|
Name |
Accession |
Description |
Interval |
E-value |
| PRK15429 |
PRK15429 |
formate hydrogenlyase transcriptional activator FlhA; |
4-689 |
0e+00 |
|
formate hydrogenlyase transcriptional activator FlhA;
Pssm-ID: 237965 [Multi-domain] Cd Length: 686 Bit Score: 1449.64 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 4 TPMSDLGQQGLFDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQTQRASYYASREKDTPIKYEDETVLAHGP 83
Cdd:PRK15429 1 TPMSDLGQQGLFDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQTQRASYYASREKGTPVKYEDETVLAHGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 84 VRSILSRPDTLHCSYEEFCETWPQLDAGGLYPKFGHYCLMPLAAEGHIFGGCEFIRYDDRPWSEKEFNRLQTFTQIVSVV 163
Cdd:PRK15429 81 VRRILSRPDTLHCSYEEFCETWPQLAAGGLYPKFGHYCLMPLAAEGHIFGGCEFIRYDDRPWSEKEFNRLQTFTQIVSVV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 164 TEQIQSRVVNNVDYELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDDISIVLRSHRKNKLNIYSTHYL 243
Cdd:PRK15429 161 TEQIQSRVVNNVDYELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRKNKLNIYSTHYL 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 244 DKQHPAHEQSEVDEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEK 323
Cdd:PRK15429 241 DKQHPAHEQSEVDEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEK 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 324 VFTTTNLNLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDS 403
Cdd:PRK15429 321 VFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDS 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 404 TVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVG 483
Cdd:PRK15429 401 TVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVG 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 484 DMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLA 563
Cdd:PRK15429 481 DMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLV 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 564 KAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVLQLSLPDIVLPEPETPPAATVVALEGE 643
Cdd:PRK15429 561 KAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVLQLSLPDITLPEPETPPAATVVAQEGE 640
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 16130638 644 DEYQLIVRVLKETNGVVAGPKGAAQRLGLKRTTLLSRMKRLGIDKS 689
Cdd:PRK15429 641 DEYQLIVRVLKETNGVVAGPKGAAQRLGLKRTTLLSRMKRLGIDKS 686
|
|
| RocR |
COG3829 |
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ... |
305-687 |
1.84e-167 |
|
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: 487.74 E-value: 1.84e-167
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 305 LMSGDTMLGVLKLAQCEEKVFTTTNLNLLRQIAERVAIAVDNALAY--------QEIHRLKERLVDENLaltEQLNNVDS 376
Cdd:COG3829 59 LIPNSPLLEVLKTGKPVTGVIQKTGGKGKTVIVTAIPIFEDGEVIGavetfrdiTELKRLERKLREEEL---ERGLSAKY 135
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 377 EFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERG 456
Cdd:COG3829 136 TFDDIIGKSPAMKELLELAKRVAKSDSTVLILGESGTGKELFARAIHNASPRRDGPFVAVNCAAIPENLLESELFGYEKG 215
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 457 AFTGASAQ-RIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFR 535
Cdd:COG3829 216 AFTGAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGTKPIPVDVRIIAATNRDLEEMVEEGRFR 295
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 536 SDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGN 615
Cdd:COG3829 296 EDLYYRLNVIPIHIPPLRERKEDIPLLAEHFLEKFNKKYGKNIKGISPEALELLLAYDWPGNVRELENVIERAVVLSEGD 375
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16130638 616 VLQLS-LPDIVLPEPETPPAATVVALEG---EDEYQLIVRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMKRLGID 687
Cdd:COG3829 376 VITPEhLPEYLLEEAEAASAAEEGSLKEaleEVEKELIEEALEKTGGNKS---KAAKALGISRSTLYRKLKKYGIK 448
|
|
| AtoC |
COG2204 |
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
338-685 |
5.46e-140 |
|
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: 416.29 E-value: 5.46e-140
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 338 ERVAIAVDNALAyqeihrlKERLVDENLALteqlnnvdsefGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKEL 417
Cdd:COG2204 108 EELLAAVERALE-------RRRLRRENAED-----------SGLIGRSPAMQEVRRLIEKVAPSDATVLITGESGTGKEL 169
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 418 IARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVL 497
Cdd:COG2204 170 VARAIHRLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLALQAKLLRVL 249
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 498 QEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRN 577
Cdd:COG2204 250 QEREFERVGGNKPIPVDVRVIAATNRDLEELVEEGRFREDLYYRLNVFPIELPPLRERREDIPLLARHFLARFAAELGKP 329
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 578 IdSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVLQLSLpdivLPEpetppaatvvALEgEDEYQLIVRVLKETN 657
Cdd:COG2204 330 V-KLSPEALEALLAYDWPGNVRELENVIERAVILADGEVITAED----LPE----------ALE-EVERELIERALEETG 393
|
330 340
....*....|....*....|....*...
gi 16130638 658 GVVagpKGAAQRLGLKRTTLLSRMKRLG 685
Cdd:COG2204 394 GNV---SRAAELLGISRRTLYRKLKKYG 418
|
|
| PRK05022 |
PRK05022 |
nitric oxide reductase transcriptional regulator NorR; |
301-686 |
6.16e-132 |
|
nitric oxide reductase transcriptional regulator NorR;
Pssm-ID: 235331 [Multi-domain] Cd Length: 509 Bit Score: 398.78 E-value: 6.16e-132
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 301 CL-LPLMSGDTMLGVLKLAQCEEKVFTTTNLNLLRQIAERVAIAVDNALayqEIHRLkERLVDENLALTEQLNNVDSEFG 379
Cdd:PRK05022 112 CMgLPLFVDGRLIGALTLDALDPGQFDAFSDEELRALAALAAATLRNAL---LIEQL-ESQAELPQDVAEFLRQEALKEG 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 380 EIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFT 459
Cdd:PRK05022 188 EMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFGHVKGAFT 267
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 460 GASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLY 539
Cdd:PRK05022 268 GAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGRFRADLY 347
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 540 YRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLG-RNIdSIPAETLRTLSNMEWPGNVRELENVIERAVLLTR----G 614
Cdd:PRK05022 348 HRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGlRSL-RLSPAAQAALLAYDWPGNVRELEHVISRAALLARargaG 426
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 615 NVLQLSLPDIVLPEPETPPAATVVALEGE----------DEYQ--LIVRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMK 682
Cdd:PRK05022 427 RIVTLEAQHLDLPAEVALPPPEAAAAPAAvvsqnlreatEAFQrqLIRQALAQHQGNWA---AAARALELDRANLHRLAK 503
|
....
gi 16130638 683 RLGI 686
Cdd:PRK05022 504 RLGL 507
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
304-617 |
5.71e-118 |
|
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: 363.65 E-value: 5.71e-118
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 304 PLMSGDTMLGVLKL-------AQCEEKV-FTTTNLNLLRQ-IAERVAIAVDNALAYQEIHRLKERLVDENLALTEQ---L 371
Cdd:TIGR01817 115 PIKADSETIGVLAAdrdfrsrERLEEEVrFLEMVANLIGQtVRLHRLVAQRRERLIAEAVQLSKQLRDKAPEIARRrsgK 194
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 372 NNVdsefgeIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLF 451
Cdd:TIGR01817 195 EDG------IIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESELF 268
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 452 GHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVAD 531
Cdd:TIGR01817 269 GHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVAK 348
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 532 REFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIdSIPAETLRTLSNMEWPGNVRELENVIERAVLL 611
Cdd:TIGR01817 349 GEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPL-TITPSAIRVLMSCKWPGNVRELENCLERTATL 427
|
....*.
gi 16130638 612 TRGNVL 617
Cdd:TIGR01817 428 SRSGTI 433
|
|
| AcoR |
COG3284 |
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription]; |
378-685 |
1.15e-117 |
|
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
Pssm-ID: 442514 [Multi-domain] Cd Length: 625 Bit Score: 365.76 E-value: 1.15e-117
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 378 FGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGA 457
Cdd:COG3284 320 LAALAGGDPAMRRALRRARRLADRDIPVLILGETGTGKELFARAIHAASPRADGPFVAVNCAAIPEELIESELFGYEPGA 399
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 458 FTGASAQ-RIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRS 536
Cdd:COG3284 400 FTGARRKgRPGKIEQADGGTLFLDEIGDMPLALQARLLRVLQEREVTPLGGTKPIPVDVRLIAATHRDLRELVAAGRFRE 479
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 537 DLYYRLNVFPIHLPPLRERpEDIPLLAKAFTFKIARRLGRNidSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNV 616
Cdd:COG3284 480 DLYYRLNGLTLTLPPLRER-EDLPALIEHLLRELAAGRGPL--RLSPEALALLAAYPWPGNVRELRNVLRTALALADGGV 556
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 16130638 617 LQLS-LPDIVLPEPETPPAATVVALEG--EDEYQLIVRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMKRLG 685
Cdd:COG3284 557 ITVEdLPDELRAELAAAAPAAAAPLTSleEAERDAILRALRACGGNVS---AAARALGISRSTLYRKLKRYG 625
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
381-548 |
2.73e-107 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 322.43 E-value: 2.73e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 381 IIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:pfam00158 1 IIGESPAMQEVLEQAKRVAPTDAPVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 461 ASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYY 540
Cdd:pfam00158 81 ADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLYY 160
|
....*...
gi 16130638 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 ... |
337-686 |
5.25e-106 |
|
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: 329.79 E-value: 5.25e-106
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 337 AERVAIAVDNALAYQEIHRlkerlvdENLALTEQLNNvdSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKE 416
Cdd:TIGR02915 106 PDVLKLIVDRAFHLYTLET-------ENRRLQSALGG--TALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKE 176
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 417 LIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRV 496
Cdd:TIGR02915 177 VLARALHQLSDRKDKRFVAINCAAIPENLLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRF 256
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 497 LQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGR 576
Cdd:TIGR02915 257 LQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGTFREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKR 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 577 NIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNvlQLSLPDIVLPEPETPPAATVVAL---EGEDEYQLIVRVL 653
Cdd:TIGR02915 337 KTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMAEGN--QITAEDLGLDARERAETPLEVNLrevRERAEREAVRKAI 414
|
330 340 350
....*....|....*....|....*....|...
gi 16130638 654 KETNGVVAgpkGAAQRLGLKRTTLLSRMKRLGI 686
Cdd:TIGR02915 415 ARVDGNIA---RAAELLGITRPTLYDLMKKHGI 444
|
|
| FhlA |
COG3604 |
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ... |
279-687 |
2.14e-102 |
|
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: 316.40 E-value: 2.14e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 279 RDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTNLNLLRQIAERVAIAvdnalayqeihrlke 358
Cdd:COG3604 55 SEALLAAQARQAALAARERQLFLGVPLRVGGEVLGVLTLDSRRPGAFSEEDLRLLETLASLAAVA--------------- 119
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 359 rlvdenlalteqlnnvdsefgeiigrseamysvlkqvemvaqsdstvlILGETGTGKELIARAIHNLSGRNNRRMVKMNC 438
Cdd:COG3604 120 ------------------------------------------------ILGETGTGKELVANAIHELSPRADKPFVKVNC 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 439 AAMPAGLLESdlfghergaftgasaqrigrfeladksslfldevgdmplelqpkllrvLQEQEFERLGSNKIIQTDVRLI 518
Cdd:COG3604 152 AALPESLLES------------------------------------------------LQEGEFERVGGDETIKVDVRII 183
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 519 AATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNV 598
Cdd:COG3604 184 AATNRDLEEEVAEGRFREDLYYRLNVFPIRLPPLRERREDIPLLAEHFLEKFSRRLGKPILRLSPEALEALMAYPWPGNV 263
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 599 RELENVIERAVLLTRGNVLqlslpdivlpEPETPPAATVVALEgEDEYQLIVRVLKETNGVVAgpkGAAQRLGLKRTTLL 678
Cdd:COG3604 264 RELENVIERAVILAEGGVL----------DADDLAPGSREALE-EVEREHILEALERTGGNIA---GAARLLGLTPSTLR 329
|
....*....
gi 16130638 679 SRMKRLGID 687
Cdd:COG3604 330 SRMKKLGIK 338
|
|
| PRK11361 |
PRK11361 |
acetoacetate metabolism transcriptional regulator AtoC; |
362-687 |
6.62e-102 |
|
acetoacetate metabolism transcriptional regulator AtoC;
Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 319.49 E-value: 6.62e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 362 DENLALTEQLNNvDSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAM 441
Cdd:PRK11361 127 KEIRHLHQALST-SWQWGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAAL 205
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 442 PAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAAT 521
Cdd:PRK11361 206 PESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAAT 285
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 522 NRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNVREL 601
Cdd:PRK11361 286 NRDLQAMVKEGTFREDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIREL 365
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 602 ENVIERAVLLTRGNV-LQLSLPDiVLPEPETPPAATVVALEGE---------DEYQLIVRVLKETNGVVAgpkGAAQRLG 671
Cdd:PRK11361 366 SNVIERAVVMNSGPIiFSEDLPP-QIRQPVCNAGEVKTAPVGErnlkeeikrVEKRIIMEVLEQQEGNRT---RTALMLG 441
|
330
....*....|....*.
gi 16130638 672 LKRTTLLSRMKRLGID 687
Cdd:PRK11361 442 ISRRALMYKLQEYGID 457
|
|
| ntrC |
TIGR01818 |
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response ... |
361-684 |
8.00e-100 |
|
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: 313.98 E-value: 8.00e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 361 VDENLALTE----------QLNNVDSEFG---EIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSG 427
Cdd:TIGR01818 103 LDEAVTLVEralahaqeqvALPADAGEAEdsaELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSP 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 428 RNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGS 507
Cdd:TIGR01818 183 RANGPFIALNMAAIPKDLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGG 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 508 NKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLR 587
Cdd:TIGR01818 263 RTPIKVDVRIVAATHQNLEALVRQGKFREDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALE 342
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 588 TLSNMEWPGNVRELENVIERAVLLTRGNVLQLSLPDIVLPePETPPAATVVALEGED----------------------- 644
Cdd:TIGR01818 343 RLKQLRWPGNVRQLENLCRWLTVMASGDEVLVSDLPAELA-LTGRPASAPDSDGQDSwdealeawakqalsrgeqglldr 421
|
330 340 350 360
....*....|....*....|....*....|....*....|....*
gi 16130638 645 -----EYQLIVRVLKETNGvvaGPKGAAQRLGLKRTTLLSRMKRL 684
Cdd:TIGR01818 422 alpefERPLLEAALQHTRG---HKQEAAALLGWGRNTLTRKLKEL 463
|
|
| RNA_repair_RtcR |
NF038308 |
RNA repair transcriptional activator RtcR; |
369-677 |
2.39e-99 |
|
RNA repair transcriptional activator RtcR;
Pssm-ID: 468466 [Multi-domain] Cd Length: 527 Bit Score: 314.89 E-value: 2.39e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 369 EQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQ-SDSTVLILGETGTGKELIARAIHNLSGRNNR---RMVKMNCAAMPAG 444
Cdd:NF038308 169 EQAEAVSFLKSGIATRNAAFNRLIEQIERVALrSRAPILLTGPTGAGKSFLARRIYELKKRRHQvsgPFVEVNCATLRGD 248
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 445 LLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRD 524
Cdd:NF038308 249 LAMSELFGHVKGAFTGAQADRAGLLRAADGGTLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRD 328
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 525 LKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDS-----IPAETLRTLSNMEWPGNVR 599
Cdd:NF038308 329 LRQEVAEGRFREDLYARINLWTFRLPGLRERREDIEPNLDYELDRFARELGRQVRFnkearFRYLAFATSPEALWPGNFR 408
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 600 ELENVIERAVLLTRGNVLQLSLPDIVL---------PEPETPPAATVVALEGE--------DEYQL--IVRVLKETNGVV 660
Cdd:NF038308 409 ELSASVTRMATLADGGRITEELVEEEIarlraawqsAPAAADDDALADLLGGEqlaeldlfDRVQLaaVLRVCRQSRSLS 488
|
330
....*....|....*..
gi 16130638 661 AgpkGAAQRLGLKRTTL 677
Cdd:NF038308 489 A---AGRRLFGVSRQQK 502
|
|
| PRK10365 |
PRK10365 |
sigma-54-dependent response regulator transcription factor ZraR; |
343-683 |
4.01e-96 |
|
sigma-54-dependent response regulator transcription factor ZraR;
Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 303.88 E-value: 4.01e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 343 AVDNALAYQEIHRLKERLVdENLALTEQLNN-----VDSEFGeIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKEL 417
Cdd:PRK10365 100 ALDYLIKPLDFDNLQATLE-KALAHTHSIDAetpavTASQFG-MVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKEL 177
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 418 IARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVL 497
Cdd:PRK10365 178 VARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAI 257
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 498 QEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRN 577
Cdd:PRK10365 258 QEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKA 337
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 578 IDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVL---QLSLPDIVLPEPETPPAATVVALEGEDEyqLIVRVLK 654
Cdd:PRK10365 338 VKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEYIserELPLAIASTPIPLGQSQDIQPLVEVEKE--VILAALE 415
|
330 340
....*....|....*....|....*....
gi 16130638 655 ETNGvvaGPKGAAQRLGLKRTTLLSRMKR 683
Cdd:PRK10365 416 KTGG---NKTEAARQLGITRKTLLAKLSR 441
|
|
| phageshock_pspF |
TIGR02974 |
psp operon transcriptional activator PspF; Members of this protein family are PspF, the ... |
381-672 |
9.56e-95 |
|
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: 296.13 E-value: 9.56e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 381 IIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:TIGR02974 1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 461 ASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYY 540
Cdd:TIGR02974 81 AQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADLLD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 541 RLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDS-IPAETLRTLSNMEWPGNVRELENVIERAVLltRGNVLQL 619
Cdd:TIGR02974 161 RLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPgFTPQAREQLLEYHWPGNVRELKNVVERSVY--RHGLEEA 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 620 SLPDIVL-------------------PEPETPPAATVVALEGED----------EYQLIVRVLKETNGvvaGPKGAAQRL 670
Cdd:TIGR02974 239 PIDEIIIdpfaspwrpkqaapavdevNSTPTDLPSPSSIAAAFPldlkqaqqdyEIELLQQALAEAQF---NQRKAAELL 315
|
..
gi 16130638 671 GL 672
Cdd:TIGR02974 316 GL 317
|
|
| TyrR |
COG3283 |
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ... |
367-642 |
1.16e-92 |
|
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];
Pssm-ID: 442513 [Multi-domain] Cd Length: 514 Bit Score: 297.10 E-value: 1.16e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 367 LTEQLNNV----DSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMP 442
Cdd:COG3283 188 LGEQLQALqvndDSGFDHIVASSPKMRQVIRQAKKMAMLDAPLLIQGETGTGKELLARACHLASPRGDKPFLALNCAALP 267
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 443 AGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATN 522
Cdd:COG3283 268 DDVAESELFGYAPGAFGNAREGKKGLFEQANGGTVFLDEIGEMSPQLQAKLLRFLQDGTFRRVGEEQEVKVDVRVICATQ 347
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 523 RDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNVRELE 602
Cdd:COG3283 348 KDLAELVQEGEFREDLYYRLNVLTLTLPPLRERKSDILPLAEHFVARFSQQLGRPRPRLSPDLVDFLQSYPWPGNVRQLE 427
|
250 260 270 280
....*....|....*....|....*....|....*....|
gi 16130638 603 NVIERAVLLTRGNVLQLSlpDIVLPEPETPPAATVVALEG 642
Cdd:COG3283 428 NALYRAVSLLEGDELTPE--DLQLPEYAASAGLLDDLLEG 465
|
|
| PRK15115 |
PRK15115 |
response regulator GlrR; Provisional |
361-680 |
1.26e-89 |
|
response regulator GlrR; Provisional
Pssm-ID: 185070 [Multi-domain] Cd Length: 444 Bit Score: 287.12 E-value: 1.26e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 361 VDENLALTEQLNNvDSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAA 440
Cdd:PRK15115 117 IDDALEQSAPATD-ERWREAIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGA 195
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 441 MPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAA 520
Cdd:PRK15115 196 LPEQLLESELFGHARGAFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISA 275
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 521 TNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNVRE 600
Cdd:PRK15115 276 THRDLPKAMARGEFREDLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQ 355
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 601 LENVIERAVLLTRGNVLQLSLPDIVLpEPETPPAATVVALEGEDEYQLIVRVLKETNGVVAgpkGAAQRLGLKRT---TL 677
Cdd:PRK15115 356 LVNVIEQCVALTSSPVISDALVEQAL-EGENTALPTFVEARNQFELNYLRKLLQITKGNVT---HAARMAGRNRTefyKL 431
|
...
gi 16130638 678 LSR 680
Cdd:PRK15115 432 LSR 434
|
|
| PRK15424 |
PRK15424 |
propionate catabolism operon regulatory protein PrpR; Provisional |
376-683 |
1.33e-81 |
|
propionate catabolism operon regulatory protein PrpR; Provisional
Pssm-ID: 237963 [Multi-domain] Cd Length: 538 Bit Score: 268.90 E-value: 1.33e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 376 SEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIH--------NLSGRNNRRMVKMNCAAMPAGLLE 447
Cdd:PRK15424 216 YVLGDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHreyfarhdARQGKKSHPFVAVNCGAIAESLLE 295
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 448 SDLFGHERGAFTGAS-AQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLK 526
Cdd:PRK15424 296 AELFGYEEGAFTGSRrGGRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLE 375
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 527 KMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFtfkiARRLGRNIDSIPAETLR--------TLSNMEWPGNV 598
Cdd:PRK15424 376 EDVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESF----LKQSLAALSAPFSAALRqglqqcetLLLHYDWPGNV 451
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 599 RELENVIER-AVLLTRGNVLQLSLPDIVLPEPETPPAATVVAlEGEDEYQLIVRVLKETNGVVAgpkGAAQRLGLKRTTL 677
Cdd:PRK15424 452 RELRNLMERlALFLSVEPTPDLTPQFLQLLLPELARESAKTP-APRLLAATLQQALERFNGDKT---AAANYLGISRTTL 527
|
....*.
gi 16130638 678 LSRMKR 683
Cdd:PRK15424 528 WRRLKA 533
|
|
| glnG |
PRK10923 |
nitrogen regulation protein NR(I); Provisional |
330-687 |
8.77e-80 |
|
nitrogen regulation protein NR(I); Provisional
Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 261.73 E-value: 8.77e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 330 LNLLRQIAER-----VAIA-----VDNAL-AYQE---IHRLKERLVDENLALTE----------QLNN--VDSEFGEIIG 383
Cdd:PRK10923 63 LALLKQIKQRhpmlpVIIMtahsdLDAAVsAYQQgafDYLPKPFDIDEAVALVEraishyqeqqQPRNiqVNGPTTDIIG 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 384 RSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASA 463
Cdd:PRK10923 143 EAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANT 222
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 464 QRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLN 543
Cdd:PRK10923 223 IRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDLFHRLN 302
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 544 VFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGN-VLQLSLP 622
Cdd:PRK10923 303 VIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMAAGQeVLIQDLP 382
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 623 DIVL--PEPETPPA-------------ATVVALEG----------EDEYQLIVRVLKETNGvvaGPKGAAQRLGLKRTTL 677
Cdd:PRK10923 383 GELFesTVPESTSQmqpdswatllaqwADRALRSGhqnllseaqpELERTLLTTALRHTQG---HKQEAARLLGWGRNTL 459
|
410
....*....|
gi 16130638 678 LSRMKRLGID 687
Cdd:PRK10923 460 TRKLKELGME 469
|
|
| propionate_PrpR |
TIGR02329 |
propionate catabolism operon regulatory protein PrpR; At least five distinct pathways exists ... |
337-682 |
2.97e-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: 259.41 E-value: 2.97e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 337 AERVAIAVDNALAYQEIHRLKERLVDENLalTEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKE 416
Cdd:TIGR02329 172 ADSVRQAFDDALDVARATRLRQAATLRSA--TRNQLRTRYRLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKE 249
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 417 LIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGA-SAQRIGRFELADKSSLFLDEVGDMPLELQPKLLR 495
Cdd:TIGR02329 250 LVAQAIHQLSGRRDFPFVAINCGAIAESLLEAELFGYEEGAFTGArRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLR 329
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 496 VLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLG 575
Cdd:TIGR02329 330 VLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAAAALR 409
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 576 RNIDSIPAETLRT----LSNMEWPGNVRELENVIERAVLLTRG--------NVLQLSLPDIVLPEPETPPAATVVALEGE 643
Cdd:TIGR02329 410 LPDSEAAAQVLAGvadpLQRYPWPGNVRELRNLVERLALELSAmpagaltpDVLRALAPELAEASGKGKTSALSLRERSR 489
|
330 340 350
....*....|....*....|....*....|....*....
gi 16130638 644 DEYQLIVRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMK 682
Cdd:TIGR02329 490 VEALAVRAALERFGGDRD---AAAKALGISRTTLWRRLK 525
|
|
| pspF |
PRK11608 |
phage shock protein operon transcriptional activator; Provisional |
381-686 |
6.87e-78 |
|
phage shock protein operon transcriptional activator; Provisional
Pssm-ID: 236936 [Multi-domain] Cd Length: 326 Bit Score: 251.90 E-value: 6.87e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 381 IIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:PRK11608 8 LLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTG 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 461 ASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYY 540
Cdd:PRK11608 88 AQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGKFRADLLD 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 541 RLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNI-DSIPAETLRTLSNMEWPGNVRELENVIERAVLltRGNVLQL 619
Cdd:PRK11608 168 RLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLfPGFTERARETLLNYRWPGNIRELKNVVERSVY--RHGTSEY 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 620 SLPDIVL-------PEPETPPAATVV---------ALEGEDEYQLIVRVLKETNgvvAGPKGAAQRLGLKRTTLLSRMKR 683
Cdd:PRK11608 246 PLDNIIIdpfkrrpAEEAIAVSETTSlptlpldlrEWQHQQEKELLQRSLQQAK---FNQKRAAELLGLTYHQLRALLKK 322
|
...
gi 16130638 684 LGI 686
Cdd:PRK11608 323 HQI 325
|
|
| PRK10820 |
PRK10820 |
transcriptional regulator TyrR; |
373-642 |
3.30e-68 |
|
transcriptional regulator TyrR;
Pssm-ID: 236769 [Multi-domain] Cd Length: 520 Bit Score: 232.65 E-value: 3.30e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 373 NVDSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFG 452
Cdd:PRK10820 198 NDDSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFG 277
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 453 HERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADR 532
Cdd:PRK10820 278 HAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQKG 357
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 533 EFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLT 612
Cdd:PRK10820 358 EFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALTQL 437
|
250 260 270
....*....|....*....|....*....|
gi 16130638 613 RGNvlQLSLPDIVLPEPETPPAATVVALEG 642
Cdd:PRK10820 438 EGY--ELRPQDILLPDYDAAVAVGEDAMEG 465
|
|
| PRK11388 |
PRK11388 |
DNA-binding transcriptional regulator DhaR; Provisional |
368-689 |
2.78e-62 |
|
DNA-binding transcriptional regulator DhaR; Provisional
Pssm-ID: 183114 [Multi-domain] Cd Length: 638 Bit Score: 219.16 E-value: 2.78e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 368 TEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLE 447
Cdd:PRK11388 314 TSQLGKVSHTFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALA 393
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 448 SDLFGherGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKK 527
Cdd:PRK11388 394 EEFLG---SDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAM 470
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 528 MVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIdSIPAETLRTLSNMEWPGNVRELENVIER 607
Cdd:PRK11388 471 LVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRL-KIDDDALARLVSYRWPGNDFELRSVIEN 549
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 608 AVLLTRGNVLQLS-LPDIVLPE-----PETPPAATVVALEgEDEYQLIVRVLKETNGVVagpKGAAQRLGLKRTTLLSRM 681
Cdd:PRK11388 550 LALSSDNGRIRLSdLPEHLFTEqatddVSATRLSTSLSLA-ELEKEAIINAAQVCGGRI---QEMAALLGIGRTTLWRKM 625
|
....*...
gi 16130638 682 KRLGIDKS 689
Cdd:PRK11388 626 KQHGIDAG 633
|
|
| RtcR |
COG4650 |
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a ... |
384-607 |
8.05e-44 |
|
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: 165.39 E-value: 8.05e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 384 RSEAMYSVLKQVEMVA-QSDSTVLILGETGTGKELIARAI-------HNLSGRnnrrMVKMNCA------AMpaglleSD 449
Cdd:COG4650 189 RNAAFNRLIEQIERVAiRSRAPILLTGPTGAGKSQLARRIyelkkarHQVSGR----FVEVNCAtlrgdgAM------SA 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 450 LFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMV 529
Cdd:COG4650 259 LFGHVKGAFTGAVSDRAGLLRSADGGVLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRDLRQEV 338
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 530 ADREFRSDLYYRLNVFPIHLPPLRERPEDIP-----LLAKAftfkiARRLGRNIdSIPAETLR------TLSNMEWPGNV 598
Cdd:COG4650 339 AEGRFREDLLARINLWTFRLPGLAERREDIEpnldyELARF-----AREQGRRV-RFNKEARArylafaTSPEALWSGNF 412
|
....*....
gi 16130638 599 RELENVIER 607
Cdd:COG4650 413 RDLNASVTR 421
|
|
| PspF |
COG1221 |
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ... |
405-605 |
2.93e-31 |
|
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: 130.61 E-value: 2.93e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 405 VLILGETGTGKELIARAIHNLSGRNNRR-----MVKMNCA--AMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSL 477
Cdd:COG1221 133 TLILGPTGVGKSFFAELMYEYAIEIGVLpedapFVVFNCAdyANNPQLLMSQLFGYVKGAFTGADKDKEGLIEKADGGIL 212
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 478 FLDEVGDMPLELQPKLLRVLQEQEFERLG-SNKIIQTDVRLIAATNRDLKkmvadrefrSDLyyrLNVF----P--IHLP 550
Cdd:COG1221 213 FLDEVHRLPPEGQEMLFTFMDKGIYRRLGeTEKTRKANVRIIFATTEDPE---------SSL---LKTFlrriPmvIKLP 280
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 16130638 551 PLRERP--EDIPLLaKAFtFKI-ARRLGRNIdSIPAETLRTLSNMEWPGNVRELENVI 605
Cdd:COG1221 281 SLEERSleERLELI-KHF-FKEeAKRLNKPI-KVSKEVLKALLLYDCPGNIGQLKSDI 335
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
386-551 |
8.57e-24 |
|
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: 97.99 E-value: 8.57e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 386 EAMYSVLKQVeMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHErgaftgASAQR 465
Cdd:cd00009 4 EEAIEALREA-LELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF------LVRLL 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 466 IGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERlgsnkIIQTDVRLIAATNRDLkkmvaDREFRSDLYYRLNVf 545
Cdd:cd00009 77 FELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLR-----IDRENVRVIGATNRPL-----LGDLDRALYDRLDI- 145
|
....*.
gi 16130638 546 PIHLPP 551
Cdd:cd00009 146 RIVIPL 151
|
|
| GAF |
smart00065 |
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
202-354 |
7.50e-23 |
|
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: 95.14 E-value: 7.50e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 202 DMDELVSEVAKEIHYYFDIDDISIVLRSHrkNKLNIYSTHYLDKQHPAHEQSEVDEAGTLTERVFKSKEMLLINLHERDD 281
Cdd:smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDE--NDRGELVLVAADGLTLPTLGIRFPLDEGLAGRVAETGRPLNIPDVEADP 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16130638 282 LAPYERMLFDTWgnqIQTLCLLPLMSGDTMLGVLKLAQCEE-KVFTTTNLNLLRQIAERVAIAVDNALAYQEIH 354
Cdd:smart00065 79 LFAEDLLGRYQG---VRSFLAVPLVADGELVGVLALHNKKSpRPFTEEDEELLQALANQLAIALANAQLYEELR 149
|
|
| Sigma54_activ_2 |
pfam14532 |
Sigma-54 interaction domain; |
382-552 |
1.77e-22 |
|
Sigma-54 interaction domain;
Pssm-ID: 434021 [Multi-domain] Cd Length: 138 Bit Score: 93.56 E-value: 1.77e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 382 IGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESdlfghergaftga 461
Cdd:pfam14532 1 LGASAAIQEIKRRLEQAAQSTLPVFLTGEPGSGKEFCARYLHNPSTPWVQPFDIEYLAHAPLELLEQ------------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 462 saqrigrfelADKSSLFLDEVGDMPLELQPKLLRVLQEQEferlgsnkiiQTDVRLIAATNRDLKKMVADREFRSDLYYR 541
Cdd:pfam14532 68 ----------AKGGTLYLKDIADLSKALQKGLLLLLAKAE----------GYRVRLVCTSSKDLPQLAAAGLFDEQLYFE 127
|
170
....*....|.
gi 16130638 542 LNVFPIHLPPL 552
Cdd:pfam14532 128 LSALRLHVPPL 138
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
404-542 |
9.90e-14 |
|
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: 68.94 E-value: 9.90e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 404 TVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLES---DLFGHERGAFTGASAQRIgRFELADKSS---L 477
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQlllIIVGGKKASGSGELRLRL-ALALARKLKpdvL 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 16130638 478 FLDEVGDMpleLQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNR--DLKKMVADREFRSDLYYRL 542
Cdd:smart00382 83 ILDEITSL---LDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDekDLGPALLRRRFDRRIVLLL 146
|
|
| GAF |
smart00065 |
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
26-168 |
2.02e-12 |
|
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: 65.10 E-value: 2.02e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 26 DLASLCEALSQLVKRSALADNAAIVLWQAQTQRASYYASREKDTPIKYEDETVLAHGPVRSILSRPDTLHCSYEEFCETW 105
Cdd:smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDENDRGELVLVAADGLTLPTLGIRFPLDEGLAGRVAETGRPLNIPDVEADPLF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 16130638 106 pQLDAGGLYPKFGHYCLMPLAAEGHIFGGCEFIR-YDDRPWSEKEFNRLQTFTQIVSVVTEQIQ 168
Cdd:smart00065 81 -AEDLLGRYQGVRSFLAVPLVADGELVGVLALHNkKSPRPFTEEDEELLQALANQLAIALANAQ 143
|
|
| GAF |
COG2203 |
GAF domain [Signal transduction mechanisms]; |
182-687 |
1.58e-11 |
|
GAF domain [Signal transduction mechanisms];
Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 67.53 E-value: 1.58e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 182 RERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDDISIVLRSHRKNKLNIYSTHYLDKQHPAheqsEVDEAGTL 261
Cdd:COG2203 187 LELERLALLNEISQALRSALDLEELLQRILELAGELLGADRGAILLVDEDGGELELVAAPGLPEEELG----RLPLGEGL 262
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 262 TERVFKSKEMLLIN-LHERDDLAPYERMLFDTWGnqIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTNLNLLRQIAERV 340
Cdd:COG2203 263 AGRALRTGEPVVVNdASTDPRFAPSLRELLLALG--IRSLLCVPLLVDGRLIGVLALYSKEPRAFTEEDLELLEALADQA 340
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 341 AIAVDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIAR 420
Cdd:COG2203 341 AIAIERARLYEALEAALAALLQELALLRLLLDLELTLLRLRQLLLELLLALLLLLSLLGAELLLLLLDAADLSGLLALEG 420
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 421 AIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQ 500
Cdd:COG2203 421 LLLLDLLLLLLLLRRILLLRVLRRLLLGDEEGLVLLLALAELELLEILELLVLLAVILLALALLAALLLLLLLLLALLAL 500
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 501 EFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLAKAFTFKIARRLGRNIDS 580
Cdd:COG2203 501 SALAVLASLLLALLLLLLLLLLLLLLGLLAALAADLLLLAAALLEDLLILLLVLLLERELLTLVGVLLLLGLSVLLIELA 580
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 581 IPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVLQLSLPDIVLPEPETPPAATVVALEGEDEYQLIVRVLKETNGVV 660
Cdd:COG2203 581 LALILALALLELLLVAVGDLLLLERDLLLLLVLLVRLLLELLVVTLELTVLVVLAAVEDSALLLRLALALASLVLLRALL 660
|
490 500
....*....|....*....|....*..
gi 16130638 661 AGPKGAAQRLGLKRTTLLSRMKRLGID 687
Cdd:COG2203 661 ATELDLILDSSLLLGLLLLGALLLLGG 687
|
|
| PtsP |
COG3605 |
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; |
187-360 |
1.41e-10 |
|
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms];
Pssm-ID: 442824 [Multi-domain] Cd Length: 188 Bit Score: 61.07 E-value: 1.41e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 187 FRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDDISIVLRSHRKNKLNIYSTHYLDKQHPAHEQSEVDEaGtLTERVF 266
Cdd:COG3605 3 LKALRRISEAVASALDLDEALDRIVRRIAEALGVDVCSIYLLDPDGGRLELRATEGLNPEAVGKVRLPLGE-G-LVGLVA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 267 KSKEMLLInlherDDLAPYERMLF--DTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTNLNLLRQIAERVAIAV 344
Cdd:COG3605 81 ERGEPLNL-----ADAASHPRFKYfpETGEEGFRSFLGVPIIRRGRVLGVLVVQSREPREFTEEEVEFLVTLAAQLAEAI 155
|
170
....*....|....*.
gi 16130638 345 DNALAYQEIHRLKERL 360
Cdd:COG3605 156 ANAELLGELRAALAEL 171
|
|
| GAF |
pfam01590 |
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl ... |
202-344 |
1.91e-09 |
|
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: 56.33 E-value: 1.91e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 202 DMDELVSEVAKEIHYYFDIDDISIVLrshrknkLNIYSTHYLDKQHPAHEQSEVDEAGTLTERVFKSKEMLLINLHERDD 281
Cdd:pfam01590 1 DLEEILQTILEELRELLGADRCALYL-------PDADGLEYLPPGARWLKAAGLEIPPGTGVTVLRTGRPLVVPDAAGDP 73
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 16130638 282 LAPYERMLFDTWGnqIQTLCLLPLMSGDTMLGVLKLAQCEEKvFTTTNLNLLRQIAERVAIAV 344
Cdd:pfam01590 74 RFLDPLLLLRNFG--IRSLLAVPIIDDGELLGVLVLHHPRPP-FTEEELELLEVLADQVAIAL 133
|
|
| AAA_5 |
pfam07728 |
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
405-536 |
3.89e-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: 49.60 E-value: 3.89e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 405 VLILGETGTGKELIARAIHNLSGRNNRRMVkmncaAMPAGLLESDLFGH-----ERGAFTGASAQRIGRfelaDKSSLFL 479
Cdd:pfam07728 2 VLLVGPPGTGKTELAERLAAALSNRPVFYV-----QLTRDTTEEDLFGRrnidpGGASWVDGPLVRAAR----EGEIAVL 72
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16130638 480 DEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQ---TDVRLIAATN-RDLKKMVADREFRS 536
Cdd:pfam07728 73 DEINRANPDVLNSLLSLLDERRLLLPDGGELVKaapDGFRLIATMNpLDRGLNELSPALRS 133
|
|
| GAF_3 |
pfam13492 |
GAF domain; |
202-346 |
4.11e-06 |
|
GAF domain;
Pssm-ID: 433253 [Multi-domain] Cd Length: 129 Bit Score: 46.59 E-value: 4.11e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 202 DMDELVSEVAKEIHYYFDIDDISIVLRSHRKNKLNIYSTHyldKQHPAHEQSeVDEAGTLTERVFKSKEmllinlherdd 281
Cdd:pfam13492 1 SLDEILEALLKLLVRLLGAERAAVYLLDEDGNKLQVAAGY---DGEPDPSES-LDADSPLARRALSSGE----------- 65
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16130638 282 lAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTNLNLLRQIAERVAIAVDN 346
Cdd:pfam13492 66 -PISGLGSAGEDGLPDGPALVVPLVAGRRVIGVLALASSKPRAFDAEDLRLLESLAAQIATAIEN 129
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
405-523 |
1.05e-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: 45.28 E-value: 1.05e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 405 VLILGETGTGKELIARAIHNLSGRNnrrMVKMNCaampaglleSDLFGHergaFTGASAQRI-GRFELADKSS---LFLD 480
Cdd:pfam00004 1 LLLYGPPGTGKTTLAKAVAKELGAP---FIEISG---------SELVSK----YVGESEKRLrELFEAAKKLApcvIFID 64
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 16130638 481 EV-----------GDMPLELQPKLLRVLqeQEFERLGSNkiiqtdVRLIAATNR 523
Cdd:pfam00004 65 EIdalagsrgsggDSESRRVVNQLLTEL--DGFTSSNSK------VIVIAATNR 110
|
|
| GAF_2 |
pfam13185 |
GAF domain; The GAF domain is named after some of the proteins it is found in, including ... |
201-345 |
1.29e-05 |
|
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: 45.54 E-value: 1.29e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 201 LDMDELVSEVAKEIHYyFDIDDISIVLRSHRKNKLNIYSthYLDKQHPAHEQSEVDEAgtLTERVFKSKEMLLINLHERD 280
Cdd:pfam13185 2 ADLEELLDAVLEAAVE-LGASAVGFILLVDDDGRLAAWG--GAADELSAALDDPPGEG--LVGEALRTGRPVIVNDLAAD 76
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 16130638 281 DLAPYERMLfdtwGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTNLNLLRQIAERVAIAVD 345
Cdd:pfam13185 77 PAKKGLPAG----HAGLRSFLSVPLVSGGRVVGVLALGSNRPGAFDEEDLELLELLAEQAAIAIE 137
|
|
| GAF |
COG2203 |
GAF domain [Signal transduction mechanisms]; |
11-519 |
1.94e-05 |
|
GAF domain [Signal transduction mechanisms];
Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 47.88 E-value: 1.94e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 11 QQGLFDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQTQRASYYASRekDTPIKYEDETVLAHGPVRSILSR 90
Cdd:COG2203 192 LALLNEISQALRSALDLEELLQRILELAGELLGADRGAILLVDEDGGELELVAAP--GLPEEELGRLPLGEGLAGRALRT 269
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 91 PDTLHCS-YEEFCETWPQLDAGGLYPKFGHYCLMPLAAEGHIFGGCEFIRYDDRPWSEKEFNRLQTFTQIVSVVTEQIQS 169
Cdd:COG2203 270 GEPVVVNdASTDPRFAPSLRELLLALGIRSLLCVPLLVDGRLIGVLALYSKEPRAFTEEDLELLEALADQAAIAIERARL 349
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 170 RVVNNVDYELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDDISIVLRSHRKNKLNIYSTHYLDKQHPA 249
Cdd:COG2203 350 YEALEAALAALLQELALLRLLLDLELTLLRLRQLLLELLLALLLLLSLLGAELLLLLLDAADLSGLLALEGLLLLDLLLL 429
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 250 HEQSEVDEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEKVFTTTN 329
Cdd:COG2203 430 LLLLRRILLLRVLRRLLLGDEEGLVLLLALAELELLEILELLVLLAVILLALALLAALLLLLLLLLALLALSALAVLASL 509
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 330 LNLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDSTVLILG 409
Cdd:COG2203 510 LLALLLLLLLLLLLLLLGLLAALAADLLLLAAALLEDLLILLLVLLLERELLTLVGVLLLLGLSVLLIELALALILALAL 589
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 410 ETGTGKELIARAIHNLSGRNNRRMVkmnCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVGDMPLEL 489
Cdd:COG2203 590 LELLLVAVGDLLLLERDLLLLLVLL---VRLLLELLVVTLELTVLVVLAAVEDSALLLRLALALASLVLLRALLATELDL 666
|
490 500 510
....*....|....*....|....*....|
gi 16130638 490 QPKLLRVLQEQEFERLGSNKIIQTDVRLIA 519
Cdd:COG2203 667 ILDSSLLLGLLLLGALLLLGGGLALLLSIG 696
|
|
| RecA-like_protease |
cd19481 |
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
403-523 |
1.82e-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: 42.27 E-value: 1.82e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 403 STVLILGETGTGKELIARAIHNLSGRNnrrMVKMNCaampaglleSDLFgherGAFTGASAQRIGR-FELADKSS---LF 478
Cdd:cd19481 27 KGILLYGPPGTGKTLLAKALAGELGLP---LIVVKL---------SSLL----SKYVGESEKNLRKiFERARRLApciLF 90
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 16130638 479 LDEV------------GDMPLELQPKLLRVLQEQEferlGSNKIIqtdvrLIAATNR 523
Cdd:cd19481 91 IDEIdaigrkrdssgeSGELRRVLNQLLTELDGVN----SRSKVL-----VIAATNR 138
|
|
| RPT1 |
COG1222 |
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
405-523 |
5.99e-04 |
|
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 42.69 E-value: 5.99e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 405 VLILGETGTGKELIARAIHNLSGRNNRRMVkmncaamPAGLLESdlfghergaFTGASAQRIGR-FELADKSS---LFLD 480
Cdd:COG1222 115 VLLYGPPGTGKTLLAKAVAGELGAPFIRVR-------GSELVSK---------YIGEGARNVREvFELAREKApsiIFID 178
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 16130638 481 EV-------GDM--PLELQPKLLRVLQE-QEFERLGsnkiiqtDVRLIAATNR 523
Cdd:COG1222 179 EIdaiaarrTDDgtSGEVQRTVNQLLAElDGFESRG-------DVLIIAATNR 224
|
|
| SpoVK |
COG0464 |
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
405-611 |
1.75e-03 |
|
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: 41.44 E-value: 1.75e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 405 VLILGETGTGKELIARAIHNLSGRNnrrmvkmncaampagLLE---SDLFGhergAFTGASAQRIGR-FELADKSS---L 477
Cdd:COG0464 194 LLLYGPPGTGKTLLARALAGELGLP---------------LIEvdlSDLVS----KYVGETEKNLREvFDKARGLApcvL 254
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 478 FLDE----------VGDMPLElqpkllRVLQE--QEFERLGSnkiiqtDVRLIAATNRdlkKMVADREFRSdlyyRLN-V 544
Cdd:COG0464 255 FIDEadalagkrgeVGDGVGR------RVVNTllTEMEELRS------DVVVIAATNR---PDLLDPALLR----RFDeI 315
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 16130638 545 FPIHLPPLRERpedipllakaftFKIARRLGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLL 611
Cdd:COG0464 316 IFFPLPDAEER------------LEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQ 370
|
|
| HTH_8 |
pfam02954 |
Bacterial regulatory protein, Fis family; |
645-683 |
8.33e-03 |
|
Bacterial regulatory protein, Fis family;
Pssm-ID: 427077 [Multi-domain] Cd Length: 40 Bit Score: 34.68 E-value: 8.33e-03
10 20 30
....*....|....*....|....*....|....*....
gi 16130638 645 EYQLIVRVLKETNGVVagpKGAAQRLGLKRTTLLSRMKR 683
Cdd:pfam02954 5 EKELIEAALERTGGNK---SKAARLLGISRRTLYRKLKK 40
|
|
| PRK03992 |
PRK03992 |
proteasome-activating nucleotidase; Provisional |
405-523 |
9.67e-03 |
|
proteasome-activating nucleotidase; Provisional
Pssm-ID: 179699 [Multi-domain] Cd Length: 389 Bit Score: 39.05 E-value: 9.67e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16130638 405 VLILGETGTGKELIARAIHNlsgRNNRRMVKMncaampAGlleSDLFgHErgaFTGASAqRIGR--FELADK---SSLFL 479
Cdd:PRK03992 168 VLLYGPPGTGKTLLAKAVAH---ETNATFIRV------VG---SELV-QK---FIGEGA-RLVRelFELAREkapSIIFI 230
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*.
gi 16130638 480 DE---VGDMPL--------ELQPKLLRVLQEQE-FERLGsnkiiqtDVRLIAATNR 523
Cdd:PRK03992 231 DEidaIAAKRTdsgtsgdrEVQRTLMQLLAEMDgFDPRG-------NVKIIAATNR 279
|
|
| |
