RPS-BLAST 2.2.22 [Sep-27-2009] Database: CddB 21,608 sequences; 5,994,473 total letters Searching..................................................done Query= gi|254780893|ref|YP_003065306.1| two component response regulator [Candidatus Liberibacter asiaticus str. psy62] (236 letters) >gnl|CDD|182612 PRK10643, PRK10643, DNA-binding transcriptional regulator BasR; Provisional. Length = 222 Score = 167 bits (424), Expect = 3e-42 Identities = 85/229 (37%), Positives = 129/229 (56%), Gaps = 11/229 (4%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYE---FDAIILDLGLTDI 57 M+IL++EDD L + L L++E Y D E E + ++LDLGL D Sbjct: 1 MKILIVEDDTLLLQGLILALQTEG---YACDCASTAREAEALLESGHYSLVVLDLGLPDE 57 Query: 58 PGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVR 117 G +LR R K + PV IL+ ++ED+V GL GADDY+ KPF EEL ARIRA++R Sbjct: 58 DGLHLLRRWRQKKYTLPVLILTARDTLEDRVAGLDVGADDYLVKPFALEELHARIRALIR 117 Query: 118 RSRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNH 177 R +G ++ + G+L++NL + V + G + LT KE+ ++ L L+ + + +E+ Sbjct: 118 RHQGQGENELQVGNLTLNLGRQQVWLDGQELILTPKEFALLSRLMLKAGSPVHREILYQD 177 Query: 178 LYDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVLRENAK 226 +Y+ DEP ++V I LR K+ GK+ I TV G GY+L N + Sbjct: 178 IYNWDDEPSSNTLEVHIHNLRDKV-----GKDRIRTVRGFGYMLVANEE 221 >gnl|CDD|130454 TIGR01387, cztR_silR_copR, heavy metal response regulator. Members of this family contain a response regulator receiver domain (Pfam:PF00072) and an associated transcriptional regulatory region (Pfam:PF00486). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc. Most members encoded by genes adjacent to genes for encoding a member of the heavy metal sensor histidine kinase family (TIGRFAMs:TIGR01386), its partner in the two-component response regulator system. Length = 218 Score = 144 bits (365), Expect = 2e-35 Identities = 75/219 (34%), Positives = 122/219 (55%), Gaps = 1/219 (0%) Query: 3 ILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEV 62 IL++ED++ A ++ L + V G DG+ L ++D IILD+ L + G+++ Sbjct: 1 ILVVEDEQKTAEYLQQGLSESGYVVDAASNGRDGLHLALKDDYDLIILDVMLPGMDGWQI 60 Query: 63 LRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSRGH 122 L+ LR + TPV L+ S+ DKV+GL GADDY+ KPF+ EL+AR+R ++RRS Sbjct: 61 LQTLRRSGKQTPVLFLTARDSVADKVKGLDLGADDYLVKPFSFSELLARVRTLLRRSHSL 120 Query: 123 AQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHLYDGR 182 +++ DL ++ V RI LT KE+Q++ LL R L + + + ++ Sbjct: 121 NSTVLEIADLRMDSVRHRVSRGNIRITLTRKEFQLLWLLMRRTGEVLPRTVIASLVWGMN 180 Query: 183 DEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVL 221 + + ++DV I +LR K+ + K I T+ G GYVL Sbjct: 181 FDSDTNVVDVAIRRLRAKVDDPFEEK-LIHTIRGMGYVL 218 >gnl|CDD|182950 PRK11083, PRK11083, DNA-binding response regulator CreB; Provisional. Length = 228 Score = 142 bits (359), Expect = 1e-34 Identities = 71/224 (31%), Positives = 118/224 (52%), Gaps = 2/224 (0%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGF 60 ILL+ED++A+A ++ L+SE F V + G ++ + D +ILD+GL DI GF Sbjct: 4 PTILLVEDEQAIADTLVYALQSEGFTVEWFERGLPALDKLRQQPPDLVILDVGLPDISGF 63 Query: 61 EVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSR 120 E+ R L + PV L+ S D++ GL+ GADDY++KPF+ E+ AR+R I+RR + Sbjct: 64 ELCRQLLAFHPALPVIFLTARSDEVDRLVGLEIGADDYVAKPFSPREVAARVRTILRRVK 123 Query: 121 GHA--QSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHL 178 A +I G ++ A + G + LT E+ +++ L L +++ ++ + Sbjct: 124 KFAAPSPVIRIGHFELDEPAARISYFGTPLTLTRYEFLLLKTLLLSPGRVFSRQQLMDIV 183 Query: 179 YDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVLR 222 ++ + + +D I LR KL + I T G GY LR Sbjct: 184 WEDAQDSYDRTVDTHIKTLRAKLRAINPDLSPINTHRGMGYSLR 227 >gnl|CDD|182102 PRK09836, PRK09836, DNA-binding transcriptional activator CusR; Provisional. Length = 227 Score = 138 bits (348), Expect = 2e-33 Identities = 77/222 (34%), Positives = 126/222 (56%), Gaps = 2/222 (0%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGF 60 M++L++ED+K + L F V + D G +G L ++D IILD+ L D+ G+ Sbjct: 1 MKLLIVEDEKKTGEYLTKGLTEAGFVVDLADNGLNGYHLAMTGDYDLIILDIMLPDVNGW 60 Query: 61 EVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSR 120 +++R LR A P+ +L+ + +IE +V+GL+ GADDY+ KPF EL+AR+R ++RR Sbjct: 61 DIVRMLRSANKGMPILLLTALGTIEHRVKGLELGADDYLVKPFAFAELLARVRTLLRRGA 120 Query: 121 GH-AQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHLY 179 +S DL V+L ++ V G RI LT KE+ ++E + L + + + ++ Sbjct: 121 AVIIESQFQVADLMVDLVSRKVTRSGTRITLTSKEFTLLEFFLRHQGEVLPRSLIASQVW 180 Query: 180 DGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVL 221 D + + IDV + +LR K+ N K I+TV G GY+L Sbjct: 181 DMNFDSDTNAIDVAVKRLRGKIDNDFEPK-LIQTVRGVGYML 221 >gnl|CDD|185376 PRK15479, PRK15479, transcriptional regulatory protein TctD; Provisional. Length = 221 Score = 137 bits (348), Expect = 2e-33 Identities = 79/224 (35%), Positives = 125/224 (55%), Gaps = 10/224 (4%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGI---ELCKFYEFDAIILDLGLTDI 57 MR+LL ED++ LAH +E L F V D DG+ L + + +LD+ + + Sbjct: 1 MRLLLAEDNRELAHWLEKALVQNGFAV---DCVFDGLAADHLLQSEMYALAVLDINMPGM 57 Query: 58 PGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVR 117 G EVL+ LR + PV +L+ S++ D+V+GL GADDY+ KPF EEL AR+RA++R Sbjct: 58 DGLEVLQRLRKRGQTLPVLLLTARSAVADRVKGLNVGADDYLPKPFELEELDARLRALLR 117 Query: 118 RSRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNH 177 RS G Q + G+L + D +QG + LT +E ++ +L R+ ++++ Sbjct: 118 RSAGQVQEVQQLGELIFH-DEGYFLLQGQPLALTPREQALLTVLMYRRTRPVSRQQLFEQ 176 Query: 178 LYDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVL 221 ++ DE + I+++I +LRKKL + I T+ G GYVL Sbjct: 177 VFSLNDEVSPESIELYIHRLRKKLQGSDVR---ITTLRGLGYVL 217 >gnl|CDD|131209 TIGR02154, PhoB, phosphate regulon transcriptional regulatory protein PhoB. PhoB is a DNA-binding response regulator protein acting with PhoR in a 2-component system responding to phosphate ion. PhoB acts as a positive regulator of gene expression for phosphate-related genes such as phoA, phoS, phoE and ugpAB as well as itself. It is often found proximal to genes for the high-affinity phosphate ABC transporter (pstSCAB; GenProp0190) and presumably regulates these as well. Length = 226 Score = 134 bits (340), Expect = 2e-32 Identities = 74/223 (33%), Positives = 120/223 (53%), Gaps = 4/223 (1%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 RIL++ED+ A+ I L+ ++V G++ + L D I+LD L G E Sbjct: 4 RILVVEDEPAIRELIAYNLEKAGYDVVEAGDGDEALTLINERGPDLILLDWMLPGTSGIE 63 Query: 62 VLRALRVAKI--STPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRS 119 + R LR + P+ +L+ ED+VRGL++GADDYI+KPF+ EL+ARI+A++RR Sbjct: 64 LCRRLRRRPETRAIPIIMLTARGEEEDRVRGLETGADDYITKPFSPRELLARIKAVLRRI 123 Query: 120 R-GHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHL 178 R + +I GDLS++ A V G + L E++++ ++E L+ + Sbjct: 124 RPQLSDEVIEVGDLSLDPVAHRVFRGGQPLSLGPTEFRLLHFFMTHPERVYSREQLLDRV 183 Query: 179 YDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVL 221 + E + +DV I +LRK L N G ++ ++TV G GY Sbjct: 184 WGRDVYVEERTVDVHIRRLRKAL-NPFGLEDPVQTVRGAGYRF 225 >gnl|CDD|182755 PRK10816, PRK10816, DNA-binding transcriptional regulator PhoP; Provisional. Length = 223 Score = 131 bits (332), Expect = 1e-31 Identities = 75/222 (33%), Positives = 120/222 (54%), Gaps = 7/222 (3%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKF---YEFDAIILDLGLTDI 57 MR+L++ED+ L H +++ L+ V D ED E + + D I+DLGL D Sbjct: 1 MRVLVVEDNALLRHHLKVQLQDAGHQV---DAAEDAKEADYYLNEHLPDIAIVDLGLPDE 57 Query: 58 PGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVR 117 G ++R R +S P+ +L+ S +DKV L +GADDY++KPF+ EE++AR++A++R Sbjct: 58 DGLSLIRRWRSNDVSLPILVLTARESWQDKVEVLSAGADDYVTKPFHIEEVMARMQALMR 117 Query: 118 RSRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNH 177 R+ G A +I V+L + + + I LT EY ++E L ++K+ + Sbjct: 118 RNSGLASQVISLPPFQVDLSRRELSINDEVIKLTAFEYTIMETLIRNNGKVVSKDSLMLQ 177 Query: 178 LYDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGY 219 LY + E IDV + +LRKK+ I TV G+GY Sbjct: 178 LYPDAELRESHTIDVLMGRLRKKIQAQYPQ-EVITTVRGQGY 218 >gnl|CDD|182387 PRK10336, PRK10336, DNA-binding transcriptional regulator QseB; Provisional. Length = 219 Score = 129 bits (325), Expect = 7e-31 Identities = 76/223 (34%), Positives = 118/223 (52%), Gaps = 5/223 (2%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGF 60 MRILLIEDD + I+ L F+V G G E +DA+ILDL L + G Sbjct: 1 MRILLIEDDMLIGDGIKTGLSKMGFSVDWFTQGRQGKEALYSAPYDAVILDLTLPGMDGR 60 Query: 61 EVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSR 120 ++LR R PV IL+ ++ ++V GL+ GADDY+ KPF E+ AR+ A++RR+ Sbjct: 61 DILREWREKGQREPVLILTARDALAERVEGLRLGADDYLCKPFALIEVAARLEALMRRTN 120 Query: 121 GHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHLYD 180 G A + + G++ ++ + + G + L KE+ ++ELL L +++ LY Sbjct: 121 GQASNELRHGNVMLDPGKRIATLAGEPLTLKPKEFALLELLMRNAGRVLPRKLIEEKLYT 180 Query: 181 GRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVLRE 223 +E ++V + LR+KL G ++I TV G GY L E Sbjct: 181 WDEEVTSNAVEVHVHHLRRKL-----GSDFIRTVHGIGYTLGE 218 >gnl|CDD|183172 PRK11517, PRK11517, transcriptional regulatory protein YedW; Provisional. Length = 223 Score = 129 bits (325), Expect = 8e-31 Identities = 75/223 (33%), Positives = 127/223 (56%), Gaps = 5/223 (2%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNV-YVTDLGEDGIELCKFYEFDAIILDLGLTDIPG 59 M+ILLIED++ + L + + V+D G DG+ L ++ IILD+ L + G Sbjct: 1 MKILLIEDNQRTQEWVTQGLSEAGYVIDAVSD-GRDGLYLALKDDYALIILDIMLPGMDG 59 Query: 60 FEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRS 119 +++L+ LR AK TPV L+ S++D+VRGL SGA+DY+ KPF+ EL+AR+RA +R+ Sbjct: 60 WQILQTLRTAK-QTPVICLTARDSVDDRVRGLDSGANDYLVKPFSFSELLARVRAQLRQH 118 Query: 120 RGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHLY 179 +L ++G L ++ +++V I LT KE+Q++ LL+ R + + + + ++ Sbjct: 119 HALNSTLEISG-LRMDSVSQSVSRDNISITLTRKEFQLLWLLASRAGEIIPRTVIASEIW 177 Query: 180 DGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVLR 222 + + +DV I +LR K+ + K I T+ G GY Sbjct: 178 GINFDSDTNTVDVAIRRLRAKVDDPFPEK-LIATIRGMGYSFV 219 >gnl|CDD|182864 PRK10955, PRK10955, DNA-binding transcriptional regulator CpxR; Provisional. Length = 232 Score = 123 bits (311), Expect = 3e-29 Identities = 79/228 (34%), Positives = 122/228 (53%), Gaps = 10/228 (4%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 +ILL++DD+ L ++ +L+ E FNV V GE ++L D ++LD+ + G + Sbjct: 3 KILLVDDDRELTSLLKELLEMEGFNVIVAHDGEQALDLLD-DSIDLLLLDVMMPKKNGID 61 Query: 62 VLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSRG 121 L+ LR TPV +L+ S D+V GL+ GADDY+ KPFN ELVARIRAI+RRS Sbjct: 62 TLKELRQTH-QTPVIMLTARGSELDRVLGLELGADDYLPKPFNDRELVARIRAILRRSHW 120 Query: 122 HAQ--------SLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEM 173 Q + LS+N + G + LTG E+ ++ LL+ +++E Sbjct: 121 SEQQQNNDNGSPTLEVDALSLNPGRQEASFDGQTLELTGTEFTLLYLLAQHLGQVVSREH 180 Query: 174 FLNHLYDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVL 221 + R P + ID+ I LR+KL + G + +T+ GRGY++ Sbjct: 181 LSQEVLGKRLTPFDRAIDMHISNLRRKLPDRKDGHPWFKTLRGRGYLM 228 >gnl|CDD|181883 PRK09468, ompR, osmolarity response regulator; Provisional. Length = 239 Score = 120 bits (303), Expect = 4e-28 Identities = 70/230 (30%), Positives = 114/230 (49%), Gaps = 15/230 (6%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYE---FDAIILDLGLTDIP 58 +IL+++DD L +E L + F V + ++ + F ++LDL L Sbjct: 7 KILVVDDDMRLRALLERYLTEQGFQVRSA---ANAEQMDRLLTRESFHLMVLDLMLPGED 63 Query: 59 GFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRR 118 G + R LR TP+ +L+ D++ GL+ GADDY+ KPFN EL+ARIRA++RR Sbjct: 64 GLSICRRLRSQNNPTPIIMLTAKGEEVDRIVGLEIGADDYLPKPFNPRELLARIRAVLRR 123 Query: 119 -------SRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTK 171 + + +I G +NL + + + LT E+ +++ L L++ Sbjct: 124 QAPELPGAPSQEEEVIAFGKFKLNLGTRELFRGDEPMPLTTGEFAVLKALVSHPREPLSR 183 Query: 172 EMFLNHLYDGRD-EPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYV 220 + +N L GR+ + IDV I +LR+ + YI+TVWG GYV Sbjct: 184 DKLMN-LARGREYSAMERSIDVQISRLRRLIEEDPAHPRYIQTVWGLGYV 232 >gnl|CDD|182522 PRK10529, PRK10529, DNA-binding transcriptional activator KdpE; Provisional. Length = 225 Score = 111 bits (279), Expect = 2e-25 Identities = 69/219 (31%), Positives = 112/219 (51%), Gaps = 3/219 (1%) Query: 3 ILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEV 62 +L++ED++A+ + L+ + V+ + + G+ + D IILDLGL D G E Sbjct: 4 VLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATRKPDLIILDLGLPDGDGIEF 63 Query: 63 LRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRR-SRG 121 +R LR + PV +LS S DK+ L +GADDY+SKPF EL AR+R +RR S Sbjct: 64 IRDLRQWS-AIPVIVLSARSEESDKIAALDAGADDYLSKPFGIGELQARLRVALRRHSAT 122 Query: 122 HAQSLIVT-GDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHLYD 180 A +V D++V+L A+ + +HLT E++++ +L LT+ LN ++ Sbjct: 123 PAPDPLVKFSDVTVDLAARVIHRGEEEVHLTPIEFRLLAVLLNNAGKVLTQRQLLNQVWG 182 Query: 181 GRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGY 219 + +++ LR+KL + T G GY Sbjct: 183 PNAVEHSHYLRIYMGHLRQKLEQDPARPRHFITETGIGY 221 >gnl|CDD|182665 PRK10710, PRK10710, DNA-binding transcriptional regulator BaeR; Provisional. Length = 240 Score = 98.6 bits (246), Expect = 1e-21 Identities = 64/221 (28%), Positives = 113/221 (51%), Gaps = 5/221 (2%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 RIL++ED+ L + L++ ++ + G++ + + D I+LDL L G Sbjct: 12 RILIVEDEPKLGQLLIDYLQAASYATTLLSHGDEVLPYVRQTPPDLILLDLMLPGTDGLT 71 Query: 62 VLRALRVAKIS-TPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSR 120 + R +R + S P+ +++ D++ GL+ GADDYI KP++ E+VAR++ I+RR + Sbjct: 72 LCREIR--RFSDIPIVMVTAKIEEIDRLLGLEIGADDYICKPYSPREVVARVKTILRRCK 129 Query: 121 --GHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHL 178 Q L ++ +G + LT E+++++ LS ++E LNHL Sbjct: 130 PQRELQQQDAESPLIIDESRFQASWRGKMLDLTPAEFRLLKTLSHEPGKVFSREQLLNHL 189 Query: 179 YDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGY 219 YD + ID I LR+KL + +++I V+G GY Sbjct: 190 YDDYRVVTDRTIDSHIKNLRRKLESLDAEQSFIRAVYGVGY 230 >gnl|CDD|182277 PRK10161, PRK10161, transcriptional regulator PhoB; Provisional. Length = 229 Score = 98.3 bits (244), Expect = 1e-21 Identities = 65/221 (29%), Positives = 113/221 (51%), Gaps = 4/221 (1%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 RIL++ED+ + + +L+ F + + + D I+LD L G + Sbjct: 4 RILVVEDEAPIREMVCFVLEQNGFQPVEAEDYDSAVNQLNEPWPDLILLDWMLPGGSGIQ 63 Query: 62 VLRALRVAKIS--TPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRR- 118 ++ L+ ++ PV +L+ ED+VRGL++GADDYI+KPF+ +ELVARI+A++RR Sbjct: 64 FIKHLKRESMTRDIPVVMLTARGEEEDRVRGLETGADDYITKPFSPKELVARIKAVMRRI 123 Query: 119 SRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHL 178 S + +I LS++ + V + + E++++ ++E LNH+ Sbjct: 124 SPMAVEEVIEMQGLSLDPTSHRVMAGEEPLEMGPTEFKLLHFFMTHPERVYSREQLLNHV 183 Query: 179 YDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGY 219 + E + +DV I +LRK L G ++TV G GY Sbjct: 184 WGTNVYVEDRTVDVHIRRLRKALEP-GGHDRMVQTVRGTGY 223 >gnl|CDD|172377 PRK13856, PRK13856, two-component response regulator VirG; Provisional. Length = 241 Score = 87.6 bits (217), Expect = 3e-18 Identities = 69/226 (30%), Positives = 104/226 (46%), Gaps = 9/226 (3%) Query: 3 ILLIEDDKALAHSIELMLKSENFNVY-VTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 +L+I+DD A+ H I L F V V D + L D +++DL L G E Sbjct: 4 VLVIDDDVAMRHLIVEYLTIHAFKVTAVADSQQFNRVLAS-ETVDVVVVDLNLGREDGLE 62 Query: 62 VLRALRVAKISTPVCILSGMSSIE-DKVRGLQSGADDYISKPFNKEELVARIRAIVRR-- 118 ++R+L K P+ I+SG E DKV L+ GA D+I+KPF E +ARIR +R Sbjct: 63 IVRSL-ATKSDVPIIIISGDRLEEADKVVALELGATDFIAKPFGTREFLARIRVALRVRP 121 Query: 119 --SRGHAQSLIVTGDLSVNLDAKTV-EVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFL 175 R + D ++NL + + G + LT E+ ++ + L++E L Sbjct: 122 NVVRTKDRRSFCFADWTLNLRQRRLISEAGGEVKLTAGEFNLLVAFLEKPRDVLSREQLL 181 Query: 176 NHLYDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVL 221 +E + IDV I +LR+KL I+T G GY Sbjct: 182 IASRVREEEVYDRSIDVLILRLRRKLEQDPANPQLIKTARGAGYFF 227 >gnl|CDD|182711 PRK10766, PRK10766, DNA-binding transcriptional regulator TorR; Provisional. Length = 221 Score = 86.6 bits (215), Expect = 5e-18 Identities = 61/211 (28%), Positives = 102/211 (48%), Gaps = 12/211 (5%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 IL++ED+ ++ + E + V G E+ + D I+LD+ L G Sbjct: 4 HILVVEDEPVTRARLQGYFEQEGYTVSEAASGAGMREIMQNQHVDLILLDINLPGEDGLM 63 Query: 62 VLRALRVAKISTPVCIL-SGMSSIEDKVRGLQSGADDYISKPFNKEELVARIR------A 114 + R LR ST IL +G + D++ GL+ GADDY++KP EL+ R++ + Sbjct: 64 LTRELR--SRSTVGIILVTGRTDSIDRIVGLEMGADDYVTKPLELRELLVRVKNLLWRIS 121 Query: 115 IVRRSRGHAQ---SLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTK 171 + R+++ HAQ + +N+ +T+E G I LT EY+++ L++ Sbjct: 122 LARQAQPHAQEEDNCYRFAGYCLNVSRRTLERNGEPIKLTKAEYELLVAFVTNPGQVLSR 181 Query: 172 EMFLNHLYDGRDEPEVKIIDVFICKLRKKLS 202 E L L + P + IDV I +LR KL+ Sbjct: 182 ERLLRMLSHRVENPNDRTIDVLIRRLRHKLN 212 >gnl|CDD|163499 TIGR03787, marine_sort_RR, proteobacterial dedicated sortase system response regulator. This model describes a family of DNA-binding response regulator proteins, associated with an adjacent histidine kinase (TIGR03785) to form a two-component system. This system co-occurs with, and often is adjacent to, a proteobacterial variant form of the protein sorting transpeptidase called sortase (TIGR03784), and a single target protein for the sortase. We give this protein the gene symbol pdsR, for Proteobacterial Dedicated Sortase system Response regulator. Length = 227 Score = 85.2 bits (211), Expect = 2e-17 Identities = 63/229 (27%), Positives = 107/229 (46%), Gaps = 18/229 (7%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTD--IPG 59 RI ++ED+ A+ + LK + + V ++ + D I+D+GL + G Sbjct: 2 RIAIVEDEAAIRENYADALKRQGYQVTTYADRPSAMQAFRQRLPDLAIIDIGLGEEIDGG 61 Query: 60 FEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRS 119 F + + LR + P+ L+ S D V GL+ GADDY++K + L+ARI A+ RR+ Sbjct: 62 FMLCQDLRSLSATLPIIFLTARDSDFDTVSGLRLGADDYLTKDISLPHLLARITALFRRA 121 Query: 120 RGHAQ-----SLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMF 174 + LI G L+++ D TV Q I LT E+ M+ L+ +++ Sbjct: 122 EALQKPQKQDDLITRGPLTLDSDRMTVFWQDQPIDLTVTEFWMVHALAKHPGHVKSRQQL 181 Query: 175 LNHLYDGRDEPEVKIIDVFIC----KLRKKLSNAAGGKNYIETVWGRGY 219 + D ++ + D I ++RKK + I+TV+G GY Sbjct: 182 M-------DAAKIVVDDSTITSHIKRIRKKFQAVDDNFDCIQTVYGMGY 223 >gnl|CDD|181966 PRK09581, pleD, response regulator PleD; Reviewed. Length = 457 Score = 83.0 bits (206), Expect = 6e-17 Identities = 42/118 (35%), Positives = 72/118 (61%), Gaps = 2/118 (1%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 RIL+++D A +E L +E + V G + I +C+ + D I+LD+ + + GFE Sbjct: 4 RILVVDDIPANVKLLEAKLLAEYYTVLTASSGAEAIAICEREQPDIILLDVMMPGMDGFE 63 Query: 62 VLRALRVAKIST--PVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVR 117 V R L+ +T PV +++ + ED+VRGL++GADD+++KP N L AR++++ R Sbjct: 64 VCRRLKSDPATTHIPVVMVTALDDPEDRVRGLEAGADDFLTKPINDVALFARVKSLTR 121 Score = 62.2 bits (152), Expect = 1e-10 Identities = 38/122 (31%), Positives = 61/122 (50%), Gaps = 5/122 (4%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 RILL++DD + A I +LK E V V+D E + +D +I+ + Sbjct: 157 RILLVDDDVSQAERIANILKEEFRVVVVSDPSEALFNAAE-TNYDLVIVSANFENYDPLR 215 Query: 62 VLRALRVAKIST---PVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRR 118 + LR +K T P+ +L V+ L+ G +DY+ +P +K EL+AR+R +RR Sbjct: 216 LCSQLR-SKERTRYVPILLLVDEDDDPRLVKALELGVNDYLMRPIDKNELLARVRTQIRR 274 Query: 119 SR 120 R Sbjct: 275 KR 276 >gnl|CDD|129095 smart00862, Trans_reg_C, Transcriptional regulatory protein, C terminal. This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding. Length = 78 Score = 80.3 bits (199), Expect = 4e-16 Identities = 28/78 (35%), Positives = 42/78 (53%), Gaps = 1/78 (1%) Query: 145 GHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHLYDGR-DEPEVKIIDVFICKLRKKLSN 203 G I LT KE++++ELL +++E L ++ D+ + +DV I +LRKKL + Sbjct: 1 GEPIKLTPKEFRLLELLLRNPGRVVSREELLEAVWGDDDDDVDDNTLDVHISRLRKKLED 60 Query: 204 AAGGKNYIETVWGRGYVL 221 IETV G GY L Sbjct: 61 DGANPRLIETVRGVGYRL 78 >gnl|CDD|182660 PRK10701, PRK10701, DNA-binding transcriptional regulator RstA; Provisional. Length = 240 Score = 73.5 bits (181), Expect = 4e-14 Identities = 62/243 (25%), Positives = 112/243 (46%), Gaps = 21/243 (8%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 +I+ +EDD + I L + +V V G+ + D ++LD+ L G Sbjct: 3 KIVFVEDDAEVGSLIAAYLAKHDIDVTVEPRGDRAEATILREQPDLVLLDIMLPGKDGMT 62 Query: 62 VLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSRG 121 + R LR K P+ +L+ + S + + L+ GA DYI K L+AR+R +R++ Sbjct: 63 ICRDLR-PKWQGPIVLLTSLDSDMNHILALEMGACDYILKTTPPAVLLARLRLHLRQNEQ 121 Query: 122 HAQSLIVT------------GDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTL 169 Q+ + G L+++ + V + G I L+ ++ ++ L+ + Sbjct: 122 ATQTKGLQETSLTPYKALHFGTLTIDPVNRQVTLAGEEISLSTADFDLLWELATHAGQIM 181 Query: 170 TKEMFLNHL----YDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGYVLRENA 225 ++ L +L YDG D + +DV I +LRKKL + A I+TV +GY+ +A Sbjct: 182 DRDALLKNLRGVSYDGLD----RSVDVAISRLRKKLLDNAAEPYRIKTVRNKGYLFAPHA 237 Query: 226 KDE 228 + Sbjct: 238 WES 240 >gnl|CDD|183099 PRK11361, PRK11361, acetoacetate metabolism regulatory protein AtoC; Provisional. Length = 457 Score = 68.3 bits (167), Expect = 2e-12 Identities = 30/118 (25%), Positives = 62/118 (52%), Gaps = 4/118 (3%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 RIL+++D+ + + + F + + G + L D +++D+ + ++ G + Sbjct: 6 RILIVDDEDNVRRMLSTAFALQGFETHCANNGRTALHLFADIHPDVVLMDIRMPEMDGIK 65 Query: 62 VLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRS 119 L+ +R + TPV +++ + +E V L+ GA DY+ KPF+ +EL IV+R+ Sbjct: 66 ALKEMRSHETRTPVILMTAYAEVETAVEALRCGAFDYVIKPFDLDEL----NLIVQRA 119 >gnl|CDD|183013 PRK11173, PRK11173, two-component response regulator; Provisional. Length = 237 Score = 65.0 bits (159), Expect = 2e-11 Identities = 55/228 (24%), Positives = 110/228 (48%), Gaps = 12/228 (5%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 IL++ED+ ++++ + ++E ++V+ G + ++ + + +I+D+ L G Sbjct: 5 HILIVEDELVTRNTLKSIFEAEGYDVFEATDGAEMHQILSENDINLVIMDINLPGKNGLL 64 Query: 62 VLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSRG 121 + R LR + + + L+G + DK+ GL+ GADDYI+KPFN EL R R ++ R+ Sbjct: 65 LARELR-EQANVALMFLTGRDNEVDKILGLEIGADDYITKPFNPRELTIRARNLLSRTMN 123 Query: 122 HAQSLIVTGDL-SVNLDAKTVEVQGHR-IHLTGKEYQMIE-----LLSLRKN--TTLTKE 172 + S + +++ I G++Y++ +L +N ++ Sbjct: 124 LGTVSEERRSVESYKFNGWELDINSRSLISPDGEQYKLPRSEFRAMLHFCENPGKIQSRA 183 Query: 173 MFLNHLYDGRD-EPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRGY 219 L + GR+ +P + +DV I ++RK + I T+ G GY Sbjct: 184 ELLKKM-TGRELKPHDRTVDVTIRRIRKHFESTPDTPEIIATIHGEGY 230 >gnl|CDD|181815 PRK09390, fixJ, response regulator FixJ; Provisional. Length = 202 Score = 64.6 bits (158), Expect = 2e-11 Identities = 34/127 (26%), Positives = 64/127 (50%) Query: 6 IEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEVLRA 65 ++DD+A+ S+ +L S F V + + + ++ F ++ D+ + I G E+LR Sbjct: 9 VDDDEAMRDSLAFLLDSAGFEVRLFESAQAFLDALPGLRFGCVVTDVRMPGIDGIELLRR 68 Query: 66 LRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSRGHAQS 125 L+ PV +++G + V ++ GA D+I KPF E L+ I + ++ A+S Sbjct: 69 LKARGSPLPVIVMTGHGDVPLAVEAMKLGAVDFIEKPFEDERLIGAIERALAQAPEAAKS 128 Query: 126 LIVTGDL 132 V D+ Sbjct: 129 EAVAADI 135 >gnl|CDD|182412 PRK10365, PRK10365, transcriptional regulatory protein ZraR; Provisional. Length = 441 Score = 63.9 bits (155), Expect = 4e-11 Identities = 36/160 (22%), Positives = 77/160 (48%), Gaps = 14/160 (8%) Query: 3 ILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEV 62 IL+++DD + ++ +L+ +NV + + G +E + FD ++ D+ + ++ G Sbjct: 8 ILVVDDDISHCTILQALLRGWGYNVALANSGRQALEQVREQVFDLVLCDVRMAEMDGIAT 67 Query: 63 LRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSRGH 122 L+ ++ + PV I++ SS+E V L++GA DY+ KP + + ++A + ++ H Sbjct: 68 LKEIKALNPAIPVLIMTAYSSVETAVEALKTGALDYLIKPLDFD----NLQATLEKALAH 123 Query: 123 AQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLS 162 + + + + + GK M LLS Sbjct: 124 TH--SIDAETPAVTAS--------QFGMVGKSPAMQHLLS 153 >gnl|CDD|182619 PRK10651, PRK10651, transcriptional regulator NarL; Provisional. Length = 216 Score = 59.7 bits (145), Expect = 7e-10 Identities = 29/82 (35%), Positives = 44/82 (53%) Query: 33 GEDGIELCKFYEFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQ 92 GE GIEL + + D I+LDL + + G E L LR +S + + S + ED V L+ Sbjct: 41 GEQGIELAESLDPDLILLDLNMPGMNGLETLDKLREKSLSGRIVVFSVSNHEEDVVTALK 100 Query: 93 SGADDYISKPFNKEELVARIRA 114 GAD Y+ K E+L+ ++ Sbjct: 101 RGADGYLLKDMEPEDLLKALQQ 122 >gnl|CDD|185070 PRK15115, PRK15115, response regulator GlrR; Provisional. Length = 444 Score = 58.7 bits (142), Expect = 1e-09 Identities = 29/111 (26%), Positives = 58/111 (52%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 +LL++DD L + + L SE ++V + G++ + + + D +I DL + ++ G + Sbjct: 7 HLLLVDDDPGLLKLLGMRLTSEGYSVVTAESGQEALRVLNREKVDLVISDLRMDEMDGMQ 66 Query: 62 VLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARI 112 + ++ + PV IL+ SI D V Q G +++KP +++ L I Sbjct: 67 LFAEIQKVQPGMPVIILTAHGSIPDAVAATQQGVFSFLTKPVDRDALYKAI 117 >gnl|CDD|162545 TIGR01818, ntrC, nitrogen regulation protein NR(I). This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc. Length = 463 Score = 57.1 bits (138), Expect = 4e-09 Identities = 28/122 (22%), Positives = 57/122 (46%), Gaps = 4/122 (3%) Query: 3 ILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEV 62 + +++DD+++ +E L + V + + D +I D+ + G ++ Sbjct: 1 VWVVDDDRSIRWVLEKALSRAGYEVRTFGNAASVLRALARGQPDLLITDVRMPGEDGLDL 60 Query: 63 LRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRSRGH 122 L ++ PV +++ S ++ V Q GA +Y+ KPF+ +E V +V R+ H Sbjct: 61 LPQIKKRHPQLPVIVMTAHSDLDTAVAAYQRGAFEYLPKPFDLDEAV----TLVERALAH 116 Query: 123 AQ 124 AQ Sbjct: 117 AQ 118 >gnl|CDD|128724 smart00448, REC, cheY-homologous receiver domain. CheY regulates the clockwise rotation of E. coli flagellar motors. This domain contains a phosphoacceptor site that is phosphorylated by histidine kinase homologues. Length = 55 Score = 54.9 bits (133), Expect = 2e-08 Identities = 19/54 (35%), Positives = 33/54 (61%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGL 54 MRIL+++DD L ++ +L+ E + V GE+ +EL K + D I+LD+ + Sbjct: 1 MRILVVDDDPLLRELLKALLEREGYEVDEATDGEEALELLKEEKPDLILLDIMM 54 >gnl|CDD|131922 TIGR02875, spore_0_A, sporulation transcription factor Spo0A. Spo0A, the stage 0 sporulation protein A, is a transcription factor critical for the initiation of sporulation. It contains a response regulator receiver domain (pfam00072). In Bacillus subtilis, it works together with response regulator Spo0F and the phosphotransferase Spo0B, both of which are missing from at least some sporulating species and thus not part of the endospore forming bacteria minimal gene set. Spo0A, however, is universal among endospore-forming species. Length = 262 Score = 48.6 bits (116), Expect = 1e-06 Identities = 39/119 (32%), Positives = 62/119 (52%), Gaps = 8/119 (6%) Query: 1 MRILLIEDDKALAHSIE--LMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIP 58 +RI++ +D+K + ++ L + + V V G D +EL K + D ++LD+ + + Sbjct: 3 IRIVIADDNKEFCNLLKEYLAAQPDMEVVGVAHNGVDALELIKEQQPDVVVLDIIMPHLD 62 Query: 59 GFEVLRALRVAKISTP--VCILS--GMSSIEDKVRGLQSGADDYISKPFNKEELVARIR 113 G VL L ++S V +LS G I + L GAD Y+ KPF+ E L ARIR Sbjct: 63 GIGVLEKLNEIELSARPRVIMLSAFGQEKITQRAVAL--GADYYVLKPFDLEILAARIR 119 >gnl|CDD|182956 PRK11091, PRK11091, aerobic respiration control sensor protein ArcB; Provisional. Length = 779 Score = 48.4 bits (116), Expect = 2e-06 Identities = 37/123 (30%), Positives = 62/123 (50%), Gaps = 20/123 (16%) Query: 1 MRILLIEDDKALAHSIEL-------MLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLG 53 + ILL+ED IEL +L+ +V V G++ +E+ E+D ++LD+ Sbjct: 526 LNILLVED-------IELNVIVARSVLEKLGNSVDVAMTGKEALEMFDPDEYDLVLLDIQ 578 Query: 54 LTDIPGFEVLRALR----VAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELV 109 L D+ G ++ R LR + P+ L+ + ++DK L +G DD +SKP + L Sbjct: 579 LPDMTGLDIARELRERYPREDL-PPLVALTA-NVLKDKKEYLDAGMDDVLSKPLSVPALT 636 Query: 110 ARI 112 A I Sbjct: 637 AMI 639 >gnl|CDD|163083 TIGR02956, TMAO_torS, TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072). Length = 968 Score = 47.5 bits (113), Expect = 3e-06 Identities = 34/117 (29%), Positives = 55/117 (47%), Gaps = 3/117 (2%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFE 61 R+LL+ED++ + L V + + G+ +E + FD +LD+ L D G Sbjct: 704 RVLLVEDNEVNQMVAQGFLTRLGHKVTLAESGQSALECFHQHAFDLALLDINLPDGDGVT 763 Query: 62 VLRALRV---AKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAI 115 +L+ LR AK S ED + L +G D +++KP +E+L A I I Sbjct: 764 LLQQLRAIYGAKNEVKFIAFSAHVFNEDVAQYLAAGFDGFLAKPVVEEQLTAMIAVI 820 >gnl|CDD|170568 PRK10610, PRK10610, chemotaxis regulatory protein CheY; Provisional. Length = 129 Score = 46.9 bits (111), Expect = 4e-06 Identities = 29/121 (23%), Positives = 59/121 (48%), Gaps = 3/121 (2%) Query: 1 MRILLIEDDKALAHSIELMLKSENF-NVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPG 59 ++ L+++D + + +LK F NV + G D + + F +I D + ++ G Sbjct: 6 LKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGGFGFVISDWNMPNMDG 65 Query: 60 FEVLRALRV--AKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVR 117 E+L+ +R A + PV +++ + E+ + Q+GA Y+ KPF L ++ I Sbjct: 66 LELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLNKIFE 125 Query: 118 R 118 + Sbjct: 126 K 126 >gnl|CDD|182842 PRK10923, glnG, nitrogen regulation protein NR(I); Provisional. Length = 469 Score = 45.6 bits (108), Expect = 1e-05 Identities = 21/80 (26%), Positives = 40/80 (50%) Query: 46 DAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNK 105 D ++ D+ + + G +L+ ++ PV I++ S ++ V Q GA DY+ KPF+ Sbjct: 49 DVLLSDIRMPGMDGLALLKQIKQRHPMLPVIIMTAHSDLDAAVSAYQQGAFDYLPKPFDI 108 Query: 106 EELVARIRAIVRRSRGHAQS 125 +E VA + + + Q Sbjct: 109 DEAVALVERAISHYQEQQQP 128 >gnl|CDD|185245 PRK15347, PRK15347, two component system sensor kinase SsrA; Provisional. Length = 921 Score = 43.5 bits (103), Expect = 5e-05 Identities = 24/106 (22%), Positives = 52/106 (49%), Gaps = 4/106 (3%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGF 60 ++ILL++D + I +ML V G + +EL + + FD +++D+ + + G Sbjct: 691 LQILLVDDVETNRDIIGMMLVELGQQVTTAASGTEALELGRQHRFDLVLMDIRMPGLDGL 750 Query: 61 EVLRALR--VAKIST--PVCILSGMSSIEDKVRGLQSGADDYISKP 102 E + R + + L+ ++ E+ R ++G + Y++KP Sbjct: 751 ETTQLWRDDPNNLDPDCMIVALTANAAPEEIHRCKKAGMNHYLTKP 796 >gnl|CDD|182652 PRK10693, PRK10693, response regulator of RpoS; Provisional. Length = 303 Score = 43.4 bits (103), Expect = 5e-05 Identities = 23/75 (30%), Positives = 36/75 (48%) Query: 28 YVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIEDK 87 + G D +EL + D II DL + + G E + LR TPV ++S ++ D Sbjct: 1 VLAANGVDALELLGGFTPDLIICDLAMPRMNGIEFVEHLRNRGDQTPVLVISATENMADI 60 Query: 88 VRGLQSGADDYISKP 102 + L+ G D + KP Sbjct: 61 AKALRLGVQDVLLKP 75 >gnl|CDD|185267 PRK15369, PRK15369, two component system sensor kinase SsrB; Provisional. Length = 211 Score = 43.1 bits (102), Expect = 7e-05 Identities = 42/166 (25%), Positives = 78/166 (46%), Gaps = 13/166 (7%) Query: 2 RILLIEDDKALAHSIELMLKS-ENFN-VYVTDLGEDGIELCKFYEFDAIILDLGLTDIPG 59 +ILL++D + + + I+ ML + V D G + C+ E D +ILDLGL + G Sbjct: 5 KILLVDDHELIINGIKNMLAPYPRYKIVGQVDNGLEVYNACRQLEPDIVILDLGLPGMNG 64 Query: 60 FEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRAIVRRS 119 +V+ L + + +L+ R L +GA Y+ K ++ L+A I+ + + Sbjct: 65 LDVIPQLHQRWPAMNILVLTARQEEHMASRTLAAGALGYVLKKSPQQILLAAIQTV---A 121 Query: 120 RGHAQSLIVTGDLSVNLD---AKTVEVQGHRIHLTGKEYQMIELLS 162 G I D ++N + A + LT +E Q+++L++ Sbjct: 122 VGK--RYI---DPALNREAILALLNADDTNPPLLTPRERQILKLIT 162 >gnl|CDD|182169 PRK09959, PRK09959, hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional. Length = 1197 Score = 42.0 bits (98), Expect = 1e-04 Identities = 29/110 (26%), Positives = 50/110 (45%), Gaps = 9/110 (8%) Query: 4 LLIEDDKALAHSIELMLKSENFNV--YVTDLGEDGIEL---CKFYEFDAIILDLGLTDIP 58 +LI DD H +L N+ Y D DG++ +D +I D+ + ++ Sbjct: 961 ILIADD----HPTNRLLLKRQLNLLGYDVDEATDGVQALHKVSMQHYDLLITDVNMPNMD 1016 Query: 59 GFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEEL 108 GFE+ R LR S P+ L+ + ++ +GL G + + KP + L Sbjct: 1017 GFELTRKLREQNSSLPIWGLTANAQANEREKGLSCGMNLCLFKPLTLDVL 1066 >gnl|CDD|182431 PRK10403, PRK10403, transcriptional regulator NarP; Provisional. Length = 215 Score = 42.1 bits (99), Expect = 1e-04 Identities = 31/115 (26%), Positives = 57/115 (49%), Gaps = 2/115 (1%) Query: 2 RILLIEDDKALAHSIELMLKSE-NFNVYV-TDLGEDGIELCKFYEFDAIILDLGLTDIPG 59 ++L+++D + + +L+ + F V G I+L + D I+LDL + + G Sbjct: 8 QVLIVDDHPLMRRGVRQLLELDPGFEVVAEAGDGASAIDLANRLDPDVILLDLNMKGMSG 67 Query: 60 FEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRA 114 + L ALR ++ + IL+ + D + +GAD Y+ K + E L+ IRA Sbjct: 68 LDTLNALRRDGVTAQIIILTVSDASSDVFALIDAGADGYLLKDSDPEVLLEAIRA 122 >gnl|CDD|182154 PRK09935, PRK09935, transcriptional regulator FimZ; Provisional. Length = 210 Score = 41.0 bits (96), Expect = 2e-04 Identities = 26/101 (25%), Positives = 51/101 (50%), Gaps = 2/101 (1%) Query: 3 ILLIEDDKALAHSIELML-KSENFNVYV-TDLGEDGIELCKFYEFDAIILDLGLTDIPGF 60 +++++ + SIE++L K+ + + TD I+ + D II+D+ L GF Sbjct: 6 VIIMDTHPIIRMSIEVLLQKNSELQIVLKTDDYRITIDYLRTRPVDLIIMDIDLPGTDGF 65 Query: 61 EVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISK 101 L+ ++ + + V LS S R +Q+GA+ ++SK Sbjct: 66 TFLKRIKQIQSTVKVLFLSSKSECFYAGRAIQAGANGFVSK 106 >gnl|CDD|184495 PRK14084, PRK14084, two-component response regulator; Provisional. Length = 246 Score = 40.1 bits (94), Expect = 5e-04 Identities = 38/160 (23%), Positives = 76/160 (47%), Gaps = 11/160 (6%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGE---DGIELCKFYEFDAIILDLGLTDI 57 M+ L++ DD+ LA + L +E + E + +E ++D I LD+ L D Sbjct: 1 MKALIV-DDEPLARNELTYLLNEIGGFEEINEAENVKETLEALLINQYDIIFLDINLMDE 59 Query: 58 PGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNK---EELVARIRA 114 G E+ A ++ K+ P I+ + + V+ + A DYI KPF + E+ V ++RA Sbjct: 60 SGIEL--AAKIQKMKEPPAIIFATAHDQFAVKAFELNATDYILKPFEQKRIEQAVNKVRA 117 Query: 115 IVRRSRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKE 154 + +A ++ + + + +E+ +IH+ ++ Sbjct: 118 TKAKDDNNASAIANDMSANFD-QSLPIEID-DKIHMLNQQ 155 >gnl|CDD|179106 PRK00742, PRK00742, chemotaxis-specific methylesterase; Provisional. Length = 354 Score = 38.2 bits (90), Expect = 0.002 Identities = 30/101 (29%), Positives = 47/101 (46%), Gaps = 16/101 (15%) Query: 33 GEDGIELCKFYEFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIED--KV-- 88 G + E K D I LD+ + + G + L + + TPV ++S S E ++ Sbjct: 38 GLEAREKIKKLNPDVITLDVEMPVMDGLDALEKI-MRLRPTPVVMVS--SLTERGAEITL 94 Query: 89 RGLQSGADDYISKPF---------NKEELVARIRAIVRRSR 120 R L+ GA D+++KPF KEEL ++RA R Sbjct: 95 RALELGAVDFVTKPFLGISLGMDEYKEELAEKVRAAARARV 135 >gnl|CDD|182408 PRK10360, PRK10360, DNA-binding transcriptional activator UhpA; Provisional. Length = 196 Score = 36.5 bits (84), Expect = 0.006 Identities = 32/131 (24%), Positives = 59/131 (45%), Gaps = 31/131 (23%) Query: 36 GIELCKFYEFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIEDKV----RGL 91 G+++C I D+ + DI G E+L L P + + M S+ D + L Sbjct: 47 GVQVC--------ICDISMPDISGLELLSQL-------PKGMATIMLSVHDSPALVEQAL 91 Query: 92 QSGADDYISKPFNKEELVARIRAIVRRSRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLT 151 +GA ++SK + +EL+A + + +T D+++ L + G + LT Sbjct: 92 NAGARGFLSKRCSPDELIAAVHTVA------TGGCYLTPDIAIKLAS------GRQDPLT 139 Query: 152 GKEYQMIELLS 162 +E Q+ E L+ Sbjct: 140 KRERQVAEKLA 150 >gnl|CDD|181897 PRK09483, PRK09483, response regulator; Provisional. Length = 217 Score = 36.2 bits (84), Expect = 0.007 Identities = 26/92 (28%), Positives = 48/92 (52%), Gaps = 8/92 (8%) Query: 33 GEDGIELCKFYEFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIED----KV 88 GED ++ C+ D +++D+ + I G E R ++ + + V I+ E+ KV Sbjct: 36 GEDAVKWCRTNAVDVVLMDMNMPGIGGLEATR--KILRYTPDVKIIMLTVHTENPLPAKV 93 Query: 89 RGLQSGADDYISKPFNKEELVARIRAIVRRSR 120 +Q+GA Y+SK +E+V+ IR++ R Sbjct: 94 --MQAGAAGYLSKGAAPQEVVSAIRSVHSGQR 123 >gnl|CDD|182968 PRK11107, PRK11107, hybrid sensory histidine kinase BarA; Provisional. Length = 919 Score = 34.4 bits (80), Expect = 0.023 Identities = 25/104 (24%), Positives = 53/104 (50%), Gaps = 2/104 (1%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGF 60 + ++ ++D+ A I +L+ + +V + D G +E K FD I++D+ + + G Sbjct: 668 LTVMAVDDNPANLKLIGALLEEQVEHVVLCDSGHQAVEQAKQRPFDLILMDIQMPGMDGI 727 Query: 61 EVLRALRVAKI--STPVCILSGMSSIEDKVRGLQSGADDYISKP 102 +R +TP+ ++ + ++ R L +G DDY++KP Sbjct: 728 RACELIRQLPHNQNTPIIAVTAHAMAGERERLLSAGMDDYLAKP 771 Score = 29.0 bits (66), Expect = 1.1 Identities = 28/113 (24%), Positives = 45/113 (39%), Gaps = 12/113 (10%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNV-YVTDLGEDGIELCKFYEFDAIILDLGLTDIPG 59 R+L +E + A A + +L V Y L + +D ++L L +T Sbjct: 537 KRLLYVEPNSAAAQATLDILSETPLEVTYSPTLSQLPEA-----HYDILLLGLPVTFREP 591 Query: 60 FEVLRA-LRVAKISTPVCIL---SGMSSIEDKVRGLQSGADDYISKPFNKEEL 108 +L L AK T IL + +++ Q GAD +SKP + L Sbjct: 592 LTMLHERLAKAKSMTDFLILALPCHEQVLAEQL--KQDGADACLSKPLSHTRL 642 >gnl|CDD|182168 PRK09958, PRK09958, DNA-binding transcriptional activator EvgA; Provisional. Length = 204 Score = 34.1 bits (78), Expect = 0.029 Identities = 26/112 (23%), Positives = 51/112 (45%), Gaps = 2/112 (1%) Query: 5 LIEDDKALAH-SIELMLKSENFNVYVT-DLGEDGIELCKFYEFDAIILDLGLTDIPGFEV 62 +I DD LA +I +L + + G ++ + + D +I+D+ + + G +V Sbjct: 4 IIIDDHPLAIAAIRNLLIKNDIEILAELTEGGSAVQRVETLKPDIVIIDVDIPGVNGIQV 63 Query: 63 LRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEELVARIRA 114 L LR + S + I+S + +GA+ ++SK ++A I A Sbjct: 64 LETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFVSKKEGMNNIIAAIEA 115 >gnl|CDD|182772 PRK10841, PRK10841, hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional. Length = 924 Score = 33.4 bits (77), Expect = 0.057 Identities = 31/128 (24%), Positives = 59/128 (46%), Gaps = 13/128 (10%) Query: 1 MRILLIEDDKALAHSIELML-----KSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLT 55 M IL+++D H I L S + + G D + + D ++ D+ + Sbjct: 802 MMILVVDD-----HPINRRLLADQLGSLGYQCKTANDGVDALNVLSKNHIDIVLTDVNMP 856 Query: 56 DIPGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEEL---VARI 112 ++ G+ + + LR ++ PV ++ + E+K R L++G D +SKP + L + Sbjct: 857 NMDGYRLTQRLRQLGLTLPVIGVTANALAEEKQRCLEAGMDSCLSKPVTLDVLKQTLTVY 916 Query: 113 RAIVRRSR 120 VR+SR Sbjct: 917 AERVRKSR 924 >gnl|CDD|182454 PRK10430, PRK10430, DNA-binding transcriptional activator DcuR; Provisional. Length = 239 Score = 33.2 bits (76), Expect = 0.061 Identities = 17/60 (28%), Positives = 27/60 (45%) Query: 44 EFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPF 103 D I+LD+ + G ++L L A + V ++S + L G DY+ KPF Sbjct: 49 PIDLILLDIYMQQENGLDLLPVLHEAGCKSDVIVISSAADAATIKDSLHYGVVDYLIKPF 108 >gnl|CDD|138914 PRK12370, PRK12370, invasion protein regulator; Provisional. Length = 553 Score = 32.9 bits (75), Expect = 0.069 Identities = 23/92 (25%), Positives = 45/92 (48%), Gaps = 3/92 (3%) Query: 128 VTGDLSVNLDAKTVEVQGHRIHLTGKEYQMIELLSLRKNTTLTKEMFLNHLYDGRDEPEV 187 V D +N+D + ++++ KEY ++ +L ++K L+ ++ + E Sbjct: 15 VFDDFILNMDGSLLR-SEKKVNIPPKEYAVLVILLEAAGEIVSKNTLLDQVWGDAEVNEE 73 Query: 188 KIIDVFICKLRKKLSNAAGGKNYIETVWGRGY 219 + I LR+ LS + YIET++G+GY Sbjct: 74 SLTRC-IYALRRILSEDKEHR-YIETLYGQGY 103 >gnl|CDD|182208 PRK10046, dpiA, two-component response regulator DpiA; Provisional. Length = 225 Score = 32.3 bits (73), Expect = 0.11 Identities = 20/73 (27%), Positives = 29/73 (39%) Query: 48 IILDLGLTDIPGFEVLRALRVAKISTPVCILSGMSSIEDKVRGLQSGADDYISKPFNKEE 107 I+LD L D G +L L A V + S +E ++ G DY+ KP E Sbjct: 54 ILLDNYLPDGRGINLLHELVQAHYPGDVVFTTAASDMETVSEAVRCGVFDYLIKPIAYER 113 Query: 108 LVARIRAIVRRSR 120 L + +R Sbjct: 114 LGQTLTRFRQRKH 126 >gnl|CDD|178599 PLN03029, PLN03029, type-a response regulator protein; Provisional. Length = 222 Score = 29.6 bits (66), Expect = 0.70 Identities = 26/122 (21%), Positives = 52/122 (42%), Gaps = 22/122 (18%) Query: 3 ILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDA--------------- 47 +L ++D IE +LK+ ++ V D G ++ +E D Sbjct: 11 VLAVDDSLIDRKLIEKLLKTSSYQVTTVDSGSKALKFLGLHEDDRSNPDTPSVSPNSHQE 70 Query: 48 -----IILDLGLTDIPGFEVLRALRVAKI--STPVCILSGMSSIEDKVRGLQSGADDYIS 100 II D + + G+++L+ ++ + + PV I+S + R L+ GA+++ Sbjct: 71 VEVNLIITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRITRCLEEGAEEFFL 130 Query: 101 KP 102 KP Sbjct: 131 KP 132 >gnl|CDD|177999 PLN02371, PLN02371, phosphoglucosamine mutase family protein. Length = 583 Score = 28.9 bits (65), Expect = 1.2 Identities = 37/128 (28%), Positives = 53/128 (41%), Gaps = 20/128 (15%) Query: 93 SGADDYISKPFNKEELVARIRAIVRRSRGHAQSLIVTGDLSVNLDAKT--VEVQGHRIHL 150 S D + N+ L+A + AIV H + IVT SV D T +E +G + H Sbjct: 340 SAVVDSSGREINRNRLIALMSAIVLEE--HPGTTIVTD--SVTSDGLTTFIEKKGGKHHR 395 Query: 151 TGKEY-----QMIELLSLRKNTTLTKE------MFLNHLYDGRDEPEVKIIDVFICKLRK 199 + Y + + L S + T L E + NH D VKII I +R Sbjct: 396 FKRGYKNVIDKGVRLNSDGEETHLMIETSGHGALKENHFLDDGAYLAVKII---IELVRM 452 Query: 200 KLSNAAGG 207 + + A GG Sbjct: 453 RAAGAGGG 460 >gnl|CDD|181239 PRK08125, PRK08125, bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase; Validated. Length = 660 Score = 27.6 bits (62), Expect = 2.7 Identities = 10/25 (40%), Positives = 15/25 (60%) Query: 14 HSIELMLKSENFNVYVTDLGEDGIE 38 H E +L+ +N+ VY D+G D I Sbjct: 330 HLTERLLRDDNYEVYGLDIGSDAIS 354 >gnl|CDD|184141 PRK13557, PRK13557, histidine kinase; Provisional. Length = 540 Score = 27.7 bits (62), Expect = 2.7 Identities = 33/128 (25%), Positives = 58/128 (45%), Gaps = 24/128 (18%) Query: 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDI--PG 59 IL+++D +A ++L+ + V G + +E+ +DL TD+ PG Sbjct: 417 TILIVDDRPDVAELARMILEDFGYRTLVASNGREALEILD----SHPEVDLLFTDLIMPG 472 Query: 60 --------FEVLRALRVAKISTPVCILSGM--SSIEDKVRGLQSGAD-DYISKPFNKEEL 108 E R R KI V + +G +SIE R G++ D ++KP+ + EL Sbjct: 473 GMNGVMLAREARR--RQPKIK--VLLTTGYAEASIE---RTDAGGSEFDILNKPYRRAEL 525 Query: 109 VARIRAIV 116 R+R ++ Sbjct: 526 ARRVRMVL 533 >gnl|CDD|180904 PRK07239, PRK07239, bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated. Length = 381 Score = 27.3 bits (61), Expect = 3.5 Identities = 30/124 (24%), Positives = 49/124 (39%), Gaps = 24/124 (19%) Query: 108 LVARIRAIVRR-SRGHAQSLIVTGDLSVNLDAKTVEVQGHRIHLTGKEYQM-------IE 159 L A R I A++L G +E++GH + + G+ + + Sbjct: 265 LGALARHITEELPLRRARTLRAAG--------HVLEIRGHAVVVDGEVKPLSPAPMALLR 316 Query: 160 LLSLRKNTTLTKEMFLNHL-YDGRDEPEVKIIDVFICKLRKKLSNAAGGKNYIETVWGRG 218 L+ R +++E L L G DE V + + +LR L G ++TV RG Sbjct: 317 ALAARPGRVVSREDLLAALPGGGTDEHAV---ETAVARLRTAL----GDPKLVQTVVKRG 369 Query: 219 YVLR 222 Y L Sbjct: 370 YRLA 373 >gnl|CDD|182646 PRK10683, PRK10683, putrescine transporter subunit: membrane component of ABC superfamily; Provisional. Length = 317 Score = 27.4 bits (61), Expect = 3.6 Identities = 18/39 (46%), Positives = 24/39 (61%), Gaps = 6/39 (15%) Query: 48 IILDLG----LTDIPGF--EVLRALRVAKISTPVCILSG 80 I L+LG LTD P + L++L+VA IST C+L G Sbjct: 79 ITLNLGNFLQLTDDPLYFDAYLQSLQVAAISTLCCLLIG 117 >gnl|CDD|149141 pfam07902, Gp58, gp58-like protein. Sequences found in this family are derived from a number of bacteriophage and prophage proteins. They are similar to gp58, a minor structural protein of Lactococcus delbrueckii bacteriophage LL-H. Length = 601 Score = 27.2 bits (60), Expect = 3.9 Identities = 23/95 (24%), Positives = 40/95 (42%), Gaps = 21/95 (22%) Query: 82 SSIEDKVRGLQ---SGADDYISKPFNK-----EELVAR--IRAIVRRS---------RGH 122 SS+ V GLQ SG + I F + ++ V R + +I+ +S Sbjct: 292 SSLTQTVAGLQSTVSGPNSKIQSRFTQLAGLIDQKVTRGGVESIISQSGDSIMLAIKAKL 351 Query: 123 AQSLIVTGDL--SVNLDAKTVEVQGHRIHLTGKEY 155 QS + ++ ++NL+ V++ G I L G Sbjct: 352 PQSKMSASEIISAINLNRYGVKISGKNIALDGNTT 386 >gnl|CDD|162015 TIGR00735, hisF, imidazoleglycerol phosphate synthase, cyclase subunit. Length = 254 Score = 26.2 bits (58), Expect = 7.4 Identities = 12/31 (38%), Positives = 19/31 (61%), Gaps = 1/31 (3%) Query: 67 RVA-KISTPVCILSGMSSIEDKVRGLQSGAD 96 R A + P+ + G+ SIED + L++GAD Sbjct: 68 RTAETVFIPLTVGGGIKSIEDVDKLLRAGAD 98 >gnl|CDD|131814 TIGR02767, TraG-Ti, Ti-type conjugative transfer system protien TraG. This protein is found in the Agrobacterium tumefaciens Ti plasmid tra region responsible for conjugative transfer of the entire plasmid among Agrobacterium strains. The protein is distantly related to the F-type conjugation system TraG protein. Both of these systems are examples of type IV secretion systems. Length = 623 Score = 26.0 bits (57), Expect = 8.2 Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 4/52 (7%) Query: 1 MRILLIEDDKALAHSIELMLKSENFNVYVTDLGEDG----IELCKFYEFDAI 48 MRIL D+ + I LML ++ G DG E C F + AI Sbjct: 480 MRILEEARDRGRKYGISLMLIYQSLGQLREHFGRDGASSWFESCSFISYAAI 531 >gnl|CDD|179553 PRK03202, PRK03202, 6-phosphofructokinase; Provisional. Length = 320 Score = 26.2 bits (59), Expect = 8.6 Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 4/41 (9%) Query: 90 GLQSGADDYI--SKPFNKEELVARIRAIVRRSRGHAQSLIV 128 G+ GA+ + PF+ EEL A+I+ R RG ++IV Sbjct: 181 GIAGGAEVILIPEVPFDIEELCAKIKK--GRERGKKHAIIV 219 >gnl|CDD|179939 PRK05111, PRK05111, acetylornithine deacetylase; Provisional. Length = 383 Score = 25.9 bits (58), Expect = 8.8 Identities = 12/32 (37%), Positives = 17/32 (53%), Gaps = 5/32 (15%) Query: 52 LGLTDIPGF-----EVLRALRVAKISTPVCIL 78 LG D+ GF E LR + + K+ P+ IL Sbjct: 107 LGTADMKGFFAFILEALRDIDLTKLKKPLYIL 138 >gnl|CDD|161761 TIGR00200, cinA_nterm, competence/damage-inducible protein CinA N-terminal domain. cinA is a DNA damage- or competence-inducible protein that is polycistronic with recA in a number of species. Length = 413 Score = 26.0 bits (57), Expect = 8.9 Identities = 11/32 (34%), Positives = 15/32 (46%) Query: 111 RIRAIVRRSRGHAQSLIVTGDLSVNLDAKTVE 142 R++ I+R + A LI G L D T E Sbjct: 48 RLKTIIRIASERADVLIFNGGLGPTSDDLTAE 79 Database: CddB Posted date: Feb 4, 2011 9:54 PM Number of letters in database: 5,994,473 Number of sequences in database: 21,608 Lambda K H 0.320 0.138 0.391 Gapped Lambda K H 0.267 0.0664 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 21608 Number of Hits to DB: 3,832,395 Number of extensions: 243790 Number of successful extensions: 605 Number of sequences better than 10.0: 1 Number of HSP's gapped: 560 Number of HSP's successfully gapped: 81 Length of query: 236 Length of database: 5,994,473 Length adjustment: 90 Effective length of query: 146 Effective length of database: 4,049,753 Effective search space: 591263938 Effective search space used: 591263938 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.4 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.8 bits) S2: 56 (25.5 bits)