|
Name |
Accession |
Description |
Interval |
E-value |
| PRK15429 |
PRK15429 |
formate hydrogenlyase transcriptional activator FlhA; |
4-687 |
0e+00 |
|
formate hydrogenlyase transcriptional activator FlhA;
Pssm-ID: 237965 [Multi-domain] Cd Length: 686 Bit Score: 1389.17 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 4 TPMSDLGQQGLFDITRLLLQQPDLAALSETLTRLVQQSALADEAAIILWNAGNHRAARYACDEAGQPVSYEDETVLAHGP 83
Cdd:PRK15429 1 TPMSDLGQQGLFDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQTQRASYYASREKGTPVKYEDETVLAHGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 84 VRRLLSRPDALHCDHETFADTWPQLIRSGIYRPFGYYSLLPLAADGRIFGGCEFLRRDNRPWSEKEFQRLHTFAQIVAVV 163
Cdd:PRK15429 81 VRRILSRPDTLHCSYEEFCETWPQLAAGGLYPKFGHYCLMPLAAEGHIFGGCEFIRYDDRPWSEKEFNRLQTFTQIVSVV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 164 TEQIQNRVSNNVDYDLLCHERDNFRILVAITNAVLSRLDIDELVSEVAKEIHRYFRIDAISVVLRSNRKGKLNIYSTHYL 243
Cdd:PRK15429 161 TEQIQSRVVNNVDYELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRKNKLNIYSTHYL 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 244 DASHPVHDQSEVDEAGTLTERVFKSKEMLLLNLHEHDTLAPYEKMLFEMWGNKIQTLCLLPLMSGNTLLGVLKLAQCDEQ 323
Cdd:PRK15429 241 DKQHPAHEQSEVDEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEK 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 324 VFTTTNLKLLRQIAERVSIAIDNALAYREIQRLKERLVDENLALTEQLNNVESEFGEIIGRSEAMNNVLKQVEMVAHSDS 403
Cdd:PRK15429 321 VFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDS 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 404 TVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVG 483
Cdd:PRK15429 401 TVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVG 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 484 DMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLV 563
Cdd:PRK15429 481 DMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLV 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 564 KAFTFKIARRMGRNIDSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNVLQLSLPERDIVEPPRSP--EVLPEEGE 641
Cdd:PRK15429 561 KAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVLQLSLPDITLPEPETPPaaTVVAQEGE 640
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 490310932 642 DEYQLIVRVLKESNGVVAGPKGAAQRLGLKRTTLLSRMKRLGINKD 687
Cdd:PRK15429 641 DEYQLIVRVLKETNGVVAGPKGAAQRLGLKRTTLLSRMKRLGIDKS 686
|
|
| RocR |
COG3829 |
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ... |
305-685 |
1.21e-161 |
|
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];
Pssm-ID: 443041 [Multi-domain] Cd Length: 448 Bit Score: 472.72 E-value: 1.21e-161
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 305 LMSGNTLLGVLKLAQCDEQVFTTTNLKLLRQIAERVSIAIDNALAY--------REIQRLKERLVDENLaltEQLNNVES 376
Cdd:COG3829 59 LIPNSPLLEVLKTGKPVTGVIQKTGGKGKTVIVTAIPIFEDGEVIGavetfrdiTELKRLERKLREEEL---ERGLSAKY 135
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 377 EFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERG 456
Cdd:COG3829 136 TFDDIIGKSPAMKELLELAKRVAKSDSTVLILGESGTGKELFARAIHNASPRRDGPFVAVNCAAIPENLLESELFGYEKG 215
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 457 AFTGASAQ-RIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFR 535
Cdd:COG3829 216 AFTGAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGTKPIPVDVRIIAATNRDLEEMVEEGRFR 295
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 536 SDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGN 615
Cdd:COG3829 296 EDLYYRLNVIPIHIPPLRERKEDIPLLAEHFLEKFNKKYGKNIKGISPEALELLLAYDWPGNVRELENVIERAVVLSEGD 375
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 490310932 616 VLQLS-----LPERDIVEPPRSPEVLPEEGED-EYQLIVRVLKESNGVVAgpkGAAQRLGLKRTTLLSRMKRLGIN 685
Cdd:COG3829 376 VITPEhlpeyLLEEAEAASAAEEGSLKEALEEvEKELIEEALEKTGGNKS---KAAKALGISRSTLYRKLKKYGIK 448
|
|
| AtoC |
COG2204 |
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
338-683 |
7.78e-136 |
|
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, and a Fis-type DNA-binding domains [Signal transduction mechanisms];
Pssm-ID: 441806 [Multi-domain] Cd Length: 418 Bit Score: 405.50 E-value: 7.78e-136
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 338 ERVSIAIDNALAYREIQRLKERLvdenlalteqlnnvesefGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKEL 417
Cdd:COG2204 108 EELLAAVERALERRRLRRENAED------------------SGLIGRSPAMQEVRRLIEKVAPSDATVLITGESGTGKEL 169
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 418 IARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVL 497
Cdd:COG2204 170 VARAIHRLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLALQAKLLRVL 249
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 498 QEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRN 577
Cdd:COG2204 250 QEREFERVGGNKPIPVDVRVIAATNRDLEELVEEGRFREDLYYRLNVFPIELPPLRERREDIPLLARHFLARFAAELGKP 329
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 578 IdSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNVLQlslperdivepprsPEVLPEEGED-EYQLIVRVLKESNG 656
Cdd:COG2204 330 V-KLSPEALEALLAYDWPGNVRELENVIERAVILADGEVIT--------------AEDLPEALEEvERELIERALEETGG 394
|
330 340
....*....|....*....|....*..
gi 490310932 657 VVagpKGAAQRLGLKRTTLLSRMKRLG 683
Cdd:COG2204 395 NV---SRAAELLGISRRTLYRKLKKYG 418
|
|
| PRK05022 |
PRK05022 |
nitric oxide reductase transcriptional regulator NorR; |
301-684 |
5.98e-128 |
|
nitric oxide reductase transcriptional regulator NorR;
Pssm-ID: 235331 [Multi-domain] Cd Length: 509 Bit Score: 388.38 E-value: 5.98e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 301 CL-LPLMSGNTLLGVLKLAQCDEQVFTTTNLKLLRQIAERVSIAIDNALayrEIQRLkERLVDENLALTEQLNNVESEFG 379
Cdd:PRK05022 112 CMgLPLFVDGRLIGALTLDALDPGQFDAFSDEELRALAALAAATLRNAL---LIEQL-ESQAELPQDVAEFLRQEALKEG 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 380 EIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFT 459
Cdd:PRK05022 188 EMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFGHVKGAFT 267
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 460 GASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLY 539
Cdd:PRK05022 268 GAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGRFRADLY 347
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 540 YRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMG-RNIdSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGN--- 615
Cdd:PRK05022 348 HRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGlRSL-RLSPAAQAALLAYDWPGNVRELEHVISRAALLARARgag 426
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 616 ---VLQ---LSLPERDIVEPPRSPEVLPEEGE-------DEYQ--LIVRVLKESNGVVAgpkGAAQRLGLKRTTLLSRMK 680
Cdd:PRK05022 427 rivTLEaqhLDLPAEVALPPPEAAAAPAAVVSqnlreatEAFQrqLIRQALAQHQGNWA---AAARALELDRANLHRLAK 503
|
....
gi 490310932 681 RLGI 684
Cdd:PRK05022 504 RLGL 507
|
|
| AcoR |
COG3284 |
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription]; |
378-683 |
2.72e-114 |
|
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
Pssm-ID: 442514 [Multi-domain] Cd Length: 625 Bit Score: 356.90 E-value: 2.72e-114
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 378 FGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGA 457
Cdd:COG3284 320 LAALAGGDPAMRRALRRARRLADRDIPVLILGETGTGKELFARAIHAASPRADGPFVAVNCAAIPEELIESELFGYEPGA 399
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 458 FTGASAQ-RIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRS 536
Cdd:COG3284 400 FTGARRKgRPGKIEQADGGTLFLDEIGDMPLALQARLLRVLQEREVTPLGGTKPIPVDVRLIAATHRDLRELVAAGRFRE 479
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 537 DLYYRLNVFPIHLPPLRERpDDIPLLVKAFTFKIARRMGRNidSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNV 616
Cdd:COG3284 480 DLYYRLNGLTLTLPPLRER-EDLPALIEHLLRELAAGRGPL--RLSPEALALLAAYPWPGNVRELRNVLRTALALADGGV 556
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 490310932 617 LQLS-LPErDIVEPPRSPEVLPEEG-----EDEYQLIVRVLKESNGVVAgpkGAAQRLGLKRTTLLSRMKRLG 683
Cdd:COG3284 557 ITVEdLPD-ELRAELAAAAPAAAAPltsleEAERDAILRALRACGGNVS---AAARALGISRSTLYRKLKRYG 625
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
304-617 |
2.00e-112 |
|
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms. [Central intermediary metabolism, Nitrogen fixation, Regulatory functions, DNA interactions]
Pssm-ID: 273817 [Multi-domain] Cd Length: 534 Bit Score: 349.40 E-value: 2.00e-112
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 304 PLMSGNTLLGVLKL-------AQCDEQV-FTTTNLKLLRQ-IAERVSIAIDNALAYREIQRLKERLVDENLALTEQLNNV 374
Cdd:TIGR01817 115 PIKADSETIGVLAAdrdfrsrERLEEEVrFLEMVANLIGQtVRLHRLVAQRRERLIAEAVQLSKQLRDKAPEIARRRSGK 194
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 375 ESEfgeIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHE 454
Cdd:TIGR01817 195 EDG---IIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELFGHE 271
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 455 RGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREF 534
Cdd:TIGR01817 272 KGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVAKGEF 351
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 535 RSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIdSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRG 614
Cdd:TIGR01817 352 RADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPL-TITPSAIRVLMSCKWPGNVRELENCLERTATLSRS 430
|
...
gi 490310932 615 NVL 617
Cdd:TIGR01817 431 GTI 433
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
381-548 |
5.96e-105 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 316.27 E-value: 5.96e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 381 IIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:pfam00158 1 IIGESPAMQEVLEQAKRVAPTDAPVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 461 ASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYY 540
Cdd:pfam00158 81 ADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLYY 160
|
....*...
gi 490310932 541 RLNVFPIH 548
Cdd:pfam00158 161 RLNVIPIE 168
|
|
| PEP_resp_reg |
TIGR02915 |
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ... |
337-684 |
4.30e-100 |
|
PEP-CTERM-box response regulator transcription factor; Members of this protein family share full-length homology with (but do not include) the acetoacetate metabolism regulatory protein AtoC (see SP|Q06065). These proteins have a Fis family DNA binding sequence (pfam02954), a response regulator receiver domain (pfam00072), and sigma-54 interaction domain (pfam00158). [Regulatory functions, DNA interactions]
Pssm-ID: 274348 [Multi-domain] Cd Length: 445 Bit Score: 314.38 E-value: 4.30e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 337 AERVSIAIDNALAYREIQRlkerlvdENLALTEQLNNveSEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKE 416
Cdd:TIGR02915 106 PDVLKLIVDRAFHLYTLET-------ENRRLQSALGG--TALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKE 176
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 417 LIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRV 496
Cdd:TIGR02915 177 VLARALHQLSDRKDKRFVAINCAAIPENLLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRF 256
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 497 LQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGR 576
Cdd:TIGR02915 257 LQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGTFREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKR 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 577 NIDSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNVLQ---LSLPERDIVEPPRSPEVLPEEGEDEYQLIVRVLKE 653
Cdd:TIGR02915 337 KTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMAEGNQITaedLGLDARERAETPLEVNLREVRERAEREAVRKAIAR 416
|
330 340 350
....*....|....*....|....*....|.
gi 490310932 654 SNGVVAgpkGAAQRLGLKRTTLLSRMKRLGI 684
Cdd:TIGR02915 417 VDGNIA---RAAELLGITRPTLYDLMKKHGI 444
|
|
| PRK11361 |
PRK11361 |
acetoacetate metabolism transcriptional regulator AtoC; |
338-685 |
1.19e-99 |
|
acetoacetate metabolism transcriptional regulator AtoC;
Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 313.32 E-value: 1.19e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 338 ERVSIAIDNALayrEIQRLKERLVDENLALTEQLnnvesEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKEL 417
Cdd:PRK11361 110 DELNLIVQRAL---QLQSMKKEIRHLHQALSTSW-----QWGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKEL 181
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 418 IARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVL 497
Cdd:PRK11361 182 IARAIHYNSRRAKGPFIKVNCAALPESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRIL 261
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 498 QEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRN 577
Cdd:PRK11361 262 QEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFREDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRD 341
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 578 IDSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNVL-------QLSLPERDIVEPPRSPEV---LPEEGEDEYQLI 647
Cdd:PRK11361 342 IIDIDPMAMSLLTAWSWPGNIRELSNVIERAVVMNSGPIIfsedlppQIRQPVCNAGEVKTAPVGernLKEEIKRVEKRI 421
|
330 340 350
....*....|....*....|....*....|....*...
gi 490310932 648 VRVLKESNGvvAGPKGAAQRLGLKRTTLLSRMKRLGIN 685
Cdd:PRK11361 422 IMEVLEQQE--GNRTRTALMLGISRRALMYKLQEYGID 457
|
|
| RNA_repair_RtcR |
NF038308 |
RNA repair transcriptional activator RtcR; |
369-675 |
3.65e-97 |
|
RNA repair transcriptional activator RtcR;
Pssm-ID: 468466 [Multi-domain] Cd Length: 527 Bit Score: 309.11 E-value: 3.65e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 369 EQLNNVESEFGEIIGRSEAMNNVLKQVEMVA-HSDSTVLILGETGTGKELIARAIHNLSGRN---SRRMVKMNCAAMPAG 444
Cdd:NF038308 169 EQAEAVSFLKSGIATRNAAFNRLIEQIERVAlRSRAPILLTGPTGAGKSFLARRIYELKKRRhqvSGPFVEVNCATLRGD 248
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 445 LLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRD 524
Cdd:NF038308 249 LAMSELFGHVKGAFTGAQADRAGLLRAADGGTLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRD 328
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 525 LKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDS-----IPAETLRTLTRMEWPGNVR 599
Cdd:NF038308 329 LRQEVAEGRFREDLYARINLWTFRLPGLRERREDIEPNLDYELDRFARELGRQVRFnkearFRYLAFATSPEALWPGNFR 408
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 600 ELENVIERAVLLTRGNVLQLSLPERDI-------------VEPPRSPEVLPEEGE------DEYQL--IVRVLKESNGVV 658
Cdd:NF038308 409 ELSASVTRMATLADGGRITEELVEEEIarlraawqsapaaADDDALADLLGGEQLaeldlfDRVQLaaVLRVCRQSRSLS 488
|
330
....*....|....*..
gi 490310932 659 AgpkGAAQRLGLKRTTL 675
Cdd:NF038308 489 A---AGRRLFGVSRQQK 502
|
|
| FhlA |
COG3604 |
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ... |
288-685 |
2.77e-96 |
|
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis domains [Transcription, Signal transduction mechanisms];
Pssm-ID: 442823 [Multi-domain] Cd Length: 338 Bit Score: 300.61 E-value: 2.77e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 288 MLFEMWGNKIQTLCLLPLMSGNTLLGVLKLAQCDEQVFTTTNLKLLRQIAERVSIAIdnalayreiqrlkerlvdenlal 367
Cdd:COG3604 64 RQAALAARERQLFLGVPLRVGGEVLGVLTLDSRRPGAFSEEDLRLLETLASLAAVAI----------------------- 120
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 368 teqlnnvesefgeiigrseamnnvlkqvemvahsdstvliLGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLE 447
Cdd:COG3604 121 ----------------------------------------LGETGTGKELVANAIHELSPRADKPFVKVNCAALPESLLE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 448 SdlfghergaftgasaqrigrfeladksslfldevgdmplelqpkllrvLQEQEFERLGSNKLIQTDVRLIAATNRDLKQ 527
Cdd:COG3604 161 S------------------------------------------------LQEGEFERVGGDETIKVDVRIIAATNRDLEE 192
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 528 MVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLTRMEWPGNVRELENVIER 607
Cdd:COG3604 193 EVAEGRFREDLYYRLNVFPIRLPPLRERREDIPLLAEHFLEKFSRRLGKPILRLSPEALEALMAYPWPGNVRELENVIER 272
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 490310932 608 AVLLTRGNVLQLSLPERDIVEPPRspevlpeegEDEYQLIVRVLKESNGVVAgpkGAAQRLGLKRTTLLSRMKRLGIN 685
Cdd:COG3604 273 AVILAEGGVLDADDLAPGSREALE---------EVEREHILEALERTGGNIA---GAARLLGLTPSTLRSRMKKLGIK 338
|
|
| ntrC |
TIGR01818 |
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response ... |
361-682 |
1.04e-95 |
|
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. [Central intermediary metabolism, Nitrogen metabolism, Regulatory functions, DNA interactions, Signal transduction, Two-component systems]
Pssm-ID: 273818 [Multi-domain] Cd Length: 463 Bit Score: 303.20 E-value: 1.04e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 361 VDENLALTE----------QLNNVESEFG---EIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSG 427
Cdd:TIGR01818 103 LDEAVTLVEralahaqeqvALPADAGEAEdsaELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSP 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 428 RNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGS 507
Cdd:TIGR01818 183 RANGPFIALNMAAIPKDLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGG 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 508 NKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDSIPAETLR 587
Cdd:TIGR01818 263 RTPIKVDVRIVAATHQNLEALVRQGKFREDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALE 342
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 588 TLTRMEWPGNVRELENVIERAVLLTRGNVLQLS-LPERDIVEPPRSPEVLPEEGEDEYQLIVRVLKESNGvvAGPKG--- 663
Cdd:TIGR01818 343 RLKQLRWPGNVRQLENLCRWLTVMASGDEVLVSdLPAELALTGRPASAPDSDGQDSWDEALEAWAKQALS--RGEQGlld 420
|
330 340 350 360
....*....|....*....|....*....|....*....|...
gi 490310932 664 ------------------------AAQRLGLKRTTLLSRMKRL 682
Cdd:TIGR01818 421 ralpeferplleaalqhtrghkqeAAALLGWGRNTLTRKLKEL 463
|
|
| PRK10365 |
PRK10365 |
sigma-54-dependent response regulator transcription factor ZraR; |
343-681 |
1.73e-92 |
|
sigma-54-dependent response regulator transcription factor ZraR;
Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 294.25 E-value: 1.73e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 343 AIDNALAYREIQRLKERLVdENLALTEQLNN-----VESEFGeIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKEL 417
Cdd:PRK10365 100 ALDYLIKPLDFDNLQATLE-KALAHTHSIDAetpavTASQFG-MVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKEL 177
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 418 IARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVL 497
Cdd:PRK10365 178 VARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAI 257
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 498 QEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRN 577
Cdd:PRK10365 258 QEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKA 337
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 578 IDSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNVL-QLSLPERDIVEPprspevLPEEGEDEYQLIVRVLKESNG 656
Cdd:PRK10365 338 VKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEYIsERELPLAIASTP------IPLGQSQDIQPLVEVEKEVIL 411
|
330 340 350
....*....|....*....|....*....|
gi 490310932 657 VVAGPKG-----AAQRLGLKRTTLLSRMKR 681
Cdd:PRK10365 412 AALEKTGgnkteAARQLGITRKTLLAKLSR 441
|
|
| phageshock_pspF |
TIGR02974 |
psp operon transcriptional activator PspF; Members of this protein family are PspF, the ... |
381-609 |
6.36e-89 |
|
psp operon transcriptional activator PspF; Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH [Regulatory functions, DNA interactions]
Pssm-ID: 274371 [Multi-domain] Cd Length: 329 Bit Score: 281.11 E-value: 6.36e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 381 IIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:TIGR02974 1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 461 ASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYY 540
Cdd:TIGR02974 81 AQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADLLD 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 541 RLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDS-IPAETLRTLTRMEWPGNVRELENVIERAV 609
Cdd:TIGR02974 161 RLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPgFTPQAREQLLEYHWPGNVRELKNVVERSV 230
|
|
| TyrR |
COG3283 |
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ... |
367-623 |
6.72e-86 |
|
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];
Pssm-ID: 442513 [Multi-domain] Cd Length: 514 Bit Score: 279.38 E-value: 6.72e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 367 LTEQLNNV----ESEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMP 442
Cdd:COG3283 188 LGEQLQALqvndDSGFDHIVASSPKMRQVIRQAKKMAMLDAPLLIQGETGTGKELLARACHLASPRGDKPFLALNCAALP 267
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 443 AGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATN 522
Cdd:COG3283 268 DDVAESELFGYAPGAFGNAREGKKGLFEQANGGTVFLDEIGEMSPQLQAKLLRFLQDGTFRRVGEEQEVKVDVRVICATQ 347
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 523 RDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLTRMEWPGNVRELE 602
Cdd:COG3283 348 KDLAELVQEGEFREDLYYRLNVLTLTLPPLRERKSDILPLAEHFVARFSQQLGRPRPRLSPDLVDFLQSYPWPGNVRQLE 427
|
250 260
....*....|....*....|....
gi 490310932 603 NVIERAVLLTRGNVL---QLSLPE 623
Cdd:COG3283 428 NALYRAVSLLEGDELtpeDLQLPE 451
|
|
| PRK15115 |
PRK15115 |
response regulator GlrR; Provisional |
361-678 |
1.20e-83 |
|
response regulator GlrR; Provisional
Pssm-ID: 185070 [Multi-domain] Cd Length: 444 Bit Score: 271.33 E-value: 1.20e-83
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 361 VDENLALTEQLNNvESEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAA 440
Cdd:PRK15115 117 IDDALEQSAPATD-ERWREAIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGA 195
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 441 MPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAA 520
Cdd:PRK15115 196 LPEQLLESELFGHARGAFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISA 275
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 521 TNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLTRMEWPGNVRE 600
Cdd:PRK15115 276 THRDLPKAMARGEFREDLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQ 355
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 601 LENVIERAVLLTRGNVLQLSLPERDIV-EPPRSPEVLPEEGEDEYQLIVRVLKESNGVVAgpkGAAQRLGLKRT---TLL 676
Cdd:PRK15115 356 LVNVIEQCVALTSSPVISDALVEQALEgENTALPTFVEARNQFELNYLRKLLQITKGNVT---HAARMAGRNRTefyKLL 432
|
..
gi 490310932 677 SR 678
Cdd:PRK15115 433 SR 434
|
|
| PRK15424 |
PRK15424 |
propionate catabolism operon regulatory protein PrpR; Provisional |
376-681 |
9.65e-81 |
|
propionate catabolism operon regulatory protein PrpR; Provisional
Pssm-ID: 237963 [Multi-domain] Cd Length: 538 Bit Score: 266.59 E-value: 9.65e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 376 SEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIH--------NLSGRNSRRMVKMNCAAMPAGLLE 447
Cdd:PRK15424 216 YVLGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHreyfarhdARQGKKSHPFVAVNCGAIAESLLE 295
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 448 SDLFGHERGAFTGAS-AQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLK 526
Cdd:PRK15424 296 AELFGYEEGAFTGSRrGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLE 375
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 527 QMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFtfkiARRMGRNIDSIPAETLR--------TLTRMEWPGNV 598
Cdd:PRK15424 376 EDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESF----LKQSLAALSAPFSAALRqglqqcetLLLHYDWPGNV 451
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 599 RELENVIERAVL---------LTRGNVLQLSlPER--DIVEPPRSPEvlpeegedEYQLIVRVLKESNGVVAgpkGAAQR 667
Cdd:PRK15424 452 RELRNLMERLALflsveptpdLTPQFLQLLL-PELarESAKTPAPRL--------LAATLQQALERFNGDKT---AAANY 519
|
330
....*....|....
gi 490310932 668 LGLKRTTLLSRMKR 681
Cdd:PRK15424 520 LGISRTTLWRRLKA 533
|
|
| glnG |
PRK10923 |
nitrogen regulation protein NR(I); Provisional |
344-684 |
6.81e-80 |
|
nitrogen regulation protein NR(I); Provisional
Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 262.11 E-value: 6.81e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 344 IDNALAYreIQRLKERLVDENLALTEQLNNVESEfgeIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIH 423
Cdd:PRK10923 108 IDEAVAL--VERAISHYQEQQQPRNIQVNGPTTD---IIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALH 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 424 NLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFE 503
Cdd:PRK10923 183 RHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANTIRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFY 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 504 RLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDSIPA 583
Cdd:PRK10923 263 RVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDLFHRLNVIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHP 342
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 584 ETLRTLTRMEWPGNVRELENVIERAVLLTRGN-VLQLSLPE--RDIVEPPRSPEVLPE---------------EG----- 640
Cdd:PRK10923 343 ETEAALTRLAWPGNVRQLENTCRWLTVMAAGQeVLIQDLPGelFESTVPESTSQMQPDswatllaqwadralrSGhqnll 422
|
330 340 350 360
....*....|....*....|....*....|....*....|....*....
gi 490310932 641 -----EDEYQLIVRVLKESNGvvaGPKGAAQRLGLKRTTLLSRMKRLGI 684
Cdd:PRK10923 423 seaqpELERTLLTTALRHTQG---HKQEAARLLGWGRNTLTRKLKELGM 468
|
|
| propionate_PrpR |
TIGR02329 |
propionate catabolism operon regulatory protein PrpR; At least five distinct pathways exists ... |
337-680 |
7.68e-78 |
|
propionate catabolism operon regulatory protein PrpR; At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR. [Regulatory functions, DNA interactions]
Pssm-ID: 274079 [Multi-domain] Cd Length: 526 Bit Score: 258.25 E-value: 7.68e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 337 AERVSIAIDNALAYREIQRLKERLVDENLalTEQLNNVESEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKE 416
Cdd:TIGR02329 172 ADSVRQAFDDALDVARATRLRQAATLRSA--TRNQLRTRYRLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKE 249
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 417 LIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGA-SAQRIGRFELADKSSLFLDEVGDMPLELQPKLLR 495
Cdd:TIGR02329 250 LVAQAIHQLSGRRDFPFVAINCGAIAESLLEAELFGYEEGAFTGArRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLR 329
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 496 VLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMG 575
Cdd:TIGR02329 330 VLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAAAALR 409
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 576 RNIDSIPAETLRT----LTRMEWPGNVRELENVIERAVLLTRG--------NVLQLSLPE--RDIVEPPRSPEVLPEEGE 641
Cdd:TIGR02329 410 LPDSEAAAQVLAGvadpLQRYPWPGNVRELRNLVERLALELSAmpagaltpDVLRALAPElaEASGKGKTSALSLRERSR 489
|
330 340 350
....*....|....*....|....*....|....*....
gi 490310932 642 DEYQLIVRVLKESNGVVAgpkGAAQRLGLKRTTLLSRMK 680
Cdd:TIGR02329 490 VEALAVRAALERFGGDRD---AAAKALGISRTTLWRRLK 525
|
|
| pspF |
PRK11608 |
phage shock protein operon transcriptional activator; Provisional |
381-685 |
1.79e-72 |
|
phage shock protein operon transcriptional activator; Provisional
Pssm-ID: 236936 [Multi-domain] Cd Length: 326 Bit Score: 237.65 E-value: 1.79e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 381 IIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:PRK11608 8 LLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTG 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 461 ASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYY 540
Cdd:PRK11608 88 AQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGKFRADLLD 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 541 RLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNI-DSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNVLQL 619
Cdd:PRK11608 168 RLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLfPGFTERARETLLNYRWPGNIRELKNVVERSVYRHGTSEYPL 247
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 620 -----------SLPERDIVEPPRSPEVLPE-----EGEDEYQLIVRVLKESNgvvAGPKGAAQRLGLKRTTLLSRMKRLG 683
Cdd:PRK11608 248 dniiidpfkrrPAEEAIAVSETTSLPTLPLdlrewQHQQEKELLQRSLQQAK---FNQKRAAELLGLTYHQLRALLKKHQ 324
|
..
gi 490310932 684 IN 685
Cdd:PRK11608 325 IL 326
|
|
| PRK10820 |
PRK10820 |
transcriptional regulator TyrR; |
373-635 |
3.72e-65 |
|
transcriptional regulator TyrR;
Pssm-ID: 236769 [Multi-domain] Cd Length: 520 Bit Score: 224.18 E-value: 3.72e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 373 NVESEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFG 452
Cdd:PRK10820 198 NDDSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFG 277
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 453 HERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDR 532
Cdd:PRK10820 278 HAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQKG 357
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 533 EFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLTRMEWPGNVRELENVIERAVLLT 612
Cdd:PRK10820 358 EFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALTQL 437
|
250 260
....*....|....*....|...
gi 490310932 613 RGNVLQLslpeRDIVEPPRSPEV 635
Cdd:PRK10820 438 EGYELRP----QDILLPDYDAAV 456
|
|
| PRK11388 |
PRK11388 |
DNA-binding transcriptional regulator DhaR; Provisional |
368-684 |
2.87e-60 |
|
DNA-binding transcriptional regulator DhaR; Provisional
Pssm-ID: 183114 [Multi-domain] Cd Length: 638 Bit Score: 213.77 E-value: 2.87e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 368 TEQLNNVESEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLE 447
Cdd:PRK11388 314 TSQLGKVSHTFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALA 393
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 448 SDLFGherGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQ 527
Cdd:PRK11388 394 EEFLG---SDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAM 470
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 528 MVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMGRNIdSIPAETLRTLTRMEWPGNVRELENVIER 607
Cdd:PRK11388 471 LVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRL-KIDDDALARLVSYRWPGNDFELRSVIEN 549
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 608 AVLLTRGNVLQLS-LPE-------RDIVEPPRSPEVLPEEgEDEYQLIVRVLKESNGVVagpKGAAQRLGLKRTTLLSRM 679
Cdd:PRK11388 550 LALSSDNGRIRLSdLPEhlfteqaTDDVSATRLSTSLSLA-ELEKEAIINAAQVCGGRI---QEMAALLGIGRTTLWRKM 625
|
....*
gi 490310932 680 KRLGI 684
Cdd:PRK11388 626 KQHGI 630
|
|
| RtcR |
COG4650 |
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a ... |
384-654 |
3.79e-43 |
|
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];
Pssm-ID: 443688 [Multi-domain] Cd Length: 534 Bit Score: 163.46 E-value: 3.79e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 384 RSEAMNNVLKQVEMVA-HSDSTVLILGETGTGKELIARAI-------HNLSGRnsrrMVKMNCA------AMpaglleSD 449
Cdd:COG4650 189 RNAAFNRLIEQIERVAiRSRAPILLTGPTGAGKSQLARRIyelkkarHQVSGR----FVEVNCAtlrgdgAM------SA 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 450 LFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMV 529
Cdd:COG4650 259 LFGHVKGAFTGAVSDRAGLLRSADGGVLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRDLRQEV 338
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 530 IDREFRSDLYYRLNVFPIHLPPLRERPDDIP-----LLVKAftfkiARRMGRNIdSIPAET----LRTLTRME--WPGNV 598
Cdd:COG4650 339 AEGRFREDLLARINLWTFRLPGLAERREDIEpnldyELARF-----AREQGRRV-RFNKEAraryLAFATSPEalWSGNF 412
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 490310932 599 RELENVIER-AVL-----LTRGNV------LQLS-LPERDIVEPPRSPEVLPEEGE------DEYQL--IVRVLKES 654
Cdd:COG4650 413 RDLNASVTRmATLaeggrITVALVdeeiarLRRLwQRAEAATGDDLLAELLGAEQAaeldlfDRVQLaaVIRVCRRS 489
|
|
| PspF |
COG1221 |
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ... |
357-605 |
2.91e-30 |
|
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];
Pssm-ID: 440834 [Multi-domain] Cd Length: 835 Bit Score: 127.53 E-value: 2.91e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 357 KERLVDENLALTEQLNNVESEFGEIIGRSEAMNNVLKQVEMVA-------HsdstVLILGETGTGKELIARAIHNLSGRN 429
Cdd:COG1221 82 SEYSFVELLAEKENNEEEEDPFDNLIGANGSLKNAIEQAKAAIlyppkglH----TLILGPTGVGKSFFAELMYEYAIEI 157
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 430 SRR-----MVKMNCA--AMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEF 502
Cdd:COG1221 158 GVLpedapFVVFNCAdyANNPQLLMSQLFGYVKGAFTGADKDKEGLIEKADGGILFLDEVHRLPPEGQEMLFTFMDKGIY 237
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 503 ERLG-SNKLIQTDVRLIAATNRDLKqmvidrefrSDLyyrLNVF----P--IHLPPLRERpddiPL-----LVKAFtFKI 570
Cdd:COG1221 238 RRLGeTEKTRKANVRIIFATTEDPE---------SSL---LKTFlrriPmvIKLPSLEER----SLeerleLIKHF-FKE 300
|
250 260 270
....*....|....*....|....*....|....*.
gi 490310932 571 -ARRMGRNIdSIPAETLRTLTRMEWPGNVRELENVI 605
Cdd:COG1221 301 eAKRLNKPI-KVSKEVLKALLLYDCPGNIGQLKSDI 335
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
388-551 |
4.30e-23 |
|
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Pssm-ID: 99707 [Multi-domain] Cd Length: 151 Bit Score: 96.06 E-value: 4.30e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 388 MNNVLKQVEMVA--HSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHErgaftgASAQR 465
Cdd:cd00009 3 QEEAIEALREALelPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF------LVRLL 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 466 IGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNkliqtDVRLIAATNRDLkqmviDREFRSDLYYRLNVf 545
Cdd:cd00009 77 FELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRE-----NVRVIGATNRPL-----LGDLDRALYDRLDI- 145
|
....*.
gi 490310932 546 PIHLPP 551
Cdd:cd00009 146 RIVIPL 151
|
|
| Sigma54_activ_2 |
pfam14532 |
Sigma-54 interaction domain; |
382-552 |
1.04e-21 |
|
Sigma-54 interaction domain;
Pssm-ID: 434021 [Multi-domain] Cd Length: 138 Bit Score: 91.64 E-value: 1.04e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 382 IGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESdlfghergaftga 461
Cdd:pfam14532 1 LGASAAIQEIKRRLEQAAQSTLPVFLTGEPGSGKEFCARYLHNPSTPWVQPFDIEYLAHAPLELLEQ------------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 462 saqrigrfelADKSSLFLDEVGDMPLELQPKLLRVLQEQEferlgsnkliQTDVRLIAATNRDLKQMVIDREFRSDLYYR 541
Cdd:pfam14532 68 ----------AKGGTLYLKDIADLSKALQKGLLLLLAKAE----------GYRVRLVCTSSKDLPQLAAAGLFDEQLYFE 127
|
170
....*....|.
gi 490310932 542 LNVFPIHLPPL 552
Cdd:pfam14532 128 LSALRLHVPPL 138
|
|
| GAF |
smart00065 |
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
202-354 |
4.19e-19 |
|
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Pssm-ID: 214500 [Multi-domain] Cd Length: 149 Bit Score: 84.36 E-value: 4.19e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 202 DIDELVSEVAKEIHRYFRIDAISVVLRSnrKGKLNIYSTHYLDASHPVHDQSEVDEAGTLTERVFKSKEMLLLNLHEHDT 281
Cdd:smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVD--ENDRGELVLVAADGLTLPTLGIRFPLDEGLAGRVAETGRPLNIPDVEADP 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 490310932 282 LAPYEKMLFEMWgnkIQTLCLLPLMSGNTLLGVLKLAQCDEQ-VFTTTNLKLLRQIAERVSIAIDNALAYREIQ 354
Cdd:smart00065 79 LFAEDLLGRYQG---VRSFLAVPLVADGELVGVLALHNKKSPrPFTEEDEELLQALANQLAIALANAQLYEELR 149
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
404-542 |
2.18e-13 |
|
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.
Pssm-ID: 214640 [Multi-domain] Cd Length: 148 Bit Score: 68.17 E-value: 2.18e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 404 TVLILGETGTGKELIARAIHNLSGRNSRRMVKMNCAAMPAGLLES---DLFGHERGAFTGASAQRIgRFELADKSS---L 477
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQlllIIVGGKKASGSGELRLRL-ALALARKLKpdvL 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 490310932 478 FLDEVGDMpleLQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNR--DLKQMVIDREFRSDLYYRL 542
Cdd:smart00382 83 ILDEITSL---LDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDekDLGPALLRRRFDRRIVLLL 146
|
|
| PtsP |
COG3605 |
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; |
187-360 |
7.88e-13 |
|
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms];
Pssm-ID: 442824 [Multi-domain] Cd Length: 188 Bit Score: 67.61 E-value: 7.88e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 187 FRILVAITNAVLSRLDIDELVSEVAKEIHRYFRIDAISVVLRSNRKGKLNIYSTHYLDASHpVHDQS-EVDEaGtLTERV 265
Cdd:COG3605 3 LKALRRISEAVASALDLDEALDRIVRRIAEALGVDVCSIYLLDPDGGRLELRATEGLNPEA-VGKVRlPLGE-G-LVGLV 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 266 FKSKEMLLL-NLHEHDTLAPYEkmlfEMWGNKIQTLCLLPLMSGNTLLGVLKLAQCDEQVFTTTNLKLLRQIAERVSIAI 344
Cdd:COG3605 80 AERGEPLNLaDAASHPRFKYFP----ETGEEGFRSFLGVPIIRRGRVLGVLVVQSREPREFTEEEVEFLVTLAAQLAEAI 155
|
170
....*....|....*.
gi 490310932 345 DNALAYREIQRLKERL 360
Cdd:COG3605 156 ANAELLGELRAALAEL 171
|
|
| GAF |
COG2203 |
GAF domain [Signal transduction mechanisms]; |
17-683 |
1.63e-11 |
|
GAF domain [Signal transduction mechanisms];
Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 67.53 E-value: 1.63e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 17 ITRLLLQQPDLAALSETLTRLVQQSALADEAAIILWNAGNHRAARYACDEAGQPVSYEDETVLAHGPVRRLLSRPDALHC 96
Cdd:COG2203 24 TLLLALLLLALQALERVLETTELALALELLLERLTELRAAARLAAEAAEAALLLILLIDALVLLSLVATAGLVLELADLL 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 97 DHETFADTWPQLIRSGIYRPFGYYSLLPLAADGRIFGGCEFLRRDNRPWSEKEFQRLHTFAQIVAVVTEQIQNRVSNNVD 176
Cdd:COG2203 104 LLLRLLALLVLLLVALALAEALAARLLDLLLLGLGGRLRGVVLRGLRSAALLLSRVDTDLVGQLAALAGLILDIARLLTQ 183
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 177 YDLLchERDNFRILVAITNAVLSRLDIDELVSEVAKEIHRYFRIDAISVVLRSNRKGKLNIYSTHYLDASHPvhdqSEVD 256
Cdd:COG2203 184 RARL--ELERLALLNEISQALRSALDLEELLQRILELAGELLGADRGAILLVDEDGGELELVAAPGLPEEEL----GRLP 257
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 257 EAGTLTERVFKSKEMLLLN-LHEHDTLAPYEKMLFEMWGnkIQTLCLLPLMSGNTLLGVLKLAQCDEQVFTTTNLKLLRQ 335
Cdd:COG2203 258 LGEGLAGRALRTGEPVVVNdASTDPRFAPSLRELLLALG--IRSLLCVPLLVDGRLIGVLALYSKEPRAFTEEDLELLEA 335
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 336 IAERVSIAIDNALAYREIQRLKERLVDENLALTEQLNNVESEFGEIIGRSEAMNNVLKQVEMVAHSDSTVLILGETGTGK 415
Cdd:COG2203 336 LADQAAIAIERARLYEALEAALAALLQELALLRLLLDLELTLLRLRQLLLELLLALLLLLSLLGAELLLLLLDAADLSGL 415
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 416 ELIARAIHNLSGRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLR 495
Cdd:COG2203 416 LALEGLLLLDLLLLLLLLRRILLLRVLRRLLLGDEEGLVLLLALAELELLEILELLVLLAVILLALALLAALLLLLLLLL 495
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 496 VLQEQEFERLGSNKLIQTDVRLIAATNRDLKQMVIDREFRSDLYYRLNVFPIHLPPLRERPDDIPLLVKAFTFKIARRMG 575
Cdd:COG2203 496 ALLALSALAVLASLLLALLLLLLLLLLLLLLGLLAALAADLLLLAAALLEDLLILLLVLLLERELLTLVGVLLLLGLSVL 575
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 576 RNIDSIPAETLRTLTRMEWPGNVRELENVIERAVLLTRGNVLQLSLPERDIVEPPRSPEVLPEEGEDEYQLIVRVLKESN 655
Cdd:COG2203 576 LIELALALILALALLELLLVAVGDLLLLERDLLLLLVLLVRLLLELLVVTLELTVLVVLAAVEDSALLLRLALALASLVL 655
|
650 660
....*....|....*....|....*...
gi 490310932 656 GVVAGPKGAAQRLGLKRTTLLSRMKRLG 683
Cdd:COG2203 656 LRALLATELDLILDSSLLLGLLLLGALL 683
|
|
| GAF |
pfam01590 |
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl ... |
202-344 |
5.97e-10 |
|
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl cyclases, phytochromes, FhlA and NifA. Adenylyl and guanylyl cyclases catalyze ATP and GTP to the second messengers cAMP and cGMP, respectively, these products up-regulating catalytic activity by binding to the regulatory GAF domain(s). The opposite hydrolysis reaction is catalyzed by phosphodiesterase. cGMP-dependent 3',5'-cyclic phosphodiesterase catalyzes the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. Here too, cGMP regulates catalytic activity by GAF-domain binding. Phytochromes are regulatory photoreceptors in plants and bacteria which exist in two thermally-stable states that are reversibly inter-convertible by light: the Pr state absorbs maximally in the red region of the spectrum, while the Pfr state absorbs maximally in the far-red region. This domain is also found in FhlA (formate hydrogen lyase transcriptional activator) and NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54. This domain can bind biliverdine and phycocyanobilin (Matilla et al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pssm-ID: 460259 [Multi-domain] Cd Length: 133 Bit Score: 57.87 E-value: 5.97e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 202 DIDELVSEVAKEIHRYFRIDAISVVLrsnrkgkLNIYSTHYLDASHPVHDQSEVDEAGTLTERVFKSKEMLLLNLHEHDT 281
Cdd:pfam01590 1 DLEEILQTILEELRELLGADRCALYL-------PDADGLEYLPPGARWLKAAGLEIPPGTGVTVLRTGRPLVVPDAAGDP 73
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 490310932 282 LAPYEKMLFEMWGnkIQTLCLLPLMSGNTLLGVLKLAQCDEQvFTTTNLKLLRQIAERVSIAI 344
Cdd:pfam01590 74 RFLDPLLLLRNFG--IRSLLAVPIIDDGELLGVLVLHHPRPP-FTEEELELLEVLADQVAIAL 133
|
|
| GAF |
smart00065 |
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
26-168 |
5.57e-09 |
|
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Pssm-ID: 214500 [Multi-domain] Cd Length: 149 Bit Score: 55.47 E-value: 5.57e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 26 DLAALSETLTRLVQQSALADEAAIILWNAGNHRAARYACDEAGQPVSYEDETVLAHGPVRRLLSRPDALHC-DHEtfADT 104
Cdd:smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDENDRGELVLVAADGLTLPTLGIRFPLDEGLAGRVAETGRPLNIpDVE--ADP 78
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 490310932 105 WPQLIRSGIYRPFGYYSLLPLAADGRIFGGCEFLRRD-NRPWSEKEFQRLHTFAQIVAVVTEQIQ 168
Cdd:smart00065 79 LFAEDLLGRYQGVRSFLAVPLVADGELVGVLALHNKKsPRPFTEEDEELLQALANQLAIALANAQ 143
|
|
| GAF_2 |
pfam13185 |
GAF domain; The GAF domain is named after some of the proteins it is found in, including ... |
201-345 |
9.95e-08 |
|
GAF domain; The GAF domain is named after some of the proteins it is found in, including cGMP-specific phosphodiesterases, adenylyl cyclases and FhlA. It is also found in guanylyl cyclases and phytochromes. The structure of a GAF domain shows that the domain shares a similar fold with the PAS domain. This domain can bind O2, CO and NO (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043).
Pssm-ID: 433019 [Multi-domain] Cd Length: 137 Bit Score: 51.31 E-value: 9.95e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 201 LDIDELVSEVAKEIHRyFRIDAISVVLRSNRKGKLNIYSthYLDASHPVHDQSEVDEAgtLTERVFKSKEMLLLNlhehD 280
Cdd:pfam13185 2 ADLEELLDAVLEAAVE-LGASAVGFILLVDDDGRLAAWG--GAADELSAALDDPPGEG--LVGEALRTGRPVIVN----D 72
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 490310932 281 TLAPYEKMLFEMWGNKIQTLCLLPLMSGNTLLGVLKLAQCDEQVFTTTNLKLLRQIAERVSIAID 345
Cdd:pfam13185 73 LAADPAKKGLPAGHAGLRSFLSVPLVSGGRVVGVLALGSNRPGAFDEEDLELLELLAEQAAIAIE 137
|
|
| AAA_5 |
pfam07728 |
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
405-536 |
1.13e-07 |
|
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Pssm-ID: 400191 [Multi-domain] Cd Length: 135 Bit Score: 51.14 E-value: 1.13e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 405 VLILGETGTGKELIARAI-HNLSGRNSRRMvkmncaAMPAGLLESDLFGH-----ERGAFTGASAQRIGRfelaDKSSLF 478
Cdd:pfam07728 2 VLLVGPPGTGKTELAERLaAALSNRPVFYV------QLTRDTTEEDLFGRrnidpGGASWVDGPLVRAAR----EGEIAV 71
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 490310932 479 LDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQ---TDVRLIAATN-RDLKQMVIDREFRS 536
Cdd:pfam07728 72 LDEINRANPDVLNSLLSLLDERRLLLPDGGELVKaapDGFRLIATMNpLDRGLNELSPALRS 133
|
|
| GAF_3 |
pfam13492 |
GAF domain; |
202-346 |
4.16e-07 |
|
GAF domain;
Pssm-ID: 433253 [Multi-domain] Cd Length: 129 Bit Score: 49.29 E-value: 4.16e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 202 DIDELVSEVAKEIHRYFRIDAISVVLRSNRKGKLNIysTHYLDASHPVHDqsEVDEAGTLTERVFKSKEMLLLNLHEHDT 281
Cdd:pfam13492 1 SLDEILEALLKLLVRLLGAERAAVYLLDEDGNKLQV--AAGYDGEPDPSE--SLDADSPLARRALSSGEPISGLGSAGED 76
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 490310932 282 LAPYEKMLFemwgnkiqtlclLPLMSGNTLLGVLKLAQCDEQVFTTTNLKLLRQIAERVSIAIDN 346
Cdd:pfam13492 77 GLPDGPALV------------VPLVAGRRVIGVLALASSKPRAFDAEDLRLLESLAAQIATAIEN 129
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
405-523 |
1.89e-05 |
|
ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.
Pssm-ID: 459627 [Multi-domain] Cd Length: 130 Bit Score: 44.51 E-value: 1.89e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 405 VLILGETGTGKELIARAIHNLSGRNsrrMVKMNCaampaglleSDLFGHergaFTGASAQRI-GRFELADKSS---LFLD 480
Cdd:pfam00004 1 LLLYGPPGTGKTTLAKAVAKELGAP---FIEISG---------SELVSK----YVGESEKRLrELFEAAKKLApcvIFID 64
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 490310932 481 EV-----------GDMPLELQPKLLRVLqeQEFERLGSNkliqtdVRLIAATNR 523
Cdd:pfam00004 65 EIdalagsrgsggDSESRRVVNQLLTEL--DGFTSSNSK------VIVIAATNR 110
|
|
| SpoVK |
COG0464 |
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
405-611 |
2.87e-04 |
|
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];
Pssm-ID: 440232 [Multi-domain] Cd Length: 397 Bit Score: 43.75 E-value: 2.87e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 405 VLILGETGTGKELIARAIHNLSGRNsrrmvkmncaampagLLE---SDLFGhergAFTGASAQRIGR-FELADKSS---L 477
Cdd:COG0464 194 LLLYGPPGTGKTLLARALAGELGLP---------------LIEvdlSDLVS----KYVGETEKNLREvFDKARGLApcvL 254
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 478 FLDEVgDmplelqpKLLRVLQE--QEFERLGSNKLIQ------TDVRLIAATNRDLKqmvIDREFRSdlyyRLN-VFPIH 548
Cdd:COG0464 255 FIDEA-D-------ALAGKRGEvgDGVGRRVVNTLLTemeelrSDVVVIAATNRPDL---LDPALLR----RFDeIIFFP 319
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 490310932 549 LPPLRERpddipllvkaftFKIARRMGRNIDSIPAETLRTLTRMEWPGNVRELENVIERAVLL 611
Cdd:COG0464 320 LPDAEER------------LEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQ 370
|
|
| RPT1 |
COG1222 |
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
378-523 |
4.20e-04 |
|
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 43.07 E-value: 4.20e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 378 FGEIIGRSEAMNNVLKQVEM-VAHSD----------STVLILGETGTGKELIARAIHNLSGRNSRRMVkmncaamPAGLL 446
Cdd:COG1222 77 FDDIGGLDEQIEEIREAVELpLKNPElfrkygieppKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVR-------GSELV 149
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 447 ESdlfghergaFTGASAQRIGR-FELADKSS---LFLDEV-------GDM--PLELQPKLLRVLQE-QEFERLGsnkliq 512
Cdd:COG1222 150 SK---------YIGEGARNVREvFELAREKApsiIFIDEIdaiaarrTDDgtSGEVQRTVNQLLAElDGFESRG------ 214
|
170
....*....|.
gi 490310932 513 tDVRLIAATNR 523
Cdd:COG1222 215 -DVLIIAATNR 224
|
|
| RecA-like_protease |
cd19481 |
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
403-536 |
8.71e-04 |
|
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410889 [Multi-domain] Cd Length: 158 Bit Score: 40.34 E-value: 8.71e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 403 STVLILGETGTGKELIARAIHNLSGRNsrrMVKMNCaampaglleSDLFgherGAFTGASAQRIGR-FELADKSS---LF 478
Cdd:cd19481 27 KGILLYGPPGTGKTLLAKALAGELGLP---LIVVKL---------SSLL----SKYVGESEKNLRKiFERARRLApciLF 90
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490310932 479 LDEV------------GDMPLELQPKLLRVLQEQEferlgsnklIQTDVRLIAATNRdlkQMVIDREFRS 536
Cdd:cd19481 91 IDEIdaigrkrdssgeSGELRRVLNQLLTELDGVN---------SRSKVLVIAATNR---PDLLDPALLR 148
|
|
| |
