDERLAISRRVEFLRKTQGLEAASAFVASAPLQE
TRERTYGLLREMNEEERRLLEDRNAEQLRARQSMVAAGALVALLLLALLT
ATFGLIRRQLRETEASRRALADSEESLSTTLYSIGDAVLATDTEARITRM
NPVAEALTGWPFADAQGRPVEEVFRIVNEHTREPAEVPVAKALATGEIQE
LANHTVLIARDGSERPISDSAAPIRDTRGRVGGVVLVFRDVTIAHQAQQT
IREQNELLEQRVHERTIQLHESEDHLRSVISNVPVMIAYVDAQQRYIYVN
QSYRERFSPGQADIAGQTVRDILGHERYAVAAPLIAKVLQGQPQSYDWQP
FPGVWQLVNYVPKRDAREGVVGYYVLGTDLTERKHAEEKIRTLNAELEQR
VRELEHVSRALRTLSAGNRTMLRATVEQGLLDNMCRAIVANGGYQMASVW
YRIDDEFKSLRAMAESGHPGGLDALHQMKGSWADNEYGGGAVASAIRTGQ
ASVVQNILADPNYAPWRPYLPGYACVIACPLRVDGEIIGGLAIYSAEPDS
FGLDEVTLLTESADDLAFGIATLRARAEQQKIQQAMERLTRYDALTGLPN
ETQFTEFLAAAIDAAKRLNQPFAVLQANVERLSEINDALGFGHGDQLLRE
FGARLCVAAPASAMVARLRGDEFAILLPDSNANSVITMLQRVEDVLAQPF
PVADIAPDVSAKIGVALFPQHGATPHDLFRHMDMAVHQAKKKGVKHAIFD
PDLNQDQSRRLTMAGELRRAIEGGDLLLYLQPKVEITTGRLCGAEGLVRW
KHAERGLIPPGEFIGLAEQTGLIKPLTEWVIKTSLRLNQAWQYEGCALPI
AVNLSAHNLHDERLLQTIRHLQTTYGVAAGLLELENTESAVMDDAEFALR
VLHSLRDEGIPLYIDDFGTGYSSLSYLQKLPVEYIKIDQSFVRDMTISRD
SSLIVRSTIDLVRDLGRKTVAEGIETQEQWDQLAACGCDIAQGYFIARPM
PAEDFQNWVKQFRAPVTTPSGKACGTPLDIQSAIS
>Rfer_2981 signal transduction histidine kinase, nitrogen specific, NtrB
MDKPDHTPTAPDVASSAAATLRFQSFDLLATLVAVVHSNGTVLFANAALE
DARGMSRRAIVGSCLSDSFTEPARLQQALQSADDNEFAALRYDTWLKRLN
HEPLPVHVIVTRTETEDEIVVELLPLEQQARQDREERLAEQAQANKELIR
NLAHEIKNPLGGIRGAAQLLELEMDSAELTEYTQVIIHEADRLQTLVDRL
LAPHRRPHLVGDVNIHEVCEHVRLLLSAEFPKGLQVVRDFDTSIPEFRGD
REQLIQTVLNIAHNACQALAAQIAQGSACLTFRTRIARQITFGKQRYRLA
LELHVIDNGPGVPDSIKDRIFYPLVSGREGGSGLGLTLAQTFVQQHHGLI
ECDSVPGCTDFKILIPLP
>Rfer_2018 phosphohistidine phosphatase, SixA
MDLILWRHAEAQEWLEGCDDMARSLTSRGEKQAARMANWLDRQLPEGTRI
FVSPARRCEQTAQALGRKYKLREELAPAASADQLLALVQWPLAKGTVLVV
GHQPTLGQTIAQLLGLSAPECAVKKGAVWWLRNRQREALSQTVVVAVQSP
EVI
>Rfer_2553 response regulator receiver and ANTAR domain protein
MNPSLRIVVVAPDLDVANPEDEQAIRQAERSRNLRIGLLENGFNLVATLP
ADVFLTERIAQLQPDLIIVDAESDARDSLEHVVMATREERRPIVMFTNDD
DTGHVKDAVAAGVSAYIVAGLSPERIRPILDVALARFQHEQALLQTLAST
QSERDELSAELKDRKVIDRAKGLLMQRQGLSEEDAFKKMRKTAMDKGLKL
ADVAQRMLDVADLLA
>Rfer_0897 response regulator receiver domain protein
MIKILLVDDNLTFLTAVKKFLAMLPDAQVIAEAHDGRQALAQAAQWRPDL
VLLDIMMPGLNGLEVAKLMQAWPQAPHIVFLSMHDNASYRAVAHELGALG
FVGKADFVAELLPIIASLVATGGAHPTGDSA
>Rfer_0627 metal dependent phosphohydrolase
MNTFQKRTAIRIAAVSILLASLASPIAWYVARESAEESIVALAVEESGRL
LHQFDAIDLSGPQATQHATLAANAISGGMFDIVEIYDAQGRKLAESVTPE
GHAVESSLPHHGTPDYTTAFYNGHKPASGVWALRVFVPLRDSATDMSRPI
TGYFEGVRVMPTWQQDQIFNNSLSAALMVGLASLLCGGALYPVVVHLSAD
NERKAQEVLDSHISMMEALGRAIAKRDSDTGAHNYRVAWIAASIAEQMGL
AGSDMQALIAGSFLHDVGKIGIPDAILLKPGKLDDDEMRVMRTHVAQGEE
IVNGMGWLEGANAVVAAHHEKWNGSGYPRQLSGEDIPLAARIFAVADVFD
ALCSKRPYKEPMGFDAAMVILEKDTASHFDPSVMAVFRPMARATFDRLAG
ISENATRQLLEDRVRHHFEM
>Rfer_2485 diguanylate cyclase/phosphodiesterase
MDNLNQGLDRLLYALSTYALPFFIGLMSLLALFAWKTQYPAADPQQLQIR
VIKESAAVAGPAQALAQLRESSISQFHDTRLSEVPVWLTFVVPEDVEHTP
MMVEFPSRHAMDIACWDARTLKALGTGNHQGTTGGITAIKAGFALELSPA
LKDEQVVCRTSAIGPARLSALIWRANNLQTSAQEFHRKSGLLDGGIIVLA
IFVLVTALINRNRLYVLFAAWLVINLRMGALSAGWDTQWLGYTVPYDWLL
QGRMITITLYYVLTLILFTSLFRDDLLHVGHEWLVRVFQWTCFPLLILSS
FLPSSSYLPLFWPVVGAGISMLAYLLVRILRKTRSRVAMWYGAAISITLV
ASFYEVLSAALGIKGLIGSVNSVTAALVSSLLAALAIAEQMRHEHVQRLE
VQAKLEHTYAAMPIGLFTLDLRGRFTSANPALVGMLGPNVLTDGANAWQQ
YFTNGAWTQLHQMVHNKSEDEMEIQGKPVPGYSGSKCFLVKATLAGDKIE
GSLQDVTEKSRATADLYFLADHDSLTKVLNRRGIAKAFNSAIASLTDRNA
PVALAYLDLDRFKLINDLFGHGVGDEVLQQVCGRVSDLLSRELQFGRVGG
DEFVIVFPDTPIARAAVMCRGIIDSIDTLPYHVGENAFHVRGSIGLIEVR
AGMQFNDAMSTADRACRQAKSGSSGGLVVYEKNAIAFKKHEAELKLIALL
ATSSATDGLYLEMQPIMSLTKPYESLNFEVLLRMRDIDGNVVPTDRLIAA
AENSGRMGMIDRWVLSTTLAWLNTNYTQLKHTKFVCMNLSGASLNDEKFL
QEVYVMLEQNLHLVGQLCLEITESVALHDLENTRRFVNKVRGYGAKVALD
DFGAGYTSFSYLKEFTADLLKIDGSFIVNMNKHPANIAIVEAIVNLAKNL
GMKVIAEWAEDNATVQTLTEIGVDYVQGFAVARAQHPDRLLKAESSASFI
QDEALAQYVCLIQKSNQMLPQVDMFSDVRVINMH
>Rfer_3454 histidine kinase
MSPHQTKLLSRVGLFLGFVTLIAGASLFAFRFSLAMGLAELQVTGRHRLD
LYATSLEREIDKYAYFSTTLGLERDVLQMLAAPHPTRTAQVNQYLEQLNE
RAGTLSIYVLDSKGKVLATSNWRRPDSFLGEDLSFRPYFRQAMETGSGRI
FGIGTTRGEPGYYLASSLTNGQGTVGVAVVKVGLQQLEKSWVTAEAPVLV
ADENGVVILASVRDWKFTTLTPLDEATRRAFDRTQQYNRRALNPLGVVEM
TALEHGARLVSLPKLGPEMVSMFPVAGKFLAQTQPLPGSPWSITVFSLQE
QVRGMAANRAAVAGVGAAFLCILTLMLNERRRHLKDRLAAREALQQAHDE
LERKVVERTADLSAANTRLQVEVAERTRAERTLRAAQDELVQAGKLAVIG
QLSSGIAHELNQPLAALRTLSGNARKFLARGDQQTADSNLNRIADLVDRM
GRLTGQLKSFARKSSGRPQVVPLRRAVDNALFLLEQRLRRAGVVACIDLS
DEELQAWCDANRLEQVLVNLAGNALDAMEGQPAQALDITARRQGERILIQ
VRDRGPGLSAQARTHLFEPFFTTKEAGSGLGLGLTISAGIVADFGGSLSG
DNHPEGGAIFTLDIPAAPGGPTT
>Rfer_2728 serine/threonine protein kinase
MVDFSPLKTIRKLAPGLSAPAQPAMLGRFELRCILGRGAQSTVWLAFDPR
LERDVAIKLMKIGAGSDASALAQWLQEARSVSRLTHPNIVPVFEADVQDQ
QPYLVFEYVPGQTLADRLAKQGAMLPTEAVALMLGVLDALVVAHAAGVIH
RDLKPSNIVIDPTGRARVMDFGIAARIQEEGGNSAEVPTGGTPGYMSPEA
AQNLPPTPLMDIFSAGMVLAEMLSGQPLNAERDPYRAIYRVLHEQFTLSP
DLSGDVDDQLRAVVMRALARDPLQRYSSAQVFRDELANWSGVAAAKAGQN
TGAGAASNNSTLAFLLRRMRHKSDFPALSDAVLRIQNMASSEKESINSVT
NEILKDVALTNKLLRLVNSAHYARGSSIGTVSRAVSLVGFNGIRNMALSL
VLLEHMQDKAHAHVLREEFLRSLMAGSIASELCPGMQGTEEAFLGAMFHN
LGRLLAAFYFPEEARTIRGLTETSHQPVSETTASVSVLGLSFEALGVGVA
KAWGLPEDLQRCMHKPSGEPPTRTLLDGVERQRWLALAANDMADVMLHAD
PQAVDGQLAQLGKRYARALGVSSSEVQVATIVARKKLIEMASVMDIKVLP
GSAAAKLLKAPAEPDGPHPNSGDEASDSLYPMALQATQAVLAQANEVEAR
DTQQVAQILAAGIQDITNTLVEDFQLSDVLRMILETMFRAMGFQRIIFCM
RDPKTEILSGRFGLGQGVEHLVKQFNVSLKTTPPDLFAVVCSKGIDTMIR
DASEATITSRLPAWYRELFNAPTFLLLPVNIKGRPFGLIYADKADKGGLV
LDEKELALLRTLRNQAIMAFRQST
>Rfer_1889 response regulator receiver domain protein
MTLVVVEPAGPALHWSTNSLEYQHESRPSMDHPSPKSVLIVDDSRVSRLL
IRSLILAQFPHWTVTEAVSGDEALALAAARPFDYCTMDINMPGLQGTEAT
EQLLKMQPTVRVALFSANIQESQQIRATQLGAQFVAKPVTPKSVALALAY
FQG
>Rfer_3027 bis(5'-nucleosyl)-tetraphosphatase (symmetrical)
MALYLIGDVQGCNSALQRLLDEISFSPSRDTLFLLGDLVNRGPDSAGVVR
RLMGYGAAAQCLLGNHDLHLLAIAYGARRPGRHDTLNGILDAPDRQAMLD
WLRWQRMAILEQVAGHDVLMVHAGVLPTWTATQTMALAKEVESVLRGAAL
GEFLQQMYDDQPDHWDEALTGTARWRVIVNALTRLRFCTPAGQMEFRTTG
GLDAAPAGYLPWFEVPGRQTSGVMLAFGHWSTLGWLGRSDVLSLDTGCVW
GGALSALRLESVNGQLQQQLIQVKCQQAQKPG
>Rfer_2262 response regulator receiver modulated diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MNPSTRTCILIVDDVNENLHALMNILRDDYAILAANTGEKALELARRVPQ
PDLILLDIKMPGMDGYSVLAHLKADPKTADIPVIFVTALADAADEARGLT
LGVADYITKPVNPDLLHLRVRIQLELQRHRRQPVTFDIAHQQERQASLLV
VDDVPENIHELLDALKEEYRIMVANSGPKALELVQGPTPPDLVLLDIVMP
GMDGYEVCQRIKASAAGNGIPVIFVTVVDATDQKVKGFDLGAADFISKPF
DIDEVRARVRTHLELARLRFSLEQLVAQRTALLNKSEEKYRILADYSPNW
EYWMAPDGSYLYVSPACVHESGYAPQDFFDNAELMDTIIHPDDLSAWNKY
GPAAAGTVSEPLIFRIKAKDGGERWIEHVSNRVLDTSGRSLGQRGSHRDI
SKRHETEQRLDFYINRDPLTGLPNRVLFREFLGRTLQRAERDQSQFALLI
VNLDNFNSVNQSLGHSQGDQLLIEASKRLRTLLPDLDAVARISGDEFNII
LNQGENAPPIDLVAQRMIDALGIPFNLNDSSVYVGASIGISMYPSDGRDV
ETLQSNAAAALHQAKSRGRGMLRFFSMEMMGRSKARLTLEAALRQSVERD
ELRLYYQPQVDLISGEIVGVEALVRWQHAERGLIPPNEFIPLAEESGYVV
TLGDWVLRTACRQIKQWAGLGLPLRQVAVNVSAVQLSRGKLVESVKDALQ
ETGIAPGMLELEITESSVMLDRERSLETLASLKALGVQLSIDDFGTGYSS
LAYLQQLEVDKLKIDIAFVRDMTTNSNNAAIVKAVIALGHSLGLEIIGEG
VETADQARHLRTLRCDIMQGYMVSRPIPGAEMTQFMRTFKPVVIPAGDQR
AAG
>Rfer_3121 periplasmic sensor signal transduction histidine kinase
MNSSLRRQLLAWVLLPLICAVAVDTWLTFKSSVDTASVVQDRLLLGSARM
IAQQISFEDGSFQHQIPPAALELFQSEESDRIFYRVTTGAGQLLSGYTDL
PVPVLDSSPDSPFFFGATMRGEPVRVVAFFQPVIGNPSVLPVVVEVAQTT
RAHKQLTNKLWLHAVGQQLLILALVTIFILFGLHRGLQPLIRLRNDVRSR
KEGSLQRLQTNRIPAELTPLVDSFNDYIQRLENYTSRRGAFIQNAAHQLR
TPLAVLTTQISDALRAENKEIGDRSLIAAHRTLQQTGRLVNQFLTLSSAE
AYVAAKTLMSTQECCDIVQGILEDLAVQAHSKNIDLGFERIGGDTVISSD
PAAFREIAVNIIDNAIRYTPAHGVVTVRVQSTEGKIALAVEDNGPGVPLE
SQEKIFQRFYRIGGTDSAGSGLGLAIVKELASQCGATIRLAAPAHGGSGL
LIVIDFF
>Rfer_2826 UspA
MYKRILLAYDGSAPGQQALLDCNEIAQWSHSELTLIAVMPLALTVIGPES
GVYDESLQAGEKGRYQAILDTGVRKLADAGMTARGEVVIGDAVTEIARCA
RRIDANLIVVGHKHLEGWAARWWRGSISKALIEHAPCSVLVVITH
>Rfer_2211 multi-sensor signal transduction histidine kinase
MLASTLGTMPSSSLIPLAGPEKLTPPARLKRWWQRLAPQRQDRFAVLAPL
VAVVLFLAAIVAAFGYLRLEEIEREQEAVNRDVEYTQQRLRLRLLERQEQ
LMRIAREVSNRELDADEFQSRAEAIVNQYPELESLSWIDNRRNVKASFGS
VSLAPHLVKKIGSTLEPGESVSSYNLARELQQPIYAMHAAGANSPAVLQL
HIPFSDRARFLGVLLAEYSIDGLFRYGVPAEVSARYAVSFHDANGGLLAG
TSIAPRKPGARLLPWDKPVNFYEVPVSPVGNGLIIRAQAYRASLGVVGSG
LFWLVNALSLMTAWMLIANWRHTRRRMQAQQALISETSFRRAMENSMLTG
MRALDLQGRITYVNPAFCRMTGWSEPDLVGRTAPFPYWPEADIDSLSSRL
QEELAGKIQSSGIQFRVKRRDGSLFDARLYVSPLIDAHGIQTGWMTSMTD
ISEPNRIRDQLSASHERFTTVLEALDASISVAPLGSDELLFANKLYRLWF
GTEAGGHLQLVAEAGVPATPTSDDSLDPVDAFAGLPTNSLPDSDPESAEL
YVDALGKWLEVRTRYLSWVDGRLAQMVIATDITARRVAEEQSAAQIERAQ
TASRLITMGEMASSVAHELNQPLTAINNYCNGMVSRIKSQQISEDELLGA
LEKTAKQAQRAGQIIHRIRSFVKRSEPNRSPSNIESMVDEAVELVEIEMR
RRNVRLTHYVAPRLPVLLVDPILIEQVLVNLLKNAAESVDAAQRPTAQRS
VMLRVAPTQVDDKPVIEFAVLDSGQGLAPEVMARLYEAFHSTKAEGMGIG
LSLCRSIVESHLGRMKAENLYNGPDLTGCCFSFWIPMIEVLPPKARLPAG
QANDNQGHPSKT
>Rfer_0894 two component transcriptional regulator, LuxR family
MKPVRVLLADDHTLVRAGLRKLLESMPDVEVVGEAADGLALLALAAELQP
QLVMMDIAMPGLNGLEATARLAKAWPTIRVLILSMHQNEEYVRQALRNGA
AAYLLKDCAPLELELALKAVLRGETYLSPAVSKGVVSDYVQRLRGEAQPG
AQLTPRQREVLQLIAEGQSTKEIARRLDLAVKTVESHRSQLMKQLDIHEV
AGLVRYAMHVGVVTSGL
>Rfer_2788 periplasmic sensor signal transduction histidine kinase
MLQKFSFRQLLVIAFLLIAALLGAASLRALFTLEELTLQSRDGASQSLEL
SRLAQSLSELSVSMERTSRQSVVLDDRVLRVRFSDQAREAATLLASLTAQ
GLPSGLKQQWQAHLQAAGDLLTGAPDTALERERQIAQEFRSLDHVNSAIA
VQVQKTIQQRNQALEAKLEDSRSHLAQQVTWAIVLAVAMALAFGIWFTVP
LKRLEHAIVGLGENRLDQVIAIRGPADLAMVGQRLNWLRLRLVELDADKS
RFLRHISHELKTPLASLREGVSLLEDGVAGELSPEQREIAQILRHNAGVL
QGQIEDLLRFNTAAFEARQLHRRTTNLLELVEAQVDAQRLQWRARELSVI
VVGKPILVELDPEKIGTVLANLLSNAIRYSPLKGDIRLELSKLPGLVRID
IHDQGVGVALADRERIFEPFYRGERQPSDVVRGSGIGLSIVHEYIAAHGG
RIELLPDQGGAHFRIEFPHVFKS
>Rfer_1981 metal dependent phosphohydrolase
MNHIVMDDVLERIHNLPSLPVVVMELLACMGQDDANIEALAEKITKDQAL
SAKTLRLANSSFYGMARQVTTIQEAIAILGFRTVRSLAATAALIGNFSAN
PGNSFDFTPFWRHAIGAAVCARELAPHLHLNPDQAYTAGLLHDIGRLVLV
TQFQPQYRATMTYRAERDCHLLDAEHAVLGLDHAQVGHALTQLWQFPLSM
QQALAEHHAPSSLGMQPLSLVVMAADAIAHALDLSMDADDLVAPVPPGLW
QQLGLDEATLLQVFASVEQQFDATSLLLNG
>Rfer_0615 transcriptional regulators, TraR/DksA family
MTQKLNTTFKEQLLAQRASLLAQLSDLRGGTVGRAEASAEHFGQKEDSTA
QESSARELEFALDARDSEELDRLDAALRRIEDGSYGLCVDCGVGIPAARL
HAAPDALRCIACQEKLEKAQARQA
>Rfer_1021 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MNFHLLHLRSLKTRVTLFTLTIFMVSMWTLAFNTNRMLHADMERVLGERQ
FATVSMKAEEVNEELERRMQALENVAHRVSPALLANPAALQALLEEHVIL
QSLFNGGTYVTRTDGTAIASLPVSANRISINYLDRDYLAAALKEGRTIVG
RPVLGKSINAPILGIGLPIRDTKGLVIGALAGVINLGQPNFLDKIAASHY
GKTGGYLLIAPQHNLFITATDKSRIMQPLPAPGLNPMQDRYMQGFNGFGT
AVNSHGIEMLSAAQRVPVAGWVAIALLPTAEAFAPINVMHQRMLLTTLFL
TLLAGALTWWVLRRELLPLFKAARSLATQAETDQLPQPLPLTRQDETDQL
ISGFNRLLQTLTRREESLKESEEQHRRLIDNSHDVIYTLTKAGVFTFMSS
AWTALLGHPLNQVVGQTVFTFVHPEDVAVCTAFMQGVMATGQSLEGIELR
LRHLDGGWRWFHTNAVPLKNETGKVIGLQGSAMDVTVRKLAEEDTRIAAT
AFESQQGMIITNAEKVILRVNKAFTEITGYTMEEALGQTPRLLKSDRHDA
GFYGAMWASVARSGSWQGEIWRQRKSGEQYPEWLSINAVKDAAGLVTHYV
GVFSDITERKISEEKIDRLAFYDALTGLPNRRLMIDRLQQALAATARHHC
KGALLLVDLDNFKTLNDTLGHDQGDLLLQHAARRLSACLRESDTVARVGG
DEFIVLMEDMSQSDQEVATQAKALGEKIIDTLGQPYQFGSSSHYSTASIG
ITLFDGAQQESTEEPMKQVELAMYQAKAAGRNTLRFFDPQMQAVVTARAV
LENGLREALEQNQFLLHYQAQMVGGRQITGVEALVRWRDPRRGMVSPVEF
IPLAEETGLILSLGQWVLETACTQLARWATRAEMEHLTVAVNVSANQFQQ
GDFVEQVLAVLERTGANPNRLKLELTESMLISNVEGVIAKMSALKGRGVC
FSLDDFGTGYSSLSYLKRLPLDQLKIDQGFVRDILIDSNDAAIAKMVIAL
AESLGLSVIAEGVETEAQRDFLAGLGCHAYQGYLFCKPLPLEEFEAFLQR
A
>Rfer_3941 protein serine/threonine phosphatases
MNYTFCTQTDPGRVRENNEDSVAFDAATNLGVLADGMGGYNAGEIASGMA
TAYIKSELARWLSEASPQANAGEVRRAIEICVDNANRSIFAASCSNRHYA
GMGTTLVVGVFLDNRLLLGHVGDSRCYRWRGNTLLQITKDHSLLQEQIDA
GLLTPEQAATAPNKNLVTRALGVDNVVSLELNEHRVEPGDIYLMCSDGLS
DMMPDAAIAEVLQHGISLLPMVQELVTLANQNGGRDNITVLLIQASASPD
KRGLMARLLGK
>Rfer_2263 periplasmic sensor hybrid histidine kinase
MTPTQTLTRRLLFAIFPWYLLVALCMAVAQLAIQLISVNRDIQSDLATLG
QTIAPSAAVAVWELDGQGLRSLARGIRQNAIVTGVQITAITGDLSAIDGE
LPEGDGEATHSPASAFNQTSVPLNYTSARGDTQLIGSLKMYSSRDVVWTR
SKYSVMVTLVNSLVVTTALWLIFSWAIRFRLSDAVTQVARAVRNWRFQRR
NLLVEPISYPYQDELGELVKAFNESRMQLSDSMQDLAELNQNLEAIVTVR
TQELQQAKDAAEEATSAKSEFLANMSHEIRTPMNAVLGMLYLLLKTDLSP
TQHNYLAKAQGAAHSLLGTINDILDISKIEAGKIDIESVEFGLDAVLGQL
TDAIGYQAEQKGIEFLIRYDGSIPPFLIGDPLRLGQVLLNVCGNAVKFTE
QGQVELGFLSTSQTEVGLTLQVYVRDSGIGIAREVQNTLFKKFTQADQST
TRRFGGTGLGLVISKSLVELMGGRIWIEDSQPGKGTTICFTVQLQLSEHS
RARQLELIEQTGPLLKGLRMLVVDDNEASCEIMAQTLRYFHVDASTANSG
PAALTILKNAAAHPFDLVLMDWRMPGMNGDEVTRRIRAEPGIAHQPKVVM
VSAYGHEDVIKLAEQARVDGFLTKPVSPSTLLDTVLSVLGRGRILAGGNK
QPASADTRGNSSLSGACLLLVEDNDINREFATELLRGEGIEIIEAVNGQE
ALDKVQQHDLDAVLMDLQMPVMDGLQATRRIRALANTPEGARFASLPIIA
MTALAMPQDAQKSREAGMNDHISKPVDPEHLMATLAKWIHLPADRTSAPK
PAISHPDLPQDLLGLSSLDAVEGVRRIGGKADAYRRQLRRFREHYADAVD
KLRHLIATQDAHQAGDYCHLLKGVTGNIGAQALYLQVALIDAQIKKDHTP
ANAELEAMQVLLQQVLQDIDRLGASTKPPEASATLLDGNQLRGHLEGLKQ
ALSYDLGSAEKILGQLFRGVSGTPLQADIAVIAGKVELFELDAAQLLLKQ
LQNRMKITT
>Rfer_1526 diguanylate cyclase with PAS/PAC sensor
MGRWHLTMKHAIHWNLWSPFIRNALLMAGLISAGLAVWSHYGWMALGGLA
ALALIVWQGTRLFMTRRRLTEQYRLVLLQKKRLRESEFRWKFAIEGSGDG
LWDWNVADGSVYFSAQYKQMLGLTVDEMDQRLQEWETRVHPDDKAGSLMA
LQSHLDGQSPVYAAQYRMRCKDGSYKWILDRGMVVSRSDAGKPLRMIGIH
TDITVHKQAEEKLQLAASVFTHALEGIMITDAQGLIIDVNQSFSRITGYE
RDEVLGRNPHLLSSGRQSQAFYAAMWRDLQEEGCWYGEVWNRRKSGEVYA
HLQNISAVRDAQGQTRQYVSLFSDNTALKAHQQQLQHLAHFDALTDLPNR
LLLADRLHQGMVQVQRRGQMLALAFVDLDGFKLINDSHGHEAGDHLLMTV
ATRMKQALREGDTLARLGGDEFVAVMFDLADEAACKPMLHRLLAAIAQPA
QFGGHTLQVSGSLGVTFYPQVQELDADQLLRQADQAMYQAKLAGKNRYRF
FGVE
>Rfer_2732 two component transcriptional regulator, winged helix family
MSQVPSRNDKILICDDDVRIRDLLRRYLTQEGFDVLQAEDGKSLTRLLVR
EPVDLIVLDLMMPGEDGLSICRRLRAANDRTPIIMLTAKGEDVDRIVGLE
VGADDYLGKPFNPRELLARIHAVLRRRPTQEAPGSPASDSAVVTFGPFTF
DLGARTLRKDDEDQPLTTGEFAMLKALVRHPRQPLSREKLAQLARGREFE
PFDRSLDVQVSRLRKLVEVDAAAPRYIQTVWGVGYVFVPDGAA
>Rfer_2284 putative adenylate/guanylate cyclase
MGEHTTVVFADLFGSTSVFEALGNAKATLAVTQITTWIAIVVESHGGRVV
KMLGDGVLALFPDSASAVNAVVEIQRRHQKRMTLVPPAQRMPIRIGVASG
DVELLAGDCYGDAVNIAARLSDLSGAHQIWANSAALDGATEAEGVRFRIL
GPINIRGRAEPCTVYQVDWQEDVASAFLTMQAEVDPQFDVTQNDVLGGQI
ELSWLDNRKTFQSFELPIHIGRMHQAEVVVNDPRVSRTHARIDWRNGSVM
LVDLSSYGSWVRFSGGGSDLLLRREECVLHGRGEIALGTSFADLSPPTVH
FSVS
>Rfer_1485 multi-sensor signal transduction histidine kinase
MLQQTLPRHASRNRRTLLWLLGLLLLLVGAVVTLVLYLNNFEAEEETRRR
AADAQWLEQSVQFHFRRLEDDLLVLARQSVLGDASARSKKAKSVEVQGGL
LWREPGVVLSHGWLAAGLSPDARVGPQRWQLDWAAHPANAQALATMQDTT
RGLRRSAYAGLMQQADGSLTDVVWLAVPFFDRGQFVGNYLAAVSLERAVR
SLVPAWFAQNHSVRLVADDIDAAPAQASAAHSYRASMNLPGPDLFLEVAP
IGEQPTTVPRIFFLVALLFLLGMLISLVALRRDFVKRQQVQARLQAEVAL
RTAMENSVTIGLRAWDQHGKILYVNQAFCNMVGYPATALLGKSAPMPYWP
ADQANELQLVHRDIIVQGTQGDGVELQFQHRSGKLLDVLIHEAPLTTVNG
EQLGWMSSVLDISERKRAQRMATLQQEKLEASGRLVAVGEVASTLAHELN
QPLGALSSFANGLLNRLRGGNIRLDELEPVVARMARLAERAGGVIQRVNA
FARRRELSRQHLDVVAVLRRVLASTADAQTRQVSLVDNNQAIWIDADELL
LEHLINNLVDNALHWAHRGPGLAQVRVEMACDRSQGLATLVVADSGPGVT
EENGVNIFNAFFSTKEGGMGMGLAICRSIVEAHHGRIEVGRDPELGGARF
VVWLPLAEVPLIAPILPTLLVAQGVP
>Rfer_2293 metal dependent phosphohydrolase
MTTNSTFNALYKYTKALSVALGYRDQLTRLHSDRVLALSVEMGLHCGLSA
SEIDALRIGAAFHDIGKVGIPDDVLLKPGKLDQAEWQCMQGHSEIGEQIL
LSTDLKGAKSAALAIRHHHEHFNGRGYPDRLRGEQIPLAARIISITDSYD
AMAVTRSYHAAKKHGEIITILRAESGEKHDPELTRLFLNFIEGSSLKTPL
V
>Rfer_3373 two component transcriptional regulator, LuxR family
MVKADSYRYARGRFDNSKAKQVWRVLVVEDDPQTRDFFSGSVSRCAELLL
AASVGTVAEAKAWLDDSANTVDVLLTDLGLPDGSGLEVIRHATRLNPACE
PLVISMFGDEDNVLASIEAGALGYIHKDSTPDDIAQTILDMRAGASPISP
MIARRVLSKYQSDRRENNRVLAPVLSSSIAIKSEATEDGEAKSQRGLLSP
REQEVLALIARGFSYTEIARLQGLSVHTVQTHIKNLYGKLSVHSKSEAVF
EATRMGLLSPHD
>Rfer_3087 periplasmic sensor signal transduction histidine kinase
MLRRFPYRVQIPLGLSLAVLMTALLVTAVSARMSASTARRETLAMLDRAV
VLLVAQARPLLVGDDTWRTFTLLRDTVGLIPGAATGHTRLAVLDTEGRVF
AASEPVQLEIGRTLLGSDWHGQRLMSASNLRTRQQLALNNGAVILLEPIR
SEDGQSLGYVFMEVEAPVFEPDWLALAKTALIGITLAVMLLAPAGWWVGR
RMTRPVERLVKVIERVGREAPNRLRNEVPQTTDPELRRIGGAVLQLMSEL
EQREKAEARALSAQRLATVGRMTAAVAHEINNPLAGLITATQTLRLHGDS
EPIRLSTVDLLERGLQQIRTTVAALLPQARREDRALEPGDLDDIVTLVRT
TAVRQHITLTTRLEVESALRVPSAPLRQVMLNMLLNALGAAGEHGRIEAV
LKADAESVHFSVLNTGTPLSSEKFNTTLDTESGQDPRGFGLWVCQELASH
FRGGFNLDETTDSGTRLVFWLPNREPLEKET
>Rfer_0060 transcriptional regulator, Crp/Fnr family
MNPEPFDIQRLLSALPLFSDLSQLERERIARGCRLVRLARGEMFFRVGEA
CEAFHVVVSGQIKLYVSSPAGQEKVIEIIGPGRSFAEALVFLGQPHIVNA
QSLTDTLLVSVAKAAVLAEVERDPRFSLHMLAGISRRLHSLIHDVEGYAL
QSGMQRLIGYLLRDVEAAVGHGSGNVSVSVHLPASKATIASRLSLTPEYF
SRVLHELETQGLIQIDKREIRILDVHRLANFESH
>Rfer_2982 nitrogen metabolism transcriptional regulator, NtrC, Fis Family
MKPIWIVDDDQSIRFVLEKALLREDLPTRSFTSSREVLAALNDCNDDNAP
RVLVSDIRMPGGSGLDLLEKVKEKYPALPVIIMTAYSDLDSAVSAFQGGA
FEYLPKPFDLSKAVELIRRAVEESQREEVAQELTSDAPEMLGQAPAMQDV
FRAIGRLSQSNVTVMITGESGSGKELVARALHKHSPRAKGPFVAINTAAI
PKDLLESELFGHERGAFTGAQAMRRGRFEQADGGTLFLDEIGDMPFDLQT
RLLRVLSDGHFYRVGGHSAVKTNVRVIAATHQNLEQRVKEGAFREDLFHR
LNVIRLRLPPLRERKEDIAVLTRHFLQQSAAQLGVEPKRISEAALVWLGN
FAFPGNVRQLENICHWLTVMAPAQVIEPKDLPPEVGVMATGPGETPAAMP
SPATLMMSAPQPHPPESSVVAATAGPESMPSYGSAATAPPQPGSAGEVVG
AAWELGLEAEALALLASGRNDVWDALTHRFEARLILAALAVTRGRRIEAA
QKLGIGRNTITRKIQELGLE
>Rfer_2741 two component, sigma54 specific, transcriptional regulator, Fis family
MSARILVVDDEEIVIRSCVRILNDDLYTVDSAPGGFEALKKVDETAYDIL
ILDVMMPKMDGLEVLQHVKERHPEIDVIMMTGLSEIQTAVKAMKLGAFDY
LSKPFDPDELKLVVNRALERRQLMQENRKLKTEVSSKYRFENIIGSSPPM
QAVFGLIAKCAPTNSTVLITGESGTGKEMIARAIHYNSLRKDQPFVTVDC
NTLSENLLESELFGHTKGSFTGAVANKRGMFDVANNGTLFLDEFGNIPLS
TQAKLLRVIQEREFRPVGTTTNQKTNVRLITATNKDLKAMVAEGTFREDL
YYRINVFPIHSPALRERRDDIPALAFHFLKIFCSELGKPVSEISEGAMSL
LMNYGWPGNVRELENTMQRAVILSSDGIIRQAHLASIIDNSPRLDLDVPR
TSDELKRIKKIAREKSVEEVEKLFVQETLKRNASNVTRSAEETGMQRTNF
QALMKKYNIRVRDTEYDDGEPEPI
>Rfer_3241 diguanylate cyclase
MRYGIGFKLGLLLASFSLVAMGIVGYYSYASGRATLLAAAQRDLLTATHV
LGRNFQASIDAVARDTLLLASLPASSAMVTSPESMPAGRDPKGLSDTFAA
MMAAHPEYFQIRLIGADQHGLELVRLDRDDGKLVPVQADNLQEKAHYPYV
FNTLQLGRGQVYLSDITINHEEGAHSGLHKPTVRVASPVLDDSGKVLGLI
VINVDLNGLFDRLKSDLPSAYQLYLSNHWGDFLIHPNPAEAFGFDQGRRI
FIQESFEPVAALINGTSASVVTNIDAVQQAGNGLVAAFIRMPFGGSVQTD
FVILGLSQPLENVVRETSKLGWNTVQIILVLGVLAILLAALVSRAVIGPL
RKMVDAMSAFSKEHVVNELSAARKDEIGLLASSLNDMQNIIVANMRDLKE
SRQALEHLAQHDSLTGLPNRALFDDRLRQAVSQARRDKTRMALLFVDLDA
FKDINDTCGHHVGDLLLNAAAKRMQACVRHADTVGRMGGDEFVVLLTHVE
EDQDAVLVAEKICKALSQPFDLDGRSLLIGSSIGVALYPEHGSDELTLSR
SADAAMYLAKESGGNCVSLFGS
>Rfer_0896 signal transduction histidine kinase
MRRFKFEWNSLKTRVTLLTLGIFVISIWSLTFYTGRMLREDMQGLLGEQQ
FSTASLIAAEIDREVADRVQALEITAREITPTIINNPVALQALFAHQPLL
HHLFNDGIASTGPTGTVIADYPQVPGRIGANFMERDYIIGPLKNGKATIG
KPVHSKLTQDPSFVMAVPIKDTAGRVIGVLAGIINLNKPNFVTTSTGGYD
SKGGDFFLVAPQHQIVVASSNKSRILATLPAPGVIPALDRQAQGYEGTQI
FVNPLGFEVLTSAKQIPSAGWYIAITLDTRRAFAPIKVMQQNMLLAACVL
TLLVTGLLWEMLRRQLTPLLATAKALARMADSKEFPSALPIARHDEVGHL
IGGFNQLLVSLHERDAALSESEARFRTLIEWTPEAVAVHRGGKLLYANPA
ALHMFGATSKQDLVGKPMLEFVHPDYRHSVVERMQRSYDKNLHPPMAEEK
FLKLDGTVIDVEVTGIVINYDGQSATQVAIHDITERKLAEDQLRTLSHIV
EQAPLSILITDLDGNIKYANPWITKVTGYSAEEICGQNPRLFKTDQTPLE
VYQDLWQTLRAGGVWRGEFGNRKKNGDVFVEQAVIAPVLDDAGRTAHYVA
LKEDVTERKRTERALQTSLQEKVALLNEVHHRVKNNLQVITSLLRLEAGR
SSQPDTKSVLTDMQGRIRSMALLHESLYRTGTFASVDLGAYLKQLASQTF
RAQSSGAVRLELELATVQVSMDQATPCGLLVNELISNCLKHGFPEGRSGE
IRIELHAMATATVAPATEGGAAQWLLRVSDTGVGLPADFKARRHQSLGLQ
LVADLVHQLGGTLDIGSAPGAVFTVVFTPDAPSSTMGAV
>Rfer_2893 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MERPEESWIELSLDDLPAAKMNPSEEVRRLQTALFDAQRRLQAVADVAGG
LIGKLEFELREGDSLLLVGFDVQAEQLLGKACAPFLGQPLLMLLPGLSAT
ELPAALLEVALHGGVIEPRSLLGEGLLSGKSFTFFAFQLAPARAVVKFWD
SAGALETQALRMRSQQQLAAVFSQSPVAISLSRERDGAYVDVNEQWTLLT
GLSLQEVLGRTSVELGLWPDGTAHDDALAQAGEGARLRNLDLPFVRQDGR
QLVLQINAARIEIGHTAYFLSYLKDVTPERAMQAELLASEQLLKSTNERL
NQQIHLFESMENLAAVGYWTSGADPATLRWSKGMYRLAGLAPGSVMHRSV
GRSRIRAEDQEKFAQARRAVDGAIVEYQWEHPDGRMHWHRSRMQHGSGEG
GEAIVFGVVQDVTHERAAALALQDRLGFIQNITSRVPGMVFQLRLKTDGR
FQFGYVSDLVREIFRGVSPEQIMQDAAGILKLHHPDDVSEFIASIKASAR
ELKPWRHEYRLRFEDGEVRWLLGQATPEREADGTVLWNGLITDITARKQS
EERLRESEARFRALTELSSDWYWEQDAQFRFVRLDGSSQTSMRLPEDNYL
GVTRWETDAQGVSQAQWAAHRAVLQAHETFHDFEMLCTDAVGCLTWVAIS
GTPIFDVQGQFKGYRGIGRDISERKRAEEKIERLAFYDVLTDLPNRRLLM
DRLQQALVSSAREHGAGALLFIDLDNFKDLNDTQGHDVGDALLQQVAKRL
LASVRETDTVARLGGDEFVVMLQGLERTQADAITQVEQVGRKIMAQLNQP
YRLGSAEHHSTPSIGVTLFDNQQQTLDDLLKQADLAMYEAKSAGRNTLRF
FDPTMQALVTQRTALELELRHGLARDELVLFYQPVVDQDARVVGVEALVR
WQHPQRGLVAPLAFIPMAEQTGLILPLGQWVLRVACLQLVSWSAQAATER
LTMAVNVSARQFRQPEFVQQVLTMLRQTGANPKRLKMELTESLLLTDTQD
AIAKMSELRDVGVRFSLDDFGTGYSSLSYLKLLPLQQLKIDQSFVRDVLT
DPNDAAIARTVLALGQSLGLGVVAEGVETVGQRDFLLQHGCTRFQGYLFG
KPVPIAQLRLGGAD
>Rfer_1979 metal dependent phosphohydrolase
MNATANRNISVDQLRVGLYVHLDLKWFEHPFAFGHFRIKSEEQITLIRNL
GLKTVRFSQELSEGSPPPQVVAPLTPIPNTAAAASMAPELSQIMLTKQAM
MAQMRLRRQATERIENAFVNTAKTIRNIEKNLYSRPLETVQQATLLIGQI
TDSILSAPELAIHVMGDKMGGEELYLHSLNVTMLSIMMARDIKLPVEVVS
VLGVGALLHDIGHKEVPDKILRKTEALTQAERSFYEMHCQFGVGMGQRMG
LAPAALSIIREHHELFDGSGYPAKLQGESVSLLSRIVVIANYYDELCNPS
AIADALTPHEALSLMFAKLRSKFDPKLLQVFIRCLGVYPPGTIVQLSNGA
IGMVVTVNTARPMKPTLMVYDAEVPKDEAILLDMERETEVNIAKAIRPAQ
VPQEVYNYLSPRKRVSYYFDASSARPQAGMP
>Rfer_3573 response regulator receiver domain protein
MTQTILVIDDDAAVRGSFQLVLGEIGCVVRVAEDGLQGIAMAREERPDLI
FLDLKMPGIDGVETMRRLLAMDPTFNIYIVTAFSQEYLDDLKQAQAEGMT
FQLANKPLSSTQIRHIARSVRSLSNVSKDNHRISLTLYVVSVNPEIQKVV
DQLSNVLAATYRAGFWVLNVVEVLGMPEKALEKDVFATPMLVREVPEPVL
KLLGDLSRMHSVLSAITAENGHGAGTVVL
>Rfer_3606 diguanylate cyclase with PAS/PAC sensor
MKRFLRHARHWLLLVVCLGALGAYLAYNLHGEHERVEATERERLATQSKV
IEDNLSRQLVAINLALESIMVELPDWAGRPDGRELVSRRLKSMEVSMPSV
RTFAVLDEKGTVTASNREELLGRNFHDRDYFQTALRAPSTKTLYVSAPFK
TVLDTFVISVARVITGPQGQFAGLVSASVDPVDMQILLNSVRYADDMRSM
LVHGDGTIFVSQPALVDVVGKNLSVAGSFFRQHLESKRPVSYFEGKAITT
GDKRLPVLRTIQPADLTMDKPLVVSVSRGWDAMFAPWQRDVRSQLLVYAL
FGLLCMAGLIIYQRQRVQQRMINQRLKLATEATGVGIWEFDLKTRRYHWD
LAMFGLFGLNPQTVNALNNDWQQLLLPGELLRMKDATRVTIKQGQAFDLT
FQIRRQDGQVRFMRNRAVLYNDGSHAASRLIGTTEDVTERKLREADLRVA
ATAFECQESIMVTDANQLILRVNRAFTELFGYTAQDVLGATPRVLQSGRH
DPAFYAAMWDGITRGGAWQGEIWDRRKNGECFPVWLSITVVCGDDGGVSH
YVATHTDITLRKAAEDDIRQLAFYDPLTGLPNRRLLQDRLHQAMSQARRE
RGRLALLFLDLDKFKPVNDDFGHQAGDELLQAVAQRLQACVRESDTVARL
GGDEFVLLLPSIEAAQDAMAVAEKIHQAFGRPFTLSAGRNATMSFSTGIA
VYPEHASDEKALMRHADEAMYQAKAAGRDRFVLFAPASEPATLLTPADSG
GTAPTIG
>Rfer_3097 two component, sigma54 specific, transcriptional regulator, Fis family
MGESLADRFDLEGFSHDWHRTGAAALTALRLRDYALVISDIRLPDMTGDV
LFEQLLTEQRSLPPFIFITGHGDIDTAVRLLKRGAQDYITKPFDLDALID
KIHGIVAPEDASGTGSLGCSPVMRQIEAMLPRLAASAASVLITGESGVGK
ERVAQALHQLTGADKPFIAVNCGALTESLLEAELFGYEKGAFTGAVRTKK
GVFEQAHGGTLLLDEIGDMPLSMQVKLLRALQERCIVRVGGETPIPVDIR
LVCATHQVLQEAVIRGDFREDLYYRINVVELRIPPLRERSEDILPIAQHL
LAEIADASGKPPPGLTPAAEHAIKAYRWPGNIRELKNTLERASLMSDGRS
ISHDILFDRPAPPLSGQLDMAGSLRDYLNECERDFIVHALDGCQWQIQCC
ADSLGISRKNLWEKMRKLEIVKGSDAD
>Rfer_2271 PAS/PAC sensor hybrid histidine kinase
MPSEPPSKTSPADRQQEFLQAGLDRIDQGLTVIDGNLQLVAWNRAFLRLL
DFPEDMAYVGATFESFIRYNAERGEYGPGDVQELIAERVRLASRFVSHYT
ERVRPDGRILAVRGDPLPDNGFVTLYTDMTASRRLEQQIQQDNAELEDRV
IQRTAQLTAAQQRLTEADAAAQRITTALRCSEENLRLITDTVPALIGYFD
QQEIYSYTNKGYSDWFGFTKEEMVGRSIHDVVGDEVYASVSTYLHLALRG
QQVSYEYAMRRPGGQVFYARSELVPEMDAEGRVIGCFVLSVNITDLKNAQ
SALVHAQKMEAVGQLTGGLAHDFNNLLTVVIGNLLTLHERYPNDPDICEF
VVPALKASRRGAALIKRLLAFASKQPLAPRSVNIEDLVADTMILLKRTLP
AHISVTSIPMDEPLFAMTDAQQLENALLNLALNSRDAMPDGGQLVIQAQR
MQLDLAHVADFDVAPGCYVALSVSDTGAGMDAATQARASDPFFTTKRFGL
GSGLGLSMVYGFAKQSGGGIRIQSALGEGCTVTLVLPYVCDKLELDAPMG
AQYGSGQRGAEHPLVLLVEDDPDVRRVIRLQLVDLGYPVIEADHAADALD
LLSTVPSVGILISDMVMPGSMDGRTLCCEASLSAPNVKTLLISGYAMSPE
NAIGPPLLKKPFTAVELQRALDGLMS
>Rfer_1703 transcriptional regulator, Crp/Fnr family
MTRRQKKAMFVTPLEVLVEPLSTLSARPGAGPAKAAVVNARCAHCHLRTW
CLPSGTENSDADCINSLLFGRRKIKAGQNLYLEGQPFQYLYEVRSGNLKS
SLKTSDGSERVSAFHMAGELIGLDGVAEGQHASSTTALEDSEVCAVSYAL
LTELAGNNAQLQRTLMQHMSRELVRELRLLMLLGGMTAEKRLAAFLLNLS
QRLSARGYSPSEFRIRMTRADIGSYLGLTLETVSRTFSAFQKLNLLEVKT
RHIRITDLGGLTRIGDVHAPATTKPS
>Rfer_0703 periplasmic sensor signal transduction histidine kinase
MDRANLVLTTWSYGAVGFAYSAFALRLLQLGYGHSRREWSEVAVLAAVSW
SALWGWFGLALLLTGSPAFLLLSTLADLLRYACWYAFFLILLQPSRASGA
AIGTAWMVPLAAVVVGFGLLALAFAAMRINALGDASKLILLSSMVSSVLA
MILLEQIFRNVAEEARWNIKPLCLGLAGAFLFDLYLFSEATLFNRLDADA
LSIRGAVHTLVVPLLLLSTTRRSDWIASIRLSPKAAFHSATLLMAGIYLL
FISSVGYYVRYFGGEWGRALQLALIFTALVLLLVLVLSGSVRARLRVFLG
KHFFRYRFDYREEWLKFTRTLAAKDSPQEMGQQVIRGLADMLESPAGGLW
MRVKGEAAFSQTARWNLAQTLEKEDINSPLCQFLTSSGWVVNLEEYRSYS
RRYGALKLPRWLQDLAQAWLVVPLMVGPELIGFVVLASARTRVDVNWEVI
DLLKTAGQQAASFLAQMQATEALLEVRKFDAFNRMSAFVVHDLKNIVTQL
SLMLKNAKRLGDNPEFQQDMLLTVENSLDRMRQLMLQLREGATPPGTAFG
VNLGGIIQRIEAQAAGQGRTLEVNLSEPVVTRGHEERLERIIGHVVQNAF
DATDPSGRVWVNLDRARGQARIVVGDTGQGMSQDFIRERLFKPFQSTKAS
GMGIGAYESFQYVKELGGQIEVDSSPNQGTTVKMLLPLFEAQMTSDLHAL
EAA
>Rfer_2528 histone deacetylase superfamily
MTGYYTHPDCRKHEMGPGHPECPERLDAIEDRLLITGLGLALERREAPAA
SLTDIELAHSRTHVAALRGLSDVLKEDILAGGPPYAQVDPDTSINVYTWD
AALHAAGAALAATDAVIAGDFENAFCAIRPPGHHACRDQAMGFCFFNNVA
LAAKYALERHGLKRVAIVDFDVHHGNGTEDIVAGDKRILMVSFYQYPFYP
LDHVHSSAANLVNLPVPAYTKGMEIRELIESAWMPRLEAFRPEMIFISAG
FDSHREDDMGQLGLVEQDYIWITHRIKDVARRHGKGRIVSCLEGGYSLSA
LGRSVEGHIRVLADV
>Rfer_0781 putative signal transduction histidine kinase
MNPSPSTQKFTTGPTSGTGLSVEIRRFSAGMRVITALLCTVLFFSTENNI
DARVLAVLLVYGLWSAWLLWVEASGRGLRSALWSYWIDVAWSLMLMKLWS
AGALLMLITLVQPVVLASIGYGITQGLLLSALATSGLIAYNGSDLMSGPS
LGWHRHIQIMIMLALAPSAALIARPMGIRFRWSTLLSQLEAQLDPRHGLN
PICAELVERLRGATQANVVALVLPSSQGAPAMIASREDGSFRANAEVHAR
LEALLAQMPACTVSYVRRPWWDPRPSTRLHADLPLPAGLSTPLAELALTL
DVRCLHALSLTRYAHQHGHIVVGYSSQRGAVYDVSALADVVPELLRVVEQ
AALVDQLQEESAGHERARIGRDLHDSAIQPYLGLKYAVESVALRIPRDNP
ARAEIDSLAELVNGEVAALRELISGLRTGNDQGDNALVPAVRRQVRRFSV
LFGIDIVLECPDKLPTTRVMASSLFHLVNEVLNNIRKHTAARHIWITLSL
QASMIKLVVRDDAGSLRGHPADDFRPASLSERVAELNGTLHIGRPDGLNT
ELVIQIPL
>Rfer_1873 two component transcriptional regulator, LuxR family
MQQKMLPNTMIRIAIVDDHAMVRAGLRQFFSDQIDFAVVAEAANGRGALD
IVRKGEVDVILLDISMPDQSGVDALIAIRARAPDLPVLILSGFAEEHYAT
TLLRQGASGYLNKDCDPEEIVKAIRTVHRGRKYITAGVAELLADGLSGGT
DKPLHENLSERELQVFLRLAKGEAIGHMAVSMSLSVKTVSTYRTRVMEKM
KLETNSDLTYYALKSGLIQ
>Rfer_0906 response regulator receiver modulated CheB methylesterase
MSRIKVMVVDDSAVVRQVVAGLLADDPAIEVIAAVADPILAIARMKVQWP
DVFVLDIEMPRMDGITFLKKIMAERPTPVVICSTLTEKGAQTSMAALSAG
AVAIITKPKLGLKQFLVDASDDLISAVKAAARANVKRLQVVEKLTADAIL
PASDRHDAMLQTTERVVALGTSTGGTQALEVVLTALPRVTPGIVIVQHMP
EKFTAEFANRLNGLCQITVREAKNNDRVVPGRALIAPGGKHMLLRRNGAQ
YSVEVLDGPLVNRHRPSVDVLFRSVARCAGANALGVIMTGMGDDGAAGLA
EMRKAGARTLAQDEESCVVYGMPKEAVKRGGVERSVPLGAIAREIMAQMA
G
>Rfer_2544 diguanylate cyclase
MLVTSIKRWLAPPVFEGAEEKTRQASLINMVCITSLAFTLAVMVGALMGG
KTPVSTLIIDLVACAVTLQFRHWLRSGRVVLARFGMVIFGLVFITAVTAD
IGTIRTPTAAILLFWVLMTGLIFDRRGIVIGTIAASMAVLGLIVAENAGW
LRPPFYDVGVTQWVTFTALFGFTSGLTYYINQGTKSALALARKEIEQRKQ
AEQSLKAANEELHLRVFEVQRLQVELHEQAIHDPLTGLYNRRYLSDALAR
EIIQAKRANSSLTFVMADIDHFKFVNDSYGHLAGDEVLVQVASLLKKHAR
GSDIACRYGGEEFLLVFPGTSLELAHKRAEEIQQNCAALSIQHEGKNIAV
MLSFGVAAYPDHGQQWEQIIVKADKALYQSKCNGRNQVTIFRDEEFPT
>Rfer_0921 two component transcriptional regulator, LuxR family
MSDTALTLYVVDDDEALRRSLLLLLFSQGMAVRGFESGEAFLQAVDARQV
GCVILDLRMGGMSGLAVLEQLRLRHSPLVVLFLSGHGTIPMALEAVGQGA
FDWVVKPDTQQLLEKLPLAMVEAQARADALALWHDLTPREREVARQVGLG
QSNKEIARKLVPACSPRSVETHRASLFAKLGLANDNELGRWLTRHTWLG
>Rfer_2693 HD-GYP domain-like
MTVQTENEYEDLLGLWSDLEAGLGIILGRPASIQEFEKRVWQYDRWMQGL
LARDTDVGLYLLFQLATNSPVGYSASHALVSAVLCHLIAVELKLPQGERD
SLVHAALTMNMAMTALQDQLASQLERPTPAQQETIRTHATQGAAMLADLG
VLDALWLDTLALHHDDSTDQGELRALPPERRLARILRMVDRYAAMISPRK
SREGRSTTDSARAIITQSIAQNDEVGHVLVRLVGVCPPGTYVRLDSQEVA
VVVRRSDTPNLPILAIVTNPAGMRLNPPRLHRSANGSPGIRAAVPTSSVH
DRLNHHLILQLGAYAAQHP
>Rfer_0577 multi-sensor signal transduction histidine kinase
MFWRFFSFIACQLLGGLVGWYATSSSHAPTSELVSTLAGVVLGGVVWFLL
DTSRGARLLRWLRVGDASEVAMRSGLWGEVSDRARRLIRAREQMTLESQR
RLQDFLSALQASPNGVLLLDAQGQIEWLNQTAASHFGLDAQRDLLQHLGN
LVRDPAFASYFASRDYRHELIMPGRESTPARPVRLSVHLHPYGEGRLLLL
SSDITAVEQAEAMRRDFVANVSHEIRTPLTVLAGFVETLQTLPLNDEERA
RYLALMAQQAGRMQTLVNDLLVLSRLEGSPLPSDSEGIAVPALMHQLEQD
GRALSAVMNPASEPLQHLTFDSSLAGDIMGAPNELLSALGNLVSNAIRYT
PSGGQIQVRARLLADDRAEFSVSDTGPGIAPEHIPRLTERFYRVDRSRSR
DTGGTGLGLAIVKHVAQRHGAELKIDSTPGKGSVFKIIFPASRVRLSKAL
PPSLPTAPAASAPGPASSRWSQTTGS
>Rfer_3192 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MPESIQPNAPRRDALEELQLALREQQVILDTAGVGIVFIKNRLVVRCNQR
FGQIFGHSDAAAILGSTSPSLYPDDLAAHALAEAAYPAMAQGLTFKSEVL
MKRRDGSSFWAHLTGKLVNPADPLAGSIWIVDDIDEQKAAQAQLQSVLTE
QNLILDNAMVGIVFLRNRIATRCNQRFETLLGYEPGELQGVSSRQWYLTK
QDWIEAEPRWKAPFAAGHGFEGEIQLRKKDGTAIHCEVRAKAINASDPEQ
GAIWITMDITARKTAENELLQARADLEKLVEVRTLELSRTVQELKNKAAE
QKTAEAYIQRLAHFDALTGLPNRLLLNDRCQQALSVAQRGRQSVALMFLD
LDHFKNVNDSLGHRVGDEVLVELAARLKAAVREQDTVSRLGGDEFILLLP
DTDAMGAAHLAEKLLQTALQPILIEQHELTVTPSIGIALYPKDGTDLDTL
SRCADAAMYRAKADGRNGYRFYTAQIQAHSDRMLLLDNALRRALERKQLE
LHYQPQIALMSGQVVGAEALLRWTHPELGAISPVEFIPIAENNGLILPIG
EWVMRTATRQLSTWIARGMAPITMAVNLSALQFRNPNLPQLVTRILEDAA
LPPQLLEIELTEGVAMTHPLEAVAVMNELHQRGVRMAIDDFGTGYSSLSY
LKKFQVYKLKIDQSFVRDITEDPDDKAIVGAVISMASSLGLQTIAEGVET
EGQLEFLRARGCNEAQGFYFSRPLPTQAFEDFVRKQ
>Rfer_2487 response regulator receiver modulated diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MRAEVDVIAGGEWTPSAVSFASHGWSAPAPAQLPAQVLLVDDEPRMLSSL
GELLKDRGFVLTSAANGGEAIRYLGQQPFDLVILDLRLPDISGHDIMDFM
NSQQADANIIVTSGDRGIDAAIGALKRGAYDYLRKPYSPEELRKTVDNAL
KQRRLQAENRHIAWQLESSERKYRYLVDSSPDIIYTLDHEGRFTFVNDRV
QQLLGFSREELIGEHYSVLIQEDDVLRANYVFNEGRGDYRLSRNVELRLK
SRHAKGEVRTFTHELMTISFNASDTSQEPDSTQQELFGTYGVARDITDRK
RADELITYQAYHDILTDLPNRVLFKDRLGLAVLQAKRNDASLALMFIDLD
RFKLVNDTLGHVIGDKLLQQAAIRLKACLRSGDTLARLGGDEFTAVLPEL
SDRQDAVLIAEKFLECLRQPFQLAGQSVHISASIGIAIYPGDGESTDELI
RNSDIAMYHMKAEGKNGHSFFDRSMLDASCQKIELEHSLRLALERGELEM
YYQPQVDVRTQKIVGAEALMRWNHPERGFLGAGDFLPFAEENGLIIPITD
WMLEAICLDLLDWNAAGGEPVRLSLNLSPQYLDRGDFFDKLKNALTLHHI
NASQIEVEVTENICIHNPQTAIEQLNKLCQLGVSVAIDDFGTGYSSLSYL
HRFPIHTIKIDRSFVMKIQNDNSQCPVVLAIISIAKGLSLNLVAEGVETQ
VQERYLERSGCNTMQGYLYHKPLSQKKMLALLRVA
>Rfer_1768 multi-sensor hybrid histidine kinase
MNTSGKIQGNDDGKASDRSVSLLPNQELRHKHPAWNRLLNLLDRFYAKLA
HSEHKGLYRYLLTLVLSVVALFARMVIAPEDAGLQFITFFPAVAISAVLF
GTGPGLFTTFIGATMGTYFFFPPYEAFVFEFQHHTLISVVIFCADGLIVS
LSIGAMRRYFSNYVITVAKLETALEQSRHNEAELTYQKYALDQHAIVAAT
DVRGTITYVNDLFCAISQYSRDELLGHNHRLLNSGAHPKEFFEAMYRTIS
SGEVWKGDICNRAKDGSLYWVSTTIVPYVNDSGKPIRYVAIRADITERKR
AKEAAQAATLAKSQFLANMSHEIRTPMNAVLGLTRMVLESDLKPEQREQL
IKVSKSGRALVRIINDILDFSRIEAGRLAIERIPLRVEAVLLEVADLFSA
QAEEKGLELFLDIEPETPLQVIGDPLRLTQVLNNLVGNAIKFTDHGEIHI
GVRVAHYGDATLTLCINVRDTGIGMAPEQIGVLFQSFTQADSSTTRNYGG
SGLGLTIAKKLVELMGGQITLDSAVGQGTNVSFSVAVGMAPDDFRRVTHM
GQDLQQMHGKRVLVVDDQATSRQILSRLLQAWGMEATEAESGPQALARVA
EANRAGRPFHAVLLDWRMPGMSGLEVATALKAQDEAKGLPTPLQVLMVTA
YDKQSLLQEPEAANIDGVLTKPVVPSYLFDALLQGEPRHPDASDELVAQR
FDGVRVLLVEDNDLNQEVASSFLRKRGVSVTVAWHGGEAVELIQHQQFDL
VLMDLHMPVMGGIEAARRIRELPQGKNLPIVAMTAAVMEEDRARCRAAGM
NGFVAKPVEPEDLARVLVMYTRPGTQTPPATTPTIQAGEPVLDLVKGLRR
LDGDRALQQRLLLGFVERHHDIVGRLDALLAEKNTTEAVDLIHTLKGVAA
NLGAVALAEASRRLIEELRSATPLASRFAFHTTLVETLTQMQQHIAGHVQ
TDLAEAAAVEPVSLEHTLLALEPFIVGQEVIPDALLVALQRISTADLPYS
PLARQLRHHLDNFEHGEVLEAFKLLRVEQAVQG
>Rfer_1874 histidine kinase
MDVLNVAKHGNSVLLLAGVAAVVSMIISLLAIFMYWRQRSVIDKLRQELQ
RTVQVGRDRLETEVALRTVQLTELTHHLQTAREDERHRLARNLHDDLGAL
LTSAKLDAARIKSRLADRAPEALELLAHLVSTLNSGIALGRSIIEDLRPS
ALSNLGLVATLEILTREFAEISGVAVHCELEPVELEVSAELMVYRLVQEA
ITNITKYARAQNVWVRLATDNGQVEVSVRDDGIGFDTSVQPRSAYGLVGM
RFRVEAEGGTLALVSAPGQGTLIQVNLTPVHGRHDRRNNARPS
>Rfer_3638 metal dependent phosphohydrolase
MDRKPFPVPESFSAACSECGAVSHGRLYLRSGDQNTCENCLLDARKHLGG
WGGHPYELFVEAIAEAMDLREKETGLHSKRVAAHTLLLARHHYQKAKDLQ
EVYWGSLLHDIGKIGVPDAVLLKPGKLSDQEWQIMQEHPRNGHLILEKLP
FLSMAADIVLCHEERFDGSGYPAGLKGEAIPLAARLFAVIDTLDAMTFDR
PYRKALPFETARAEILRMAGTQFDPQAVDTFLLEESALREVSEMEFLSAH
RT
>Rfer_0247 two component, sigma54 specific, transcriptional regulator, Fis family
MPSLNVLVVDDEPALRQILAAAVIKAGYSVEQANGVKQAATMLSRGDFDV
ALCDIKMPDGNGIELVRNCRAAGIETTFIMVTGFASIETAVEALQAGASD
YITKPVRYEEVAHRLSQIDALRGLREENKALRKVVSDSSPKLYRFTSPGM
LEVERLAGKVAPTDCTVLITGESGTGKGVVARLINDQSKRRTGPFLQVNC
SAVPEHLLESEFFGHTKGAFTGADHARKGLFLQANGGTLFLDEIGELPLH
MQTKLLHMVEDKEVRALGSEQVRHVDTRIIAATNADLVNLVKEGKFREDL
YFRLSMFQIQIPPLNERQTDMPGLIRFLLHNLCPSGLGTMEIDPLAEEIL
LAHRWPGNVRELENVITRACILAEDNRISVADLPATIIQTNLPKTLAGAA
IGSNGSLRDQMRKLELEILQRAIEGAGGDRKLAAQKLGIGLSSLYRKFDE
FQPDALSSGDAAPVHPS
>Rfer_3778 response regulator receiver domain protein
MSQKILVADDEPNIVISLEYLLKREGYTVLIARDGQEALEAIAREKPDLV
LLDVMMPKKTGFEVCQALRASDDLQAIKILMLTAKGRDTDVAKGLALGAD
AYITKPFSTRELVLKVAELLRESP
>Rfer_0005 diguanylate cyclase
MIAKKPFEIARETLRQLTARKLAPTPINYQAIYNEVAGVATDPPFPTDRL
RDIAQALPTKTPGQQKQRALLDSAIGQLNWDGVKSALMAYGGFSPPAADP
ATATPSTGLPMPGASAPGDVSAPALTFDFLQQMARLIEFTLPALGSDDAR
FNEQTQTLLKAMRQPGADVVALKLMLGSFSDRLSFAAEDQAEIKVTLLKL
LHLIIENIGELSLDDRWLKGQIEALMTASTPPLTLRRLDDVERRLKDVIF
KQTEAKGRALEAQEEMRQMLATFIERLSQMTESTSAYRGKLDDNARLIEQ
ARTLAEIAPVLKEVVGATRTMAHDSLTARDELRGMREKAQSTEAELVKLH
QELDRVSSQARHDPLTGALNRKGLEEAVNREVSNVRRKETPLCVALLDID
NFKKLNDALGHASGDVALAHLATVTREVMRPHDTLARYGGEEFVILMPDT
ALDNGIEAMTRLQRELTTRFFLAGTEKVLITFSAGVAQLATDETGQSAIK
RADQAMYLAKRAGKNRVLGA
>Rfer_3548 PAS/PAC sensor hybrid histidine kinase
MLKTDPIPDLPKAVAGTPEGLTEFRRQEALLKTGALQNAILNSANFSSIA
TDERGVIQIFNIGAERMLGYAAADVLNKITPADISDPQELILRATELSAE
LETAIAPGFEALVFKASRGIEDIYELTYIRKDGSRFPAIVSVTALRNARG
TVIGYLLIGTDNTARKQVEAERQHLLKEQEWTNQQLHQANLTLRESEEKF
AVTLHSIGDAVIATDAAARVTLLNPLAERLTGWTQAQASGRPVDEIFTII
NKETRLSATVPVAETLAHGTIQGLANHTVVIARDGSECDIADSCAPIRDR
DGQVIGAVLVFRDVTEEYAAQQALRDSTALIQTILNTVADGIITIYARGG
MIKTVNPAAERMFGYSGIELVGQNFSLLIPELDQDQRNGSLEYYSASDEA
RAAGLGREVLGRRQDGSVFPMEMAVSEMWLGGERYFTGILRDTTARKQAE
EALLQAGALQSAIFNSANFSSIATDAKGVIQIFNVGAERMLGYTAAEVMN
KVTPADISDSKEVIARAKALSLELGTQIEPGFEALVFKASRGIEDIYELT
YIRKDGSRFPAVVSVTALRDAQGVIIGYLLIGTDNTARKRVEAERAVLDR
ALRDKNVELESARQAADKANLAKSEFLSSMSHELRSPLNAILGFAQLMES
GVPPPTATQKASIDQILHGGWYLLELINEILDLALIESGKLSLSMEPIAL
PDVLLDCQAMIEPQAQKSDIRISFPQFNAPCFVNADRTRVKQVIVNLMSN
AIKYNRVGGTVEVTCKKVAAQRLRISVRDSGEGLSAEKVTQLFQPFNRLG
QEVGSEEGTGIGLVVSKRLVELMGGEIGAQSIVGTGSVFWFELNLVAAPQ
FAADSDAPLVPAQPPTAPGAALRTLLYVEDNRANMELVKQLIARRPDMRL
LSATDGMQGITLARIHLPKVILMDINLPGISGLQALKILREDPATRHIPV
VAISANAMPRDIEKGLQAGFLRYLTKPIKVNEFMEVLDMALETARTGLDN
AAMEESM
>Rfer_0477 response regulator receiver domain protein
MTFSLPQANTLIIDDFQGMRTMLRDFVRLMGVTRIDTASNGHEAINQLSA
NKYDIVICDYNLGPGANGQQVLEEAKLRNFVGVSTIWVMVTAEKTTDMVM
GAAEVKPDDYLLKPINQVLLQSRLEKLITRKQSLGAIEAAIRTQDYSAAI
ALCDQQLNARAVNPQEVLRIKSDLLLTLGDYPAARTLFESVLALRSVAWA
KTGLGKVLFYGQDYAGAVQLFQQVLQENRMYMEAADWLAKTLDAMGDSAQ
AQQVLEDAVQLSPNSPIRQKTLGDTAYRNGALDVAQAAFEKTIKISEFSP
HKNPAVYARLARVFSDQDSPEEALNILKRSKADFRYNPAAALQTAAAESL
VYQKMGQVQKAEAAMLDAERLMEQLADKVSPEMTMEVAKALFKLGKKDKA
CGLLRDLVKNNHEDGELSRQIGAVFEGENMAEEGQTLIKASRNEVIDINN
QGVTLAKQGDFQQAVKLLRTAAQQLPHNEVISVNLCGLLIGLMQQKGKTE
DLVLETRELLGRVREMNPVNQKYRAYALALARLTNEH
>Rfer_0478 histidine kinase
MTTEDISFTDFIASSIHDMKNSLNVQVNGLETIADACRARFDDDTLAALG
PIIHQAHRMNANLIQLLSLYKLGKSIYPVDIAEQSVADVIAETLLHNRSV
MEFKGITMDVDCDEGCYWYFDRDLVTGILLNALNNAYSYTTDKIRIAARI
EGGFLELRVEDNGRGYPDTMLQSDGMAANKGVNFSSGSTGLGFYFSSRVA
QMHKNGARQGSLTIENGGAYGGGCFVVRLP
>Rfer_3522 periplasmic sensor signal transduction histidine kinase
MQLATMSSGLQRRLLLLLLVPLCLLAGVNAWFDYRYADAAALQQDRQLLK
LVPLLADSVIARGKTSDAPPVLLMAPVIAEFLRDRVGLSAFCIADLEGRV
LLGHDWLSGLPPTTREPEFASAEQGGVTYRIVSQRLQTAAGELVVRLADG
SDPRQQWVKLVLLKVLLPNLVLMVLGVFVVNWAVRQALRPLLDLKEAVEQ
RSPSDLSAMDVQASPEEVRPLVQSLNRLFGLVNAQAESQRRFVTDAAHQL
RTPLAGLQAQVEAWAQAASMPVATCSSCGKFIQNQPLAPVNKVQAAINIG
VEQIRRLRDATRRTSQLANQLLALSRADAHGLDQQPVQTVDLKELCETLL
EAHLDAATAKQIDLGLDVQAVQVAGHAWLLRELLGNLTDNALKYTPAGGV
VTLRCGRMPDGGAAFLEVEDNGPGVPVEERQRVLARFYRMPGTASQGNGL
GLAIVDEIARAHHGLLVVGNAREGRGARFTLVFPV
>Rfer_0738 PhoH-like protein
MILRHLFSPPNNTRLSHLCGPMDEHLRTIEVALQVKIAHRHEQFKVDGTK
ANAKRGMEMLQALYEMAVRPIEPATVQLMLAGDADMNDTDGPGLKTRRSD
LKPRTLNQALYLDQIASHDITFGIGPAGTGKTYLAVAMAVDALARSAVQR
IVLTRPAVEAGERLGYLPGDLAQKIDPYLRPLYDALYELMGFEQVQKAFE
RQTIEVAPLAFMRGRTLNTAFVILDEAQNTTPEQMKMFLTRIGFGSKAVV
TGDVSQIDLPKTQLSGLIDAERVLKRVPGIAICRLTSADVVRHPLVARIV
DAYDAPGRASAAQRRQDDDIDDEVAGPKPRVRAHKKPA
>Rfer_2401 two component transcriptional regulator, winged helix family
MKVLLIEDNLQLVHTLTQSFGMLGIAVDGQSDGALADADLHKHAYDVVIL
DLALPKMDGFEILRRLRERGDTVPVLILTASGDIYDRVQGLNAGADDYLP
KPFDLTELEARLRALYRRSLGTAHSVLRVGRLEFDTVSRRFSVGARQFDD
LPPREHDLLEILIAHAGRPVNKNVMATRLCTSDVVLSHDALEIYVHRLRR
RLDGSGAAIRTLRGLGYVLEACDDAPS
>Rfer_1711 histidine kinase internal protein
MKDSQILSTFQEQAPELSAPAPKPAAMLVFDACHVGVMLRAVLFVEAVVA
VGAMFGSATFLDWLTRLSLLTGGALPATLVWLIVACSLKKLLARLSSSAQ
QVVGVALGAVAGLYGCGVLSLVGLLEPAPWLASAASGALLSAALVAALVL
RAKGQTPAATAARLSELQARIRPHFLFNTLNTAIALVRAEPAKAETLLED
LSDLFRHALMEQGKSVTLLDEIMLAQRYLAIEKLRFGERIQVEWALDPAA
STAKLPPLLLQPLVENAVKHGVEPSAQGAEIKISTQRRGSSVVIKVTNTV
PVGNSEPGSGVALNNVRDRLSLLHDLQGQFQYGLKDGVFQVRIEVPL
>Rfer_3942 serine/threonine protein kinase with Chase2 sensor
MAKSSLSESGSFWRTDGFVGVLVVLIVVLLYLGSDFIGTLERRFYDVAST
NTSSSRHPSDRIAVIAIDDRSIANIGRWPWPRGIHAQLIDKLATAKSKVV
VYAVFFFEPQVDRGLSYIRKMKEVLGADADPAGTPSARSEQLARVMTEAE
TALDTDGQLAASLKSAGNVILASSFTLGEPQGNADQPLPAFALKSALDEN
SAFSLPALRGQQPIERLGAAAAGIGHLNQTQDVDGAVRFEPLLVNYDGKA
VPSVALLAATQSLNLSTADIALHEGESVQIGQLRVKTDAAARMLPQFYQA
RDGKPAFSVDSFDDVLSGKILASKYADKIVIIGVTATGVGTQFPVPGNPA
LSPAEAIAHVTSSILGEHFIVQPGWGAGARLALLLLASAYLIAALPRLPA
GRAAVITLLLLTVLLGTEFGLLSGAALWLKLVFPATLLLIGHLALTTKRF
LMPQADKSKPDEESAETKRMMGLALQGQGQLDMAFDRFRRVPMTEAVMGD
LCRLALDFEGKCQSDKAGAVYQYMATYSKDYKDIKLKLNQAGNPSEAVLI
GGSISRPGGALRFDAGAIEKPMLGRYQVEKELGKGAMGVVYLGRDPKIGR
VVAIKTLALSKEFEGDELVDARERFFREAETAGRLQHQNIVTIFDAGEEH
DLAYIAMEFLKGKDLADYCQGGRLLAVPTVLSIVVRVAQALDYAHHQHVV
HRDIKPANIMYELESDTLKVTDFGIARITDSSKTRTGLVWGTPSFMSPEQ
LAGKKVDGRSDLYSLGVMLFQLLTGVLPFRGDSMAELMSKIANDEARDIC
SIRPALPAALARVVAVSLSKRPEARYQDGAQFAFELRAVLSALMGDVAAL
GGAVPTADRQASSVAEKTAQFVATVPASATEFEKTVVLASTTSTLKPPSA
KAGGLDT
>Rfer_3744 PAS/PAC sensor signal transduction histidine kinase
MLQTGTAIACCAGMHIDTQQVLTPPNAAMEPVLQKQLALLLESTGEGIYG
IDMEGRCTFINRAGANMIGREPEEVLGCNMHELTHHSHPGGQPYAAHDCA
IFNAFRQGLPCRIDTEVFWHRDQHCFPVEYSSYPLMDGDTVLGAVITFVD
ITERKRAADALQLAKNELEQRVSERTQELSVALGQLRELSAYSENVREDE
RTRIAREVHDELGSLLVALKMDVNWMDKRLSEQQQRTPHEAEAMRTRLRS
KCRNMSGLIERAVDNVGRIITDLRPSILDHQGLWAALEWQAHEFAQSAEL
ALDWDMQGTDGVELPEPEAMAVFRIFQEMLSNVARHAQAMALTLRIQVEA
EVLTISVQDNGCGANALAFEAPTAYGVMGMRERARHFGGQLEISSQIGLG
SAFTLRLPLSKM
>Rfer_3372 putative signal transduction histidine kinase
MRCSMTHCCLLKRLLLCCCALVLAGLALSAQALTLELRQAQALVTVQGQT
TRETVSLPYHWDRHHVGLAGEATFELPFELAEVPTVPFGLYLPRLGNAYE
IWLNGILLQQNGDLLHDNGPDFAKAPRHILISPGLLRTHNLFRVQIRADV
GRRGGLAPLTLGPDEEVYPLYLHDYRWRSTGSFIVVIVSLLIGLAAFVLW
ATQVDAAGPGRPRRDPLYLYAGVAELCWTVAVSDAIIEHPPFLWPWWGMV
VLAASTVWVGSMILFCAEVAGWSRLRAVGWLRCWLAVLLMASFAAGTTSL
VYGYPLAMTLLYAALGLTSLIFVATFIWKAARGASLPHKIVAAAVLWNTL
VGLRDLYVFRISQVYGGNTLLRYSSVLFGLALLYIVIMRFRVASAQARDL
NANLAARVAQKEQELAQSYRRVEQLAREQERAAERTRILRDMHDGVGAHI
STAIRQMESGQASHAEVLQTLRDSLDQLKLSIDAMNLSPGDITALLANLR
YRLEPRFKASDIELQWDVDLILPLARLDHAAMRQLQYMVFESLSNVLQHA
HATRLRIELRSTAQGGAQLRVIDNGCGFEPERVKRRGLSSLRERAAAIAA
SLLITSVPGNTVVEIELN
>Rfer_3025 cyclic nucleotide-binding domain (cNMP-BD) protein
MKVDPAIVQMSAENVRAEVIVRQPALKLDPAIIQKIKQQVPIFKGMTPDC
LMRTLAMAEYFSVKAGEVVFNEEDIGESFFVLIAGEVRVEKLRNGQVVEL
TRLSAGQCVGEMALVSKQLRSATVRAIRDTVTMRFYRELIDTNPESAHII
YRNIASILASRLDDSSVMLADLARRQTAP
>Rfer_2608 diguanylate cyclase
MSAIDPRTVLLLTGIMGGLMSLVLYSLKRNYPASIEGLGDWSAALLLLFA
GGLLVAGRGKLPNVVSISVSSFLLWSGLYLAYVGSQRFFGVKPRIAPWMA
LITGLALVQLWFSVVEPSYHMRLVLTTVATACLSGVHAWLVFRQGSITFS
RGLAVGVLVFLFGAQVMRLVTSFSAPFPLNAEFFDTSTLQLTYITSFAFS
VLLFSISAVLMATDRLRIELEHLANHDSLTNALTRRHMDDACRSELERCR
RHGHSMALLIMDLDHFKEINDIYGHQAGDQALINFVARVNALLRGPDQLG
RFGGEEFVALLPETSLDEAIAVAERIRGACTLAGQAPACTVSIGVTTNRK
DNDSVDTLLARADAALYRAKAAGRNRVEVA
>Rfer_0564 putative signal transduction histidine kinase
MRPHCCTDAGHLHLRASPTMIPFTMAQTHPHPRPLRILHLEDSALDHELV
KRALLKSHQPCELERVETLNEFGRRVKEFEFDVILADYRLPGFTALDAWH
ILQQQTRQPPFVLLSGAIGEPAAVAAIKTGISDYLAKDDLGRLAQVIRRA
LEVHDIRRAKEMADSELARSEKRLADFAEHLQMTIEQERAAIAREIHDDI
GGALAAVRFDLSWIGRHTADPVTQQHITAATEMLQQAIGASQRIMMNLRP
AILDQGLVAAVQWLAGGFAKRTGIKTTVHAAPEAGTLSKAVQLVAYRTAQ
EALTNIAKHADCSQVTIDLSDAENVLTLEIKDNGKGISPIELSKPQAFGV
RGLHERAKTVGGWLDVSTHLGSGTSIILSVPLA
>Rfer_2317 protein serine/threonine phosphatases
MPKGYRLTASTGIHKGDRDYQQDQVVLLRHARVSGCVLAVLADGMGGRSG
GRKASDQVMMTARQLFERYAPETDDAVVALTQLVQEAHTVIRLTAVSSEE
EPHSTVAAFLINPGGDCYWAHAGDSRIYHYRGNKLIKRTLDHSYVQALVD
RGELTEEQANAHPQSNILLGCLGTENDPPVSTHFIPQLHAGDILMACSDG
IWHYFTSDEIGSVLATLSAREATEFLIEKARSRGHGSGDNLSLVVVKLEP
LGT
>Rfer_3083 periplasmic sensor signal transduction histidine kinase
MTNIGLTQPNRTSHRIPWLFGLGYILVFLLLDWASYIRPLQGLNITPWNP
QPAVAVALLLLNRRWLWIVWVSLITAELVVRGNPADWLVVLTSTAALSLV
YAAIAHSLTTRMDRALALATQKDLLWFTGIVMTGALLSGVVYITAFSVAG
LGPSGPTYEPIVRYWIGDAVGLIVLLPMLLVVMDPLRRATLLETLKSRQW
WAVAVLTCLLLWVVFGPGGQDHFKYFYLLFVPVVWASAKLGVPGAVLASG
LTQLGLIFAVQSVPNEDLTVFELQVLMAAVTMTGLLLGVAVDERTRAAAE
LRGSLRMAAAGQMAAALAHELSQPLTALSNYAQACQMLVTDAPGLQPDHR
DQLVEVMQRMVDDANRAGNVIKRLRDFFRTGSTHLHLISPTAIVREAVQV
HLRRADALKLRMESQIQDNLPMVWMDPIQIAVVLRNLVTNAIDSAAATSS
GDLVVIRAYVTDGELLIEVKDNGPGVGTARLQTLFEAGPSDKPGGMGVGL
SICRAIVEAHGGRLWAEPGSEGCFRFTLPVESENHSEVKNA
>Rfer_1082 histidine kinase
MSTTASRGTQASDIQRLQRELLQARTELDDFTYAVSHDLRASLRHVSAYA
QIIQEDLGERLTPDIAAHLATVQQAAKQMTRQIEGLTELSRLTRLDLQLT
RLDVGQLLRDVLTAMAPALQGRVIHWQVAQDIPALQGDAVLIRQVLMHLL
SNAVKFTAHRAVAEIELTWQTHASGLCALTITDNGAGFNPQYKDKLFHAF
GRLHGAREFEGLGMGLALTRKIVERHGGVVWANAAPDAGCSVSFTLPLAP
TVN
>Rfer_3940 FHA domain containing protein
MPKMIVSIDGVVIKEVQLTKDRTTLGRRPYNDIVIDNLAVSGEHAVVQMT
GGQVYLEDLNSTNGTYVNGKAIKKQLLQDGDSVEVGKYKIKFVSDVLGES
YEKTMMVKAGASGLAPSAAPTSLTPPASAGFAAQASAEPPGAAIKVLSGA
AAGREVPLTKVVTTIGKPGVAVAAITRRQRGFVVHHVEGAGNPTLNGAPV
GAEQVALKNGDLIELAGTQMQFVQA
>Rfer_3783 cyclic nucleotide-binding domain (cNMP-BD) protein
MSDDFRFTVAPFDELSATEQALVRETATRVCLAAGDTLLSPTAVPQHLWL
LSIGHVQQDEDASSLVLGAGETLGWRALLTGRCHATATALDAVQAWQLPK
TAILSLLASNARFSARVFAGMSRQLVEEEDVNHNRELLALMLVRVRDIPL
HPPFYVDGSSDMVSVCRLMSEHQRTSALVHDVLDGVPRLGFFTTTDLRDA
MLRPQPLAVREVAHFALITLPPEAELFDALLTMLRHRVHRILVKDGDEIL
GVLSQLDLMGFVTNHSHLIALQVDQASSAEELKVAAQQVDESVGLLVRGG
VRIDIVSRLVSGLNAQIFARLWSLVAPAELIQNSALLVMGSEGRGEQILK
TDQDNALLLRDGYHCEGLADIVNRFSTALLTFGYPPCPGNIMVTNPLWCQ
PLAGFKEMIGHWLLGGNPEGAMNLAIFIDAHTVSGDATLLGNARAFALDL
AQGSEVFIARLADAINQFREPATGFFGVLSRLRGATAQTFDLKKLGTFPI
VHGVRALALEHRLEALSTVDRLHDLASQHALTPEMARDLEETLHLLMTLK
LRNNLRQIALGQPVTNLVVLADLSTLERHQLDASLAIIRQFRLHLQLHFR
LNA
>Rfer_0905 CheD, stimulates methylation of MCP proteins
MSRKKKPIDIFLQPGEYFVADAGYQIRTMLGSCVSITLWHPATRQGAMSH
FLLPTRGASKPKQTLDARYGDEALKLMLIELQRLGIPSAQCQGKIFGGGN
MFPGNLRSGALNVGQRNGEAALTLLREHGIPVMSESLFGIGHRQIVFDVS
NGDVWSHQVMPIGTDSGDKGDLL
>Rfer_2864 sigma54 specific transcriptional regulator with GAF sensor, Fis family
MRCAGDNVQPTLHDAVLRQARMRLIEHGDCPADGIDARLARSWQRSLAAG
LSPLDRVADSEHANAIDLRRILTRNHELLAHSRPVMDYLFDQVRGSEGMV
ILADQRGTLMRTLGHPDFLNKAQRVALTSGASWLEQHRGTNAIGTALAEL
EGVEIHGAEHFFERNAFLSCTAAPIVSARGELLGILDISGDQRSDHPHTL
GLVNMAARMIENSLMLDASRCQTRLHLHPQREGIGTVAEGIVTLSDDGWI
VGANRNGLAFLKLATRALGAVQLTHAMDVRLSDLLSRPLRSPDQPRLVRL
CDGTELYVLVQVAQGALQIALPALVMPKLDDALTQLDTGDVRWRSVTDKV
RRVLDKPIPLLIQGESGVGKELFARAVHDSGPRRSKPFVAINCAAVPENL
IEAELFGYAPGAFTGARREGSPGRLREAHGGTLFLDEVGDMPLAMQARLL
RVLQEREVSPLGGGSAVAVDFGLICATHCKLREATELGRFRSDLYYRLNG
LTVQLPALRERTDFAALTQRLLAGLNPQRNIHVAPALLARLSAYAWPGNV
RQYANALRTASAMLEPHELCIDWAHLSDDLQEDLAVQAAPTAPQTRAAML
STAAEPSQNLSQLSRTAICQALDGSGGNMSQAARRLGISRQTLYRKLAAL
K
>Rfer_3549 cyclic nucleotide-binding domain (cNMP-BD) protein
MDLPRGPTQNHLLAALPAAELERIAPQLELVPMLLGDVLCESGGQLQHVY
FPATAIVSLQYTTEDGGSAEIAGVGNEGMLGVSLFLGGNSTPHCATVQTG
GSGYRLKTHLLLEEFNRAGPMMRLLLRYTQALMTQMSQTAVCNRHHSVEQ
QLCRWLLATLDRLPSTELTMTQELIASMIGVRREGITAAAGHLQQAQCIR
YRRGHITVLDRQGLESRVCECYGVVKNEYDRLLGDVRQR
>Rfer_0891 metal dependent phosphohydrolase
MNAATPSKDIDVKLFSMVLCFSRAIDFLHPKISEHHLRVAYVASCLAEEL
GLGQGQIQEALIAGALHDVAAVSSAMHFDLFDDALTRYHVSTRQIPDHLH
LHGWEGYLLLRDFAPFAKAASAIRFHHVNWDFGHGREFEGEQVPLTSHIL
HLADRIAVLPDDDRHVLEQVAGIRQAVATGTGRWFMPAVAAAFDGISEKE
SFWLDLTSRHKEEIISRRFGGSKVSLDLDGLYQLARIFGKIIDYRSPFTA
AHSSGVAATSEELAHRLGMSPTERRLIGVAGNLHDIGKLAVPTEILDKPG
RLTPQEMFIIRQHPYYTHRILSTVPGLETVNTWASLHHERLDGRGYPFRP
RELPLGSRIIAVADIFTAITENRPYRRGMDRMQCLAVLDQLVAEGAIDGD
VVAVLRHDFDQIHHIRRRSQSAHASDSDMTAAGALLPSA
>Rfer_3326 transcriptional regulator, Crp/Fnr family
MEEPILTIDERAAINSGRWFSTLSPSLRHDILRCAYVKRYKDGELITARG
EPPEEWIACARGAVRVSSTSISGKQITLTYVEPGIWFGDVAIFDGDRRTH
DAYAHGETTILCVAKADFKKILAHHAELYEALLRLHARRIRQLYGLVEDL
NTLPLRARLAKQLLHLVRSYGVPSLSDGREMRIGLQLAQEELAQLLGASR
QRVNQELKSMEREETIRIEPGGLVIRNRDALMLIADADN
>Rfer_1888 CheC, inhibitor of MCP methylation
MTITGAQLDALTEIFNIGAGRAASSLSDIVGDEVLLSVPRVEFYRAHEVN
AKVLSLSSARLGSVKQKFRGPFNLTASLLFTEERALEIVQEMLGSQVQKE
DLVEYEQEAMCEVGNIILNACLSAMADMLGISFESTLPEYSSAEPDVVIE
RLVADADNPLMLVLHINMLIEKRRSQGTLIFWLSSSSLQELMLHLEQFVS
RI
>Rfer_0895 response regulator receiver modulated diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MSLPGSLCANKGRILVVEDEMIVARDIAQQLVALGYQVVGHATRGQEAID
LAGALQPELVLMDIQLAGAMDGIAAAQAIRLQFLLPVVFITAFAADEVLA
RAKLTEPFGYILKPFSERELRTVLEMALYKHQADSQARDAARHTQAILDG
MVDGVITLNAQGLITSINQAVSTLFGYAPEELLGHNVAMLMPSPHRSLHG
GYLRRHQHTGAGCAMGQGREVDGQRRDGSVFPISVSVSELMHNGQTQFIG
LVHDITQRRRSEENIYRLAFYDKLTGLPNRRLLMDRLKQALITSTRTGQH
GALILLDLDHFKQINETFGLDAGDELLQQVGQRLPTCVRDDDTVSRFGGD
EFMVMLEALSSQPQEAAIQAEAIAQKILLALAQPYRLRGHTHGTTPSIGV
VMFRQAQVSLDDLLKMTDVAMYQAKAAGRNTVRFFDPALQALALARTALE
ENLRRGLALQEFVLHYQIQVDHQGLPTGAEALLRWQHPVRGMVPPAQFIP
LAEETGFILPLGQWVLESACRQLVAWSHQRATGSWTLAVNVSALQFAQPD
FVAHVTSALQATSANPTLLKLELTESMLVGDVQDVITKMNALKAQGVSFA
LDDFGTGYSSLSYLKRLPLDQLKIDQSFVRDLLINPNDAVIAQTIVALGH
NLGLQVIAEGVETVGQHDYLASIGCDAFQGYYFGRPVPAAELACLLKQIR
P
>Rfer_1627 serine/threonine protein kinase
MSKVRPAPLAPNTLIGGYRVVRKVAAGGFGVVYLAEDSEGQQVAIKEYLP
SALATRVAGELLPQVQPERLSLYRLGLKSFFEEGRSLAQISHPSVVSVLN
FFRENETVYMVMNYLEGASLQDFIVTARDLKQAKVFRESTIRSLFDEILR
GLRIVHQHKMLHLDIKPANVFITDDNKSVLIDFGAAREVLSKEGNFVRPM
YTPGFAAPEMYRRDAAMGPWTDIYAIGACIYACMLGYPPNEAPQRLEKDR
IAMALTRMRGVYSDNLIEIVEWCMSLDPLSRPQSVFALQKELSRAGERRY
TRLSVTEKVRLQFDTMVSDTKKSVQKATRFGAKIK
>Rfer_3587 response regulator receiver domain protein
MANILVVDDELGIRDLLWEILNDEGHSVEVAENAAQARAARLRERPDLVL
LDIWMPDTDGVTLLKEWSATGVLTMPVIMMSGHATIDTAVEATKIGALAF
LEKPITLQKLLKAVEQGLARGAIRKLVAPLMALPDLPLADVGATAAPSGL
VAADVLPPSQQTFMLDKPLRESRDEFEKAYFEYHLGKENGSMTRVAEKTG
LERTHLYRKLKQLGVDLTRGKRNGA
>Rfer_3820 two component transcriptional regulator, winged helix family
MRLLLVEDDLMIGESVLDLLRAEGYAVDWVKDGEMADTALDSQTYDLVLL
DLGLPRRDGLAVLRRLRARKDRTPVLVATARDAIAQRVEGLDMGADDYIV
KPYELDELLARIRALIRRAAGRAEPVYEHLGVSINPVTREVLLDGQAVVL
SAREWSILELLLARPGMVLSRRQLEEKLYSWKDDLSSNAVEVYIHGLRKK
LGPRIIQNVRGVGYMIPQSAP
>Rfer_3950 two component transcriptional regulator, winged helix family
MRILIAEDDQVLADGLLRTLRSSGAAVDHVASGTEADAALMTNTEFDLLI
LDLGLPKMHGLEVLKKLRARGSALPVLILTAADGVEERVKGLDLGADDYM
AKPFSLHELEARVRALSRRGMGSASSTIKHGPLIYDQSGRVATIDGVMVE
LSARELGLLEVMLQRVGRLVSKDQLVERLCEWGEEVSNNAIEVYIHRLRK
KIEKGPIRIATVRGLGYCLEKIPK
>Rfer_2773 conserved hypothetical protein
MISLGRLMSTPGVNRRTLILKMLRLPRSKVQIGTPLPWSVRDEQGTLLLS
KGHLVESEHLLDQLLLRGAYVDAEEARAVALADAPQRPKTPVPPPNIFGL
WDKTTDDLKKLLVSVTHQDDFPGRIEQFARHLLELVDCNADIAIYRCVRQ
DNAQHFYFGYTHAVYTAMLCILMARHLKWSETRLMSLVKAALTMNQPILD
LQGQMAGQDVPMKDKQRAAIHTHPTQCVEWLQKAGVTDADWLTAIAQHHE
RADGTGYPLGSTEVCEMAVALRVADTFTSRISPRVMRPALSPQEAVRQLY
QEDKGGPLSTAVIKELGIYPPGDFVKLASGELGIVVQRTANARAPIVASI
TDTAGRPVPHTVRHDTAQPEFAIKATASDKVMLMRLPPERLFGFSLAPQA
PVVRPKPVH
>Rfer_2735 response regulator receiver domain protein
MGALRKVLVVDDDAVVGKSFKRVLSDKGYIVTTAENAHEALKQIREQEFD
VVFTDIKMPGMDGVELAEHVKASRPWTPVVIITGYGTAENEVRAKAAGVS
DFMRKPLSPEMIEESAAHALLQPALTIVPTLQASPVEQSQVEVLEEKSNF
RNIALFLAAPFIGLAYAVFLPLVGLAMLAWIGGKALLQTQAAKKTPAYLR
NVALFAFAPFIGLAYAIMLPFVGTAMLVWVGAKALMETKQTA
>Rfer_2486 histidine kinase
MSPNNQDIRNRLLVARLPSMPQILLKLIELCQADEAGMAELAKLIANDAG
MTAKVLSVANSAAYHRGGNKVGLLQALGVLGSDMIKTLVISESVFQTFSG
FPHSGSTDLRSFWKHSLTTAVVAREIAKKMAYPHAEEAYLAGLLHDVGRL
ALLAAAPNEYGFNFLAQDDASLCAVEQHTLQISHADAGAWLIERWNLDSF
MADSILYHHESTMRLEAAHPLIRIIHLAQLLSNHDPALPLSANAGSLCKI
NLDDLSLICDGAAAQVKKAAEYLGIDLSGVDDLVAPPARALAAPVADPAQ
QRLTEEVRNMALSAELGQSFARQKGDTQLLDVVRQNARILFNLENTIIFL
MNGSGQALVGVSFAEQQQRLAEFSIAMSGGGGIAGSALQRRLVFLERDGT
RQGLAEEQLMRIFDADCLVCVPIASASRCLGMMVGGVPAWRIAELKYREK
FLQSFGAQAATALEAATRDRGEIDQRIASLKEDYRESSRRVVHEVNNPLS
IIKNYLGVLDDKLTRQEPVADELLILNEEIDRVGNIINEFAGVAPKTQAG
ATEINRVVNDLVRLFRESRFLPPSVQIVARMPEQIAEINGSADILKQILV
NLLKNAVEALPRGGHIEIDNKGCVQRDGRAFFELCIKDDGPGIPAEVLAK
LFSPVRSSKVGQNRGIGLSIVHSLVKKLDGLISCQSTGAGTAFEILLPAR
NAAAQGAAALSIKALA
>Rfer_3812 activator of osmoprotectant transporter
MTRTTPEAPAQADTPTQPAEQASKPGRSQAVQPVLEKLFELYPHLFGAEF
LPLKLGIFQELLALHPEQFQRDSLKLALGLHTRSTRYLQSVAAGKPRHDL
QGAAVEAVAPEHVHFALLELFRRRQGRTQADLRPKLRAQLLAAFAASGLT
RQEYQARVLTKDASANTLLEEAFAELDQKLAKQEALLRAFNSSGKTPAEF
ADMYGLDQRDVMLVLDQGRSQPVPAVKP
>Rfer_1937 transcriptional regulator, Crp/Fnr family
MPLGLSEEELDLIDDMVAARRTVKRGSLLFRNGEKFTSLYAIRTGFFKTC
VASEDGRDQVTGFQMAGEVVGLDGIVNDYHTCDAVALEDAEVCVMPFDRI
EELSRAVNSLQRHVHKIMSREIVREHGVMLLLGSMRAEERLATFLLNLVQ
RLHARGFSQSELILRMTREEIGSFLGLKLETVSRTFSRFAEEGIVEVKQR
HVRILNTDALKDIVNPKSGAGTA
>Rfer_0916 UspA
MYQRILVPIDGSATSTLGLDEAIKLAKLTGASLRLIHVSDALTFATGFET
YAAYAADVIPRLKEAGEQILEQGRIRVAASGVKVDTLLLDGMVTRVSDLV
VDQAKAWDADLIVIGTHGRRGVGRWLLGSDAEQIVRMAPVPVLLVRALEV
EGNAGATVRAGEAARASNRAAPT
>Rfer_2394 transcriptional regulator, Crp/Fnr family
MQNLSRTRQVVIELTIDLCLPLPMFPSTASSTSRFLATQSWFAGLPRLTQ
MRVDESLLRTSGRRGDVMLQANAKVEGCYAVLSGLIKVQTVPVKGRSSSF
LGVACGEWFGEGSALKTEPRRYEVIALRDTELLCLPLAEFDHLRATSIEF
NQFLVSQLNLRVSQAMALIEASRLRTPEQRVALSLSRQFWSRTRKLGLSQ
DELANLVGVSRQTANRALQALAQRGLVTLEFGRVDIVDDDALTRFIFSAP
ENPSD
>Rfer_3547 diguanylate cyclase
MLDAADILAASILIVDDQEVNVRLLEQILREAGYRRLTSTMDPYAVCDLH
RTNRYDLILLDLEMPGRDGFQVMEALKEDEADADGYFPILVITAHPDHKL
RALASGAKDFISKPFDLMEVRTRIHNMLEVRLLYKQLEHQNRALESLALH
DPLTGLPNRRLLMDRMALGIAHARRNRGNMAVVYLDLDGFKEINDTLGHD
GGDALLKMVATRLVGAVRQEDTVARVGGDEFVIALAELSHGDDMEKLVSK
VLQAVSKPCSIQGSSVNVTASVGVSVYPVHGDNVETLMKSADLALYEAKG
AGKNDYRISGLAEL
>Rfer_1093 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MSAKFVNEDLNPQQTETDTALRQLNAQLTEKSRLLQTTLTSISQGILVFD
VQGRVDIFNPRVCELLDLPERLLASRPTVQALTRYQRDRGDFGRDAALVE
VHARNCVLGVAAGAPDDLPSHYLRVTPAGRTLEARTQALPEGCMVRTFTD
VTDYVQAQATLQKNEERWKLALESTGDGVWDWHIQSGVEFYSKRLLEILG
YDVGDVHLQARGEFDKLIHPDDMAQLLRARQAHFDGLTSTYADEHRVRCK
DGSWKWMLSRGMVISRDAQGLPLRMIGTHTDVTERKKSEALIWRQAHFDT
LTGLPNRHMLRDRVAQEIKKSKRDGLQLAVLFIDLDHFKEVNDTLGHNSG
DRLLVEAARRISDCVRESDTVARMGGDEFAVILTELLDASSLERILQKIL
RALECVFQLDGEQAFVSASIGVTMYPLDAGDIEDLFKNADQALYVAKGAG
RNRFSFFTPALQQAAQNRVRLANDLHAGLIGQQFRLVYQPIVELASGAVC
KAEALIRWQHPTRGLISPVEFIPIAEASGLIVAIGEWVFQQAARQVQAWR
TALDPDFQISVNKSPVQFYQRGKTKTPWAQQLQAMGLPGNSIVVEITEGL
LLDTSSSVADQLLDLHDAGIQVSLDDFGTGYSSLSYLQRFDIDFVKIDQS
FVRYLIPESTDLALCQAIIAMAHALGMKVIAEGVETAQQRDLLAAAGCDY
GQGYLFSKPVSAPDFEAFMAAQASRTPELTA
>Rfer_3704 response regulator receiver domain protein
MANELRFLVVDDFSTMRRIVRNLLKESGYTEGDEAEDGVVALQKLRNSNF
DFVVSDINMPNMNGFQLLSEIKKDEKLKHIPVLMVTAEARKEDIVLAAQS
GAAGYIVKPFTKATLEDKVSLILTKLGLK
>Rfer_3768 transcriptional regulator, LuxR family
MSTQHLFLSSPVAPLPGRLREAFPDVQALDATVMQTRLPSPPAAQCLVWL
SNADVQWARNLRQILQTQPDARVVLLSSMPESDEGLRALNEGARGYTHAY
GVPALLQEVALVIEHGGLWVGPDLLQRLVGSTNVALASRPAAAKAQVPVT
ASSSTNAWSTLSAREAQVARSVSAGRSNKEVASLMFISERTVKAHLGAVF
EKLGVRDRLQLVLRLSAAVEPVPTSPMEPAP
>Rfer_3410 protein tyrosine phosphatase
MSTYSILLVCTDNLCRSPTAEEVLRQKAIQHGLTDQVRVASAATHDFNTG
EPVDFHAQKHAMRRGYDLSGLRARLLHADDFERFDLILAMEESNLLLLRL
SCPQKYHDKLHYFTQYCSDPASQDVPDPFYGQPQDFEHVLDVIEDGCEGV
LIAVNEEIDHDD
>Rfer_4028 diguanylate cyclase
MRINLLFSLRGKLTAMLLLASLTAALAVGGTAYWLLMQDFNATARETAFT
NFQTDIQAYIGTYGSWENARRNQVFHEFVMQRRGPSGSLNPLPGAGGRPA
LPGETDAGETRRQGAPAGAVHHRDPPFHFMLIDTQGHVLLGGDGRQDTAV
GEDLRRHARPISVNGKVDVLAVPVGSPQLSTQDKAYLGAMREALQNGLLA
ACALTVVMGLVFGSRFGARVRELTSAIQSMRADGEILQQVPVHSRDEMGL
LASAFNRMSRELSQAHSALRRTNEQVQSQAAQLKELSVRDPLTQMFNRRY
FDEQSALLYQQAMRHGWSVSVMVGDLDYFKSINDDFSHAIGDEVLRRVAL
ILRKNTRSTDIVARYGGEEFVIAFPESTVQQAAIRCEALRAAIEQHTWQE
VHPELRVTMSMGLCDDTKRGSIEKMLAAADEGLYEAKRSGRNRVVSC
>Rfer_3646 two component transcriptional regulator, winged helix family
MEKRDCILIVDDEPEIRRLLVDYLMRNNFEAVAARDGREMWQALDRHAID
LVVLDLMLPDTDGLSLCRELRAKSNLPVLMLTALGEETDRIVGIEMGADD
YLVKPFSPRELLARIKAVLRRTRALPPNMRPESARCLCFAGWCLDTAERL
LTAPDGVATPLSGGEYRLLHILLDHPNRVLNRDQLTEMIHGREAEAYDRA
IDVQVSRLRQRLRDDSREPTLIKTVRGEGYVLAASVQRQASCA
>Rfer_0571 response regulator receiver modulated CheB methylesterase
MARWICFEDIELKKIRVVVVDDSALVRSLLAEIINRQKDMECVGTANDPL
IAREMIRELNPDVLTLDIEMPRMDGIDFLGRLMRLRPMPVVMVSTLTERG
AEITMKALELGAIDFVAKPRIGVASGLTELSDQIVEKVRIAATAHVRRAP
AVPAAATPAVGGAVGGHAPVASIGRVSTEKLICIGASTGGTEAIKEILTR
LPADSPGIVITQHMPPGFTTSFAARLNSLCQIAVQEAVNGERILPGHAYI
APGGKQFRVSRSGANYVALVEDGELVNRHKPSVEVLFKSVASVVGRNAYG
VMLTGMGNDGAKAMREMKDAGSYNFVQDEASCIVFGMPREAILHGAADEV
LPLTAIAPALIAKLSSATDRYRV
>Rfer_1091 two component transcriptional regulator, winged helix family
MSHLLIVEDDELLRDALGAQLTQAGHTVTPASDGERAQALLESNRFDGVI
LDLGLPKVSGMEVLRWLRKRLPALPVLVLTARDGVEDRVQGLNAGADDYL
TKPFSMAELQARLGAMLRRARLPAFGGSLELVTDGARRLRVDARLPQAWL
GDEALELTQREWALLSLLVTNAGQVISREDVLCAWQSEPGDGTSTGASAG
VGSNALEVYIHRLRRKLADSGLNIRNVRGLGYMLESSAP
>Rfer_1926 UspA
MYKKILVATDGSTLSKKAVSSAIDLAALCEAELVAMKVIPRYPQSYFEGG
LALQAAEVSRVEKQWAEDGQAVVDAVQQAALAKGVKTKAITVKSDLVSDA
IIAAAKKHKCDLIVMASHGRRGIKRMLLGSETQLVLTHSHVPVLVLR
>Rfer_3893 diguanylate cyclase/phosphodiesterase with PAS/PAC sensor(s)
MYLFNLLPAAWRLRVPRTLLALCALALLTAPTLAREVRVGVYQNEPKIFM
GADGQPSGILGDLLVAMARLEGWTLKPVPCEWAACLDALQAGNIDLMPDL
ALSEQRLQIFDVHKIPSLLSWSQLYKHSGVPISSMLDLKGKRVAVLAGSV
QQAYLQNLLSSFAVQAELVPVQSLEEAFKLTAAHQVDAAATNRFFGDRRA
ASYQLDATPILFQPAQLFYATAKGRNADLLVAIDRHLGQWQSQADSEYFT
VLKRWIEAPPQFSVPAYLWWSLGALALLLALALAGSALLRRQVADKTRHL
RASEDRLATILNSVDAYIYIKDMELRYQYANRKVCELFDRPLAQVVGSTD
SEFFDATTVERLRINDKRVIDNGERVEADEVSRSLDGSREQTYLSIKLPL
RQPDGSIYALCGISTDITEHKRSEDAIHQLAFYDPLTLLPNRRFLMERLQ
QTLKANERQQQCGALLFIDVDNFKDLNDTLGHAMGDELLRQMAVRLSTCT
RAEDTLARQGSDEFVLLLCDLSPDLDAALEQTRHVAQKILQHIAEPYLLE
TRHYQSTVSIGIAMFGDTPTSRDELFKQADLAMYRAKAEGRNALCFFNPA
MQAQVTARTAIEADLHQALARSEFVLYYQPQVNIDGQQFGVEALVRWQHP
QRGLVPPLEFIPIAESTGLILPLGRWILSTACRQLVAWAASPEQAHWSIA
VNVSARQFRQSDFVQTVEQVLRDTGANPQRLELELTESLLVDDVEVVIAR
MSALKALGVRFSLDDFGTGYSSLSMLKRLPLDQLKIDRSFVRDLRHDPQD
ANIVKAIVTLGFAMNLQVIAEGVETAEQRDALVNLGCTHFQGYLFGRPAP
APA
>Rfer_2071 (p)ppGpp synthetase I (GTP pyrophosphokinase), SpoT/RelA
MKTLSAEPTGAASLAQPLPQLLTATAQTLPEQSHALARARAFAEPLLASE
TLDTGENTLAHADAVAAILRIIGGSEAMQAASYLVYACDHLNKPQEVIAK
AFGDNFAALAVETTKLVRVQRQARQAQVASERAATGIPMAQTAAAQTENV
RKMLLAFSRDLRVVMLRLASRLQTLRFFAAARQAAPPGVAREALQVFAPL
ANRLGIWEIKWEMEDLAFRFLEPDVYRQVARLLDEKRSERELHVEQLRQQ
LESDLKAQGMSVTVQGRPKHIFSIVKKMRGKSLAFDQVHDIRALRIVVAD
IADCYAALSWVHSQFTPIAEEFDDYIAKPKANGYQSLHTVVRDAAGLPIE
IQIRTQAMHDHAEHGVAAHWAYKEAGVKGYAGVSATSSYDAKIAVLRQLL
AWERDLSGTSAQDVGLDDRIYVLTPEAAIVELPQGATAVDFAYSVHTDLG
HRCRGARIDGVMVPLNTPLKNGQTVEVTVAKEGGPSRDWLMAEQGYLVSH
RARSKVRAWFNAQALHETVAKGREAVEKLLQREGKTALKLQDLAAQLGFN
SADDLFEVVGKDEFSLRNIETLLHPPEPVQADDGPLLKKPRSASNPAKGG
LLVVGVDSLMTQLAKCCKPAPPDPICGFVTRGKGVSVHRADCSNLREMIA
QNGERVIEVEWGQPPGSANGSAGSAVYPVDVAVHAMDRQGLLHDISEVFT
KEKMNVIGVQTQSVKGIALMTFTVEVSDAGRLHKVLGVVAELPGVRSARR
R
>Rfer_0569 MCP methyltransferase, CheR-type
MALVRTDVRPNAAVRMPVGGVSDAGGADMQGREFAWTDADFDRVQALIYQ
RAGISLHDGKHAMVYSRLSRRLRDTGYQSFKDYLGWLETHDGPEWQEFVN
ALTTNLTSFFREQHHFEIFASHLKSRPAGTAWRVWCNAASTGEEPYSIIM
TALEALGPQANLTLTASDIDSKVLASAAQGVYRLEGLKGVNEERIQRFFL
RGKGGNAGMARVKPELQRMIEFISVNLIRDDWPFRQPFDVVFCRNVMIYF
DAPTQRKVLERIHRVMVPGGLLFVGHAENFSESRDLFVLKGKTVYERR
>Rfer_0578 two component transcriptional regulator, winged helix family
MRQQPGVLIVEDEPAIAELIAVNLRHNGFRPTWAMDSASAQRELDAVLPD
VILLDWMLPGESGLALAKRWRAHPRTKAIPIIMLTARGDETDRVAGLDAG
ADDYIAKPFSTKELLARMRAVLRRRAPEQVGGVVSVGALSLDTATYRVTF
AGQPLKLGPTEFKLLQYLMSHAERVHSRGQLLDKVWGDHVFIEERTVDVH
VKRLREALGAQAGQMVETVRGAGYRLTAQSIQAAPVQASA
>Rfer_4056 protein of unknown function RIO1
MFLFPACSIATADASRPGATQCKIPFMKPPARLQSLIEEGLIDTVVRQLM
SGKEATVYVVRRANETWCAKIYKEATQRSFRQAVDYTENRKVKNSRQARA
MAKGTRFGREAAEAAWQSAEVDALYRLADAGVRVPKPHNFIEGVLLMELV
TDAAGDAAPRLNDVTLEPAQARTHHATLLLEVVRMLCAGVVHGDLSEFNI
LLGVDGPVIIDLPQAVDAAGNQHAQRMLLRDVNNLRSFFGQFAPELLQTD
YGHEIWDLYQRGLLSPEVTLSGRFTHKKGAVNVSGVLREIGDAQAEEAAR
RLRQQLPR