|
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: 1397.26 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 4 TPMSDLGQQGLFDITRTLLQQPDLGALSDALTRLVRQSALADSAAIVLWHSATHRASYFSTRDNGKIFEYEDETFLAHGP 83
Cdd:PRK15429 1 TPMSDLGQQGLFDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQTQRASYYASREKGTPVKYEDETVLAHGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 84 VRRILSRPEALHCNFDQFRQAWPKLAESNLYHPFGHYSMLPLAVEGQIFGGCEFIRDTDQPWSEAEYERLHTFTQIVAVV 163
Cdd:PRK15429 81 VRRILSRPDTLHCSYEEFCETWPQLAAGGLYPKFGHYCLMPLAAEGHIFGGCEFIRYDDRPWSEKEFNRLQTFTQIVSVV 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 164 AEQIQSRVTNNVDYDLLSRERDNFRILVAITNAVLSRLDMDELVSEVSKEIHHYFKIDAISIALRGNRKGKLNIYSTHYL 243
Cdd:PRK15429 161 TEQIQSRVVNNVDYELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRKNKLNIYSTHYL 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 244 DEANPAHEQSEVDEAGTLSERVFKSKEILLLNLNEQDPVAPYERMLFNTWGNKIQTLCLLPLMSGNTMLGVLKLAQCDEA 323
Cdd:PRK15429 241 DKQHPAHEQSEVDEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMSGDTMLGVLKLAQCEEK 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 324 VFTTANLKLLRQIAERISIALDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSDAMYSVLKQVEMVAQSDS 403
Cdd:PRK15429 321 VFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSEAMYSVLKQVEMVAQSDS 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 404 TVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVG 483
Cdd:PRK15429 401 TVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAAMPAGLLESDLFGHERGAFTGASAQRIGRFELADKSSLFLDEVG 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 484 DMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLV 563
Cdd:PRK15429 481 DMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPIHLPPLRERPEDIPLLV 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 564 KAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNVLQLSLPEVTPSE--TTVTATELAKEGE 641
Cdd:PRK15429 561 KAFTFKIARRMGRNIDSIPAETLRTLSNMEWPGNVRELENVIERAVLLTRGNVLQLSLPDITLPEpeTPPAATVVAQEGE 640
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 515952225 642 DEYQLIMRVLKETNGVVAGPKGAAQRLGLKRTTLLSRMKRLGIDKE 687
Cdd:PRK15429 641 DEYQLIVRVLKETNGVVAGPKGAAQRLGLKRTTLLSRMKRLGIDKS 686
|
|
| RocR |
COG3829 |
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ... |
305-685 |
4.20e-163 |
|
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: 476.57 E-value: 4.20e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 305 LMSGNTMLGVLKLAQCDEAVFTTANLKLLRQIAERISIALDNALAY--------QEIHRLKERLVDENLaltEQLNNVDS 376
Cdd:COG3829 59 LIPNSPLLEVLKTGKPVTGVIQKTGGKGKTVIVTAIPIFEDGEVIGavetfrdiTELKRLERKLREEEL---ERGLSAKY 135
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 377 EFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERG 456
Cdd:COG3829 136 TFDDIIGKSPAMKELLELAKRVAKSDSTVLILGESGTGKELFARAIHNASPRRDGPFVAVNCAAIPENLLESELFGYEKG 215
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 457 AFTGASSQ-RLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFR 535
Cdd:COG3829 216 AFTGAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGTKPIPVDVRIIAATNRDLEEMVEEGRFR 295
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 536 SDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGN 615
Cdd:COG3829 296 EDLYYRLNVIPIHIPPLRERKEDIPLLAEHFLEKFNKKYGKNIKGISPEALELLLAYDWPGNVRELENVIERAVVLSEGD 375
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 515952225 616 VLQLS-----LPEVTPSETTVTATELAKEGED-EYQLIMRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMKRLGID 685
Cdd:COG3829 376 VITPEhlpeyLLEEAEAASAAEEGSLKEALEEvEKELIEEALEKTGGNKS---KAAKALGISRSTLYRKLKKYGIK 448
|
|
| AtoC |
COG2204 |
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
338-683 |
8.23e-137 |
|
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: 407.81 E-value: 8.23e-137
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 338 ERISIALDNALAyqeihrlKERLVDENLALteqlnnvdsefGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKEL 417
Cdd:COG2204 108 EELLAAVERALE-------RRRLRRENAED-----------SGLIGRSPAMQEVRRLIEKVAPSDATVLITGESGTGKEL 169
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 418 IARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVL 497
Cdd:COG2204 170 VARAIHRLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLALQAKLLRVL 249
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 498 QEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRN 577
Cdd:COG2204 250 QEREFERVGGNKPIPVDVRVIAATNRDLEELVEEGRFREDLYYRLNVFPIELPPLRERREDIPLLARHFLARFAAELGKP 329
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 578 IdSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNVLQLS-LPEVTPsettvtatelakegEDEYQLIMRVLKETNG 656
Cdd:COG2204 330 V-KLSPEALEALLAYDWPGNVRELENVIERAVILADGEVITAEdLPEALE--------------EVERELIERALEETGG 394
|
330 340
....*....|....*....|....*..
gi 515952225 657 VVagpKGAAQRLGLKRTTLLSRMKRLG 683
Cdd:COG2204 395 NV---SRAAELLGISRRTLYRKLKKYG 418
|
|
| PRK05022 |
PRK05022 |
nitric oxide reductase transcriptional regulator NorR; |
301-684 |
8.62e-128 |
|
nitric oxide reductase transcriptional regulator NorR;
Pssm-ID: 235331 [Multi-domain] Cd Length: 509 Bit Score: 387.99 E-value: 8.62e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 301 CL-LPLMSGNTMLGVLKLAQCDEAVFTTANLKLLRQIAERISIALDNALayqEIHRLkERLVDENLALTEQLNNVDSEFG 379
Cdd:PRK05022 112 CMgLPLFVDGRLIGALTLDALDPGQFDAFSDEELRALAALAAATLRNAL---LIEQL-ESQAELPQDVAEFLRQEALKEG 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 380 EIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFT 459
Cdd:PRK05022 188 EMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAALPESLAESELFGHVKGAFT 267
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 460 GASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLY 539
Cdd:PRK05022 268 GAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGRFRADLY 347
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 540 YRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMG-RNIdSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNV-- 616
Cdd:PRK05022 348 HRLSVFPLSVPPLRERGDDVLLLAGYFLEQNRARLGlRSL-RLSPAAQAALLAYDWPGNVRELEHVISRAALLARARGag 426
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 617 ---------LQLSLPEVTPSETTVTATELA-----KEGEDEYQ--LIMRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMK 680
Cdd:PRK05022 427 rivtleaqhLDLPAEVALPPPEAAAAPAAVvsqnlREATEAFQrqLIRQALAQHQGNWA---AAARALELDRANLHRLAK 503
|
....
gi 515952225 681 RLGI 684
Cdd:PRK05022 504 RLGL 507
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
304-617 |
3.08e-116 |
|
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: 359.03 E-value: 3.08e-116
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 304 PLMSGNTMLGVLKlAQCD---------EAVFTT--ANLkLLRQIAERISIALDNALAYQEIHRLKERLVDENLALTEQ-- 370
Cdd:TIGR01817 115 PIKADSETIGVLA-ADRDfrsrerleeEVRFLEmvANL-IGQTVRLHRLVAQRRERLIAEAVQLSKQLRDKAPEIARRrs 192
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 371 -LNNVdsefgeIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESD 449
Cdd:TIGR01817 193 gKEDG------IIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAKRPFVKVNCAALSETLLESE 266
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 450 LFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMV 529
Cdd:TIGR01817 267 LFGHEKGAFTGAIAQRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAV 346
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 530 ADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIdSIPAETLRTLSAMEWPGNVRELENVIERAV 609
Cdd:TIGR01817 347 AKGEFRADLYYRINVVPIFLPPLRERREDIPLLAEAFLEKFNRENGRPL-TITPSAIRVLMSCKWPGNVRELENCLERTA 425
|
....*...
gi 515952225 610 LLTRGNVL 617
Cdd:TIGR01817 426 TLSRSGTI 433
|
|
| AcoR |
COG3284 |
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription]; |
378-683 |
1.63e-115 |
|
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
Pssm-ID: 442514 [Multi-domain] Cd Length: 625 Bit Score: 360.37 E-value: 1.63e-115
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 378 FGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGA 457
Cdd:COG3284 320 LAALAGGDPAMRRALRRARRLADRDIPVLILGETGTGKELFARAIHAASPRADGPFVAVNCAAIPEELIESELFGYEPGA 399
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 458 FTGASSQ-RLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRS 536
Cdd:COG3284 400 FTGARRKgRPGKIEQADGGTLFLDEIGDMPLALQARLLRVLQEREVTPLGGTKPIPVDVRLIAATHRDLRELVAAGRFRE 479
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 537 DLYYRLNVFPICLPPLRERpEDIPLLVKAFTAKIARRMGRNidSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNV 616
Cdd:COG3284 480 DLYYRLNGLTLTLPPLRER-EDLPALIEHLLRELAAGRGPL--RLSPEALALLAAYPWPGNVRELRNVLRTALALADGGV 556
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 515952225 617 LQLS-LPE----VTPSETTVTATELAKEGEDEYQLIMRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMKRLG 683
Cdd:COG3284 557 ITVEdLPDelraELAAAAPAAAAPLTSLEEAERDAILRALRACGGNVS---AAARALGISRSTLYRKLKRYG 625
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
381-547 |
2.06e-105 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 317.42 E-value: 2.06e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 381 IIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:pfam00158 1 IIGESPAMQEVLEQAKRVAPTDAPVLITGESGTGKELFARAIHQLSPRADGPFVAVNCAAIPEELLESELFGHEKGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 461 ASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYY 540
Cdd:pfam00158 81 ADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFREDLYY 160
|
....*..
gi 515952225 541 RLNVFPI 547
Cdd:pfam00158 161 RLNVIPI 167
|
|
| PRK11361 |
PRK11361 |
acetoacetate metabolism transcriptional regulator AtoC; |
362-685 |
1.17e-102 |
|
acetoacetate metabolism transcriptional regulator AtoC;
Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 321.41 E-value: 1.17e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 362 DENLALTEQLNNvDSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAM 441
Cdd:PRK11361 127 KEIRHLHQALST-SWQWGHILTNSPAMMDICKDTAKIALSQASVLISGESGTGKELIARAIHYNSRRAKGPFIKVNCAAL 205
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 442 PAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAAT 521
Cdd:PRK11361 206 PESLLESELFGHEKGAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAAT 285
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 522 NRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVREL 601
Cdd:PRK11361 286 NRDLQAMVKEGTFREDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDIIDIDPMAMSLLTAWSWPGNIREL 365
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 602 ENVIERAVLLTRGNVL-------QLSLPEVTPSETTVTAT------ELAKegEDEYQLIMRVLKETNGVVAgpkGAAQRL 668
Cdd:PRK11361 366 SNVIERAVVMNSGPIIfsedlppQIRQPVCNAGEVKTAPVgernlkEEIK--RVEKRIIMEVLEQQEGNRT---RTALML 440
|
330
....*....|....*..
gi 515952225 669 GLKRTTLLSRMKRLGID 685
Cdd:PRK11361 441 GISRRALMYKLQEYGID 457
|
|
| PEP_resp_reg |
TIGR02915 |
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ... |
337-684 |
2.24e-102 |
|
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: 320.16 E-value: 2.24e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 337 AERISIALDNALAYQEIHRlkerlvdENLALTEQLNNvdSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKE 416
Cdd:TIGR02915 106 PDVLKLIVDRAFHLYTLET-------ENRRLQSALGG--TALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGKE 176
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 417 LIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRV 496
Cdd:TIGR02915 177 VLARALHQLSDRKDKRFVAINCAAIPENLLESELFGYEKGAFTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRF 256
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 497 LQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGR 576
Cdd:TIGR02915 257 LQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGTFREDLFYRIAEISITIPPLRSRDGDAVLLANAFLERFARELKR 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 577 NIDSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNV-----LQLSLPEVTPSETTVTATELAKEGEDEyqLIMRVL 651
Cdd:TIGR02915 337 KTKGFTDDALRALEAHAWPGNVRELENKVKRAVIMAEGNQitaedLGLDARERAETPLEVNLREVRERAERE--AVRKAI 414
|
330 340 350
....*....|....*....|....*....|...
gi 515952225 652 KETNGVVAgpkGAAQRLGLKRTTLLSRMKRLGI 684
Cdd:TIGR02915 415 ARVDGNIA---RAAELLGITRPTLYDLMKKHGI 444
|
|
| FhlA |
COG3604 |
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ... |
287-685 |
4.37e-101 |
|
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: 312.94 E-value: 4.37e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 287 RMLFNTWGNKIQTLCLLPLMSGNTMLGVLKLAQCDEAVFTTANLKLLRQIAERISIAldnalayqeihrlkerlvdenla 366
Cdd:COG3604 63 ARQAALAARERQLFLGVPLRVGGEVLGVLTLDSRRPGAFSEEDLRLLETLASLAAVA----------------------- 119
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 367 lteqlnnvdsefgeiigrsdamysvlkqvemvaqsdstvlILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLL 446
Cdd:COG3604 120 ----------------------------------------ILGETGTGKELVANAIHELSPRADKPFVKVNCAALPESLL 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 447 ESdlfghergaftgassqrlgrfeladksslfldevgdmplelqpkllrvLQEQEFERLGSNKLIQTDVRLIAATNRDLK 526
Cdd:COG3604 160 ES------------------------------------------------LQEGEFERVGGDETIKVDVRIIAATNRDLE 191
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 527 KMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRELENVIE 606
Cdd:COG3604 192 EEVAEGRFREDLYYRLNVFPIRLPPLRERREDIPLLAEHFLEKFSRRLGKPILRLSPEALEALMAYPWPGNVRELENVIE 271
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 515952225 607 RAVLLTRGNVLQLSLPEVTPSETTvtatelakeGEDEYQLIMRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMKRLGID 685
Cdd:COG3604 272 RAVILAEGGVLDADDLAPGSREAL---------EEVEREHILEALERTGGNIA---GAARLLGLTPSTLRSRMKKLGIK 338
|
|
| ntrC |
TIGR01818 |
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response ... |
361-682 |
7.75e-96 |
|
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: 303.58 E-value: 7.75e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 361 VDENLALTE----------QLNNVDSEFG---EIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSN 427
Cdd:TIGR01818 103 LDEAVTLVEralahaqeqvALPADAGEAEdsaELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHSP 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 428 RNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGS 507
Cdd:TIGR01818 183 RANGPFIALNMAAIPKDLIESELFGHEKGAFTGANTRRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGG 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 508 NKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLR 587
Cdd:TIGR01818 263 RTPIKVDVRIVAATHQNLEALVRQGKFREDLFHRLNVIRIHLPPLRERREDIPRLARHFLALAARELDVEPKLLDPEALE 342
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 588 TLSAMEWPGNVRELENVIERAVLLTRGNVLQLSL--PEVTPSETTVTA-------------------------TELAKEG 640
Cdd:TIGR01818 343 RLKQLRWPGNVRQLENLCRWLTVMASGDEVLVSDlpAELALTGRPASApdsdgqdswdealeawakqalsrgeQGLLDRA 422
|
330 340 350 360
....*....|....*....|....*....|....*....|....
gi 515952225 641 EDEYQ--LIMRVLKETNGvvaGPKGAAQRLGLKRTTLLSRMKRL 682
Cdd:TIGR01818 423 LPEFErpLLEAALQHTRG---HKQEAAALLGWGRNTLTRKLKEL 463
|
|
| RNA_repair_RtcR |
NF038308 |
RNA repair transcriptional activator RtcR; |
369-689 |
6.09e-95 |
|
RNA repair transcriptional activator RtcR;
Pssm-ID: 468466 [Multi-domain] Cd Length: 527 Bit Score: 303.33 E-value: 6.09e-95
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 369 EQLNNVDSEFGEIIGRSDAMYSVLKQVEMVAQ-SDSTVLILGETGTGKELIARAIHNLS---NRNSRRMVKMNCAAMPAG 444
Cdd:NF038308 169 EQAEAVSFLKSGIATRNAAFNRLIEQIERVALrSRAPILLTGPTGAGKSFLARRIYELKkrrHQVSGPFVEVNCATLRGD 248
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 445 LLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRD 524
Cdd:NF038308 249 LAMSELFGHVKGAFTGAQADRAGLLRAADGGTLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRD 328
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 525 LKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDS-----IPAETLRTLSAMEWPGNVR 599
Cdd:NF038308 329 LRQEVAEGRFREDLYARINLWTFRLPGLRERREDIEPNLDYELDRFARELGRQVRFnkearFRYLAFATSPEALWPGNFR 408
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 600 ELENVIERAVLLTRGNVLQLSLPE-----------VTPSETTVTATELAKEGE--------DEYQL--IMRVLKETNGVV 658
Cdd:NF038308 409 ELSASVTRMATLADGGRITEELVEeeiarlraawqSAPAAADDDALADLLGGEqlaeldlfDRVQLaaVLRVCRQSRSLS 488
|
330 340 350 360
....*....|....*....|....*....|....*....|
gi 515952225 659 AgpkGAAQRLGLKRTTLLS-----RMK----RLGIDKESL 689
Cdd:NF038308 489 A---AGRRLFGVSRQQKASpndadRLRkylaRFGLSWEDI 525
|
|
| PRK10365 |
PRK10365 |
sigma-54-dependent response regulator transcription factor ZraR; |
343-681 |
6.53e-94 |
|
sigma-54-dependent response regulator transcription factor ZraR;
Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 298.10 E-value: 6.53e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 343 ALDNALAYQEIHRLKERLVdENLALTEQLNN-----VDSEFGeIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKEL 417
Cdd:PRK10365 100 ALDYLIKPLDFDNLQATLE-KALAHTHSIDAetpavTASQFG-MVGKSPAMQHLLSEIALVAPSEATVLIHGDSGTGKEL 177
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 418 IARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVL 497
Cdd:PRK10365 178 VARAIHASSARSEKPLVTLNCAALNESLLESELFGHEKGAFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAI 257
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 498 QEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRN 577
Cdd:PRK10365 258 QEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQDLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAERNRKA 337
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 578 IDSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNVL---QLSLPEVTPSETTVTATELAKEGEDEYQLIMRVLKET 654
Cdd:PRK10365 338 VKGFTPQAMDLLIHYDWPGNIRELENAVERAVVLLTGEYIserELPLAIASTPIPLGQSQDIQPLVEVEKEVILAALEKT 417
|
330 340
....*....|....*....|....*..
gi 515952225 655 NGvvaGPKGAAQRLGLKRTTLLSRMKR 681
Cdd:PRK10365 418 GG---NKTEAARQLGITRKTLLAKLSR 441
|
|
| phageshock_pspF |
TIGR02974 |
psp operon transcriptional activator PspF; Members of this protein family are PspF, the ... |
381-609 |
5.51e-92 |
|
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: 288.81 E-value: 5.51e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 381 IIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:TIGR02974 1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYLSKRWQGPLVKLNCAALSENLLDSELFGHEAGAFTG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 461 ASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYY 540
Cdd:TIGR02974 81 AQKRHQGRFERADGGTLFLDELATASLLVQEKLLRVIEYGEFERVGGSQTLQVDVRLVCATNADLPALAAEGRFRADLLD 160
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 541 RLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDS-IPAETLRTLSAMEWPGNVRELENVIERAV 609
Cdd:TIGR02974 161 RLAFDVITLPPLRERQEDIMLLAEHFAIRMARELGLPLFPgFTPQAREQLLEYHWPGNVRELKNVVERSV 230
|
|
| TyrR |
COG3283 |
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ... |
367-631 |
1.45e-90 |
|
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];
Pssm-ID: 442513 [Multi-domain] Cd Length: 514 Bit Score: 291.32 E-value: 1.45e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 367 LTEQLNNV----DSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMP 442
Cdd:COG3283 188 LGEQLQALqvndDSGFDHIVASSPKMRQVIRQAKKMAMLDAPLLIQGETGTGKELLARACHLASPRGDKPFLALNCAALP 267
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 443 AGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATN 522
Cdd:COG3283 268 DDVAESELFGYAPGAFGNAREGKKGLFEQANGGTVFLDEIGEMSPQLQAKLLRFLQDGTFRRVGEEQEVKVDVRVICATQ 347
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 523 RDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRELE 602
Cdd:COG3283 348 KDLAELVQEGEFREDLYYRLNVLTLTLPPLRERKSDILPLAEHFVARFSQQLGRPRPRLSPDLVDFLQSYPWPGNVRQLE 427
|
250 260 270
....*....|....*....|....*....|..
gi 515952225 603 NVIERAVLLTRGNVL---QLSLPEVTPSETTV 631
Cdd:COG3283 428 NALYRAVSLLEGDELtpeDLQLPEYAASAGLL 459
|
|
| PRK15115 |
PRK15115 |
response regulator GlrR; Provisional |
361-678 |
4.36e-89 |
|
response regulator GlrR; Provisional
Pssm-ID: 185070 [Multi-domain] Cd Length: 444 Bit Score: 285.58 E-value: 4.36e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 361 VDENLALTEQLNNvDSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAA 440
Cdd:PRK15115 117 IDDALEQSAPATD-ERWREAIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNASPRASKPFIAINCGA 195
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 441 MPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAA 520
Cdd:PRK15115 196 LPEQLLESELFGHARGAFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISA 275
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 521 TNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRE 600
Cdd:PRK15115 276 THRDLPKAMARGEFREDLYYRLNVVSLKIPALAERTEDIPLLANHLLRQAAERHKPFVRAFSTDAMKRLMTASWPGNVRQ 355
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 601 LENVIERAVLLTRGNVLQLSLPE-VTPSETTVTATELAKEGEDEYQLIMRVLKETNGVVAgpkGAAQRLGLKRT---TLL 676
Cdd:PRK15115 356 LVNVIEQCVALTSSPVISDALVEqALEGENTALPTFVEARNQFELNYLRKLLQITKGNVT---HAARMAGRNRTefyKLL 432
|
..
gi 515952225 677 SR 678
Cdd:PRK15115 433 SR 434
|
|
| PRK15424 |
PRK15424 |
propionate catabolism operon regulatory protein PrpR; Provisional |
379-681 |
6.20e-80 |
|
propionate catabolism operon regulatory protein PrpR; Provisional
Pssm-ID: 237963 [Multi-domain] Cd Length: 538 Bit Score: 264.27 E-value: 6.20e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 379 GEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIH--------NLSNRNSRRMVKMNCAAMPAGLLESDL 450
Cdd:PRK15424 219 GDLLGQSPQMEQVRQTILLYARSSAAVLIQGETGTGKELAAQAIHreyfarhdARQGKKSHPFVAVNCGAIAESLLEAEL 298
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 451 FGHERGAFTGasSQRLGR---FELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKK 527
Cdd:PRK15424 299 FGYEEGAFTG--SRRGGRaglFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLEE 376
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 528 MVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFtakiARRMGRNIDSIPAETLR--------TLSAMEWPGNVR 599
Cdd:PRK15424 377 DVRQGRFRRDLFYRLSILRLQLPPLRERVADILPLAESF----LKQSLAALSAPFSAALRqglqqcetLLLHYDWPGNVR 452
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 600 ELENVIERAVLLTRGNvlqlSLPEVTPSETTVTATELAKEGED------EYQLIMRVLKETNGVVAgpkGAAQRLGLKRT 673
Cdd:PRK15424 453 ELRNLMERLALFLSVE----PTPDLTPQFLQLLLPELARESAKtpaprlLAATLQQALERFNGDKT---AAANYLGISRT 525
|
....*...
gi 515952225 674 TLLSRMKR 681
Cdd:PRK15424 526 TLWRRLKA 533
|
|
| glnG |
PRK10923 |
nitrogen regulation protein NR(I); Provisional |
330-685 |
1.34e-78 |
|
nitrogen regulation protein NR(I); Provisional
Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 258.65 E-value: 1.34e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 330 LKLLRQIAER-------ISIA---LDNAL-AYQE---IHRLKERLVDENLALTE----------QLNN--VDSEFGEIIG 383
Cdd:PRK10923 63 LALLKQIKQRhpmlpviIMTAhsdLDAAVsAYQQgafDYLPKPFDIDEAVALVEraishyqeqqQPRNiqVNGPTTDIIG 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 384 RSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASS 463
Cdd:PRK10923 143 EAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANT 222
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 464 QRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLN 543
Cdd:PRK10923 223 IRQGRFEQADGGTLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDLFHRLN 302
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 544 VFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGN-VLQLSLP 622
Cdd:PRK10923 303 VIRVHLPPLRERREDIPRLARHFLQVAARELGVEAKLLHPETEAALTRLAWPGNVRQLENTCRWLTVMAAGQeVLIQDLP 382
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 623 ----EVTPSETTVT-------------ATELAKEG----------EDEYQLIMRVLKETNGvvaGPKGAAQRLGLKRTTL 675
Cdd:PRK10923 383 gelfESTVPESTSQmqpdswatllaqwADRALRSGhqnllseaqpELERTLLTTALRHTQG---HKQEAARLLGWGRNTL 459
|
410
....*....|
gi 515952225 676 LSRMKRLGID 685
Cdd:PRK10923 460 TRKLKELGME 469
|
|
| propionate_PrpR |
TIGR02329 |
propionate catabolism operon regulatory protein PrpR; At least five distinct pathways exists ... |
337-680 |
3.99e-77 |
|
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: 256.33 E-value: 3.99e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 337 AERISIALDNALAYQEIHRLKERLVDENLalTEQLNNVDSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKE 416
Cdd:TIGR02329 172 ADSVRQAFDDALDVARATRLRQAATLRSA--TRNQLRTRYRLDDLLGASAPMEQVRALVRLYARSDATVLILGESGTGKE 249
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 417 LIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGA-SSQRLGRFELADKSSLFLDEVGDMPLELQPKLLR 495
Cdd:TIGR02329 250 LVAQAIHQLSGRRDFPFVAINCGAIAESLLEAELFGYEEGAFTGArRGGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLR 329
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 496 VLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMG 575
Cdd:TIGR02329 330 VLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQGRFRRDLFYRLSILRIALPPLRERPGDILPLAAEYLVQAAAALR 409
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 576 RNIDSIPAETLRT----LSAMEWPGNVRELENVIERAVLLTRG--------NVLQLSLPEV--TPSETTVTATELAKEGE 641
Cdd:TIGR02329 410 LPDSEAAAQVLAGvadpLQRYPWPGNVRELRNLVERLALELSAmpagaltpDVLRALAPELaeASGKGKTSALSLRERSR 489
|
330 340 350
....*....|....*....|....*....|....*....
gi 515952225 642 DEYQLIMRVLKETNGVVAgpkGAAQRLGLKRTTLLSRMK 680
Cdd:TIGR02329 490 VEALAVRAALERFGGDRD---AAAKALGISRTTLWRRLK 525
|
|
| pspF |
PRK11608 |
phage shock protein operon transcriptional activator; Provisional |
381-684 |
8.63e-74 |
|
phage shock protein operon transcriptional activator; Provisional
Pssm-ID: 236936 [Multi-domain] Cd Length: 326 Bit Score: 241.11 E-value: 8.63e-74
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 381 IIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTG 460
Cdd:PRK11608 8 LLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAALNENLLDSELFGHEAGAFTG 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 461 ASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYY 540
Cdd:PRK11608 88 AQKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGKFRADLLD 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 541 RLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNI-DSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNVLQL 619
Cdd:PRK11608 168 RLAFDVVQLPPLRERQSDIMLMAEHFAIQMCRELGLPLfPGFTERARETLLNYRWPGNIRELKNVVERSVYRHGTSEYPL 247
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 620 SLPEVTPSETTVTATELAKEGED----------------EYQLIMRVLKETNgvvAGPKGAAQRLGLKRTTLLSRMKRLG 683
Cdd:PRK11608 248 DNIIIDPFKRRPAEEAIAVSETTslptlpldlrewqhqqEKELLQRSLQQAK---FNQKRAAELLGLTYHQLRALLKKHQ 324
|
.
gi 515952225 684 I 684
Cdd:PRK11608 325 I 325
|
|
| PRK10820 |
PRK10820 |
transcriptional regulator TyrR; |
373-640 |
2.82e-65 |
|
transcriptional regulator TyrR;
Pssm-ID: 236769 [Multi-domain] Cd Length: 520 Bit Score: 224.57 E-value: 2.82e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 373 NVDSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFG 452
Cdd:PRK10820 198 NDDSAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLRSPRGKKPFLALNCASIPDDVVESELFG 277
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 453 HERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADR 532
Cdd:PRK10820 278 HAPGAYPNALEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQKG 357
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 533 EFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRELENVIERAVLLT 612
Cdd:PRK10820 358 EFREDLYYRLNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVPRPKLAADLNTVLTRYGWPGNVRQLKNAIYRALTQL 437
|
250 260 270
....*....|....*....|....*....|.
gi 515952225 613 RGNVLQLS---LPEVtpsETTVTATELAKEG 640
Cdd:PRK10820 438 EGYELRPQdilLPDY---DAAVAVGEDAMEG 465
|
|
| PRK11388 |
PRK11388 |
DNA-binding transcriptional regulator DhaR; Provisional |
368-685 |
6.02e-62 |
|
DNA-binding transcriptional regulator DhaR; Provisional
Pssm-ID: 183114 [Multi-domain] Cd Length: 638 Bit Score: 218.39 E-value: 6.02e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 368 TEQLNNVDSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLE 447
Cdd:PRK11388 314 TSQLGKVSHTFDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNESERAAGPYIAVNCQLYPDEALA 393
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 448 SDLFGherGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKK 527
Cdd:PRK11388 394 EEFLG---SDRTDSENGRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAM 470
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 528 MVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIdSIPAETLRTLSAMEWPGNVRELENVIER 607
Cdd:PRK11388 471 LVEQNRFSRQLYYALHAFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRL-KIDDDALARLVSYRWPGNDFELRSVIEN 549
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 608 AVLLTRGNVLQLS-LPEVTPSETT---VTATELAKE---GEDEYQLIMRVLKETNGVVagpKGAAQRLGLKRTTLLSRMK 680
Cdd:PRK11388 550 LALSSDNGRIRLSdLPEHLFTEQAtddVSATRLSTSlslAELEKEAIINAAQVCGGRI---QEMAALLGIGRTTLWRKMK 626
|
....*
gi 515952225 681 RLGID 685
Cdd:PRK11388 627 QHGID 631
|
|
| RtcR |
COG4650 |
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a ... |
394-607 |
4.83e-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: 163.08 E-value: 4.83e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 394 QVEMVA-QSDSTVLILGETGTGKELIARAIHNLsnRNSRRMVK-----MNCA------AMpaglleSDLFGHERGAFTGA 461
Cdd:COG4650 199 QIERVAiRSRAPILLTGPTGAGKSQLARRIYEL--KKARHQVSgrfveVNCAtlrgdgAM------SALFGHVKGAFTGA 270
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 462 SSQRLGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYR 541
Cdd:COG4650 271 VSDRAGLLRSADGGVLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVSSDFQLIAGTNRDLRQEVAEGRFREDLLAR 350
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 515952225 542 LNVFPICLPPLRERPEDIPLLVKAFTAKIARRMGRNIdSIPAETLR------TLSAMEWPGNVRELENVIER 607
Cdd:COG4650 351 INLWTFRLPGLAERREDIEPNLDYELARFAREQGRRV-RFNKEARArylafaTSPEALWSGNFRDLNASVTR 421
|
|
| PspF |
COG1221 |
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ... |
405-605 |
8.04e-29 |
|
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: 122.91 E-value: 8.04e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 405 VLILGETGTGKELIARAIHNLSNRNSRR-----MVKMNCA--AMPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSL 477
Cdd:COG1221 133 TLILGPTGVGKSFFAELMYEYAIEIGVLpedapFVVFNCAdyANNPQLLMSQLFGYVKGAFTGADKDKEGLIEKADGGIL 212
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 478 FLDEVGDMPLELQPKLLRVLQEQEFERLG-SNKLIQTDVRLIAATNRDLKkmvadrefrSDLyyrLNVF----P--ICLP 550
Cdd:COG1221 213 FLDEVHRLPPEGQEMLFTFMDKGIYRRLGeTEKTRKANVRIIFATTEDPE---------SSL---LKTFlrriPmvIKLP 280
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 515952225 551 PLRERPEDIPL-LVKAFTAKIARRMGRNIdSIPAETLRTLSAMEWPGNVRELENVI 605
Cdd:COG1221 281 SLEERSLEERLeLIKHFFKEEAKRLNKPI-KVSKEVLKALLLYDCPGNIGQLKSDI 335
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
400-551 |
3.69e-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: 3.69e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 400 QSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHErgaftgASSQRLGRFELADKSSLFL 479
Cdd:cd00009 17 PPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF------LVRLLFELAEKAKPGVLFI 90
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 515952225 480 DEVGDMPLELQPKLLRVLQEQEFERLGSNkliqtDVRLIAATNRDLkkmvaDREFRSDLYYRLNVfPICLPP 551
Cdd:cd00009 91 DEIDSLSRGAQNALLRVLETLNDLRIDRE-----NVRVIGATNRPL-----LGDLDRALYDRLDI-RIVIPL 151
|
|
| Sigma54_activ_2 |
pfam14532 |
Sigma-54 interaction domain; |
382-552 |
3.14e-20 |
|
Sigma-54 interaction domain;
Pssm-ID: 434021 [Multi-domain] Cd Length: 138 Bit Score: 87.40 E-value: 3.14e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 382 IGRSDAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESdlfghergaftga 461
Cdd:pfam14532 1 LGASAAIQEIKRRLEQAAQSTLPVFLTGEPGSGKEFCARYLHNPSTPWVQPFDIEYLAHAPLELLEQ------------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 462 ssqrlgrfelADKSSLFLDEVGDMPLELQPKLLRVLQEQEferlgsnkliQTDVRLIAATNRDLKKMVADREFRSDLYYR 541
Cdd:pfam14532 68 ----------AKGGTLYLKDIADLSKALQKGLLLLLAKAE----------GYRVRLVCTSSKDLPQLAAAGLFDEQLYFE 127
|
170
....*....|.
gi 515952225 542 LNVFPICLPPL 552
Cdd:pfam14532 128 LSALRLHVPPL 138
|
|
| GAF |
smart00065 |
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
202-354 |
5.28e-20 |
|
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: 87.05 E-value: 5.28e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 202 DMDELVSEVSKEIHHYFKIDAISIALrgNRKGKLNIYSTHYLDEANPAHEQSEVDEAGTLSERVFKSKEILLLNLNEQDP 281
Cdd:smart00065 1 DLEELLQTILEELRQLLGADRVLIYL--VDENDRGELVLVAADGLTLPTLGIRFPLDEGLAGRVAETGRPLNIPDVEADP 78
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 515952225 282 VAPYERMLFNTWgnkIQTLCLLPLMSGNTMLGVLKLAQCDEA-VFTTANLKLLRQIAERISIALDNALAYQEIH 354
Cdd:smart00065 79 LFAEDLLGRYQG---VRSFLAVPLVADGELVGVLALHNKKSPrPFTEEDEELLQALANQLAIALANAQLYEELR 149
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
404-542 |
1.94e-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: 1.94e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 404 TVLILGETGTGKELIARAIHNLSNRNSRRMVKMNCAAMPAGLLES---DLFGHERGAFTGASSQRLgRFELADKSS---L 477
Cdd:smart00382 4 VILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQlllIIVGGKKASGSGELRLRL-ALALARKLKpdvL 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 515952225 478 FLDEVGDMpleLQPKLLRVLQEQEFERLGSNKLIQTDVRLIAATNR--DLKKMVADREFRSDLYYRL 542
Cdd:smart00382 83 ILDEITSL---LDAEQEALLLLLEELRLLLLLKSEKNLTVILTTNDekDLGPALLRRRFDRRIVLLL 146
|
|
| GAF |
COG2203 |
GAF domain [Signal transduction mechanisms]; |
17-690 |
1.40e-10 |
|
GAF domain [Signal transduction mechanisms];
Pssm-ID: 441805 [Multi-domain] Cd Length: 712 Bit Score: 64.44 E-value: 1.40e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 17 ITRTLLQQPDLGALSDALTRLVRQSALADSAAIVLWHSATHRASYFSTRDNGKIFEYEDETFLAHGPVRRILSRPEALHC 96
Cdd:COG2203 24 TLLLALLLLALQALERVLETTELALALELLLERLTELRAAARLAAEAAEAALLLILLIDALVLLSLVATAGLVLELADLL 103
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 97 NFDQFRQAWPKLAESNLYHPFGHYSMLPLAVEGQIFGGCEFIRDTDQPWSEAEYERLHTFTQIVAVVAEQIQSRVTNNVD 176
Cdd:COG2203 104 LLLRLLALLVLLLVALALAEALAARLLDLLLLGLGGRLRGVVLRGLRSAALLLSRVDTDLVGQLAALAGLILDIARLLTQ 183
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 177 YDLLSRERdnFRILVAITNAVLSRLDMDELVSEVSKEIHHYFKIDAISIALRGNRKGKLNIYSTHYLDEAnpahEQSEVD 256
Cdd:COG2203 184 RARLELER--LALLNEISQALRSALDLEELLQRILELAGELLGADRGAILLVDEDGGELELVAAPGLPEE----ELGRLP 257
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 257 EAGTLSERVFKSKEILLLN-LNEQDPVAPYERMLFNTWGnkIQTLCLLPLMSGNTMLGVLKLAQCDEAVFTTANLKLLRQ 335
Cdd:COG2203 258 LGEGLAGRALRTGEPVVVNdASTDPRFAPSLRELLLALG--IRSLLCVPLLVDGRLIGVLALYSKEPRAFTEEDLELLEA 335
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 336 IAERISIALDNALAYQEIHRLKERLVDENLALTEQLNNVDSEFGEIIGRSDAMYSVLKQVEMVAQSDSTVLILgetgtgk 415
Cdd:COG2203 336 LADQAAIAIERARLYEALEAALAALLQELALLRLLLDLELTLLRLRQLLLELLLALLLLLSLLGAELLLLLLD------- 408
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 416 ELIARAIHNLSNRNSRRMVKMNCAAMPAGLLESDLFGHERGAFTGASSQRLGRFELADKSSLFLDEVGDMPLELQPKLLR 495
Cdd:COG2203 409 AADLSGLLALEGLLLLDLLLLLLLLRRILLLRVLRRLLLGDEEGLVLLLALAELELLEILELLVLLAVILLALALLAALL 488
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 496 VLQEQEFERLGSNKLIQTDVRLIAATNRDLKKMVADREFRSDLYYRLNVFPICLPPLRERPEDIPLLVKAFTAKIARRMG 575
Cdd:COG2203 489 LLLLLLLALLALSALAVLASLLLALLLLLLLLLLLLLLGLLAALAADLLLLAAALLEDLLILLLVLLLERELLTLVGVLL 568
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 576 RNIDSIPAETLRTLSAMEWPGNVRELENVIERAVLLTRGNVLQLSLPEVTPSETTVTATELAKEGEDEYQLIMRVLKETN 655
Cdd:COG2203 569 LLGLSVLLIELALALILALALLELLLVAVGDLLLLERDLLLLLVLLVRLLLELLVVTLELTVLVVLAAVEDSALLLRLAL 648
|
650 660 670
....*....|....*....|....*....|....*
gi 515952225 656 GVVAGPKGAAQRLGLKRTTLLSRMKRLGIDKESLN 690
Cdd:COG2203 649 ALASLVLLRALLATELDLILDSSLLLGLLLLGALL 683
|
|
| GAF |
pfam01590 |
GAF domain; This domain is present in cGMP-specific phosphodiesterases, adenylyl and guanylyl ... |
202-344 |
3.64e-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: 58.26 E-value: 3.64e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 202 DMDELVSEVSKEIHHYFKIDAISIALrgnrkgkLNIYSTHYLDEANPAHEQSEVDEAGTLSERVFKSKEILLLNLNEQDP 281
Cdd:pfam01590 1 DLEEILQTILEELRELLGADRCALYL-------PDADGLEYLPPGARWLKAAGLEIPPGTGVTVLRTGRPLVVPDAAGDP 73
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 515952225 282 VAPYERMLFNTWGnkIQTLCLLPLMSGNTMLGVLKLAQCDEAvFTTANLKLLRQIAERISIAL 344
Cdd:pfam01590 74 RFLDPLLLLRNFG--IRSLLAVPIIDDGELLGVLVLHHPRPP-FTEEELELLEVLADQVAIAL 133
|
|
| PtsP |
COG3605 |
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; |
187-360 |
9.49e-10 |
|
Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms];
Pssm-ID: 442824 [Multi-domain] Cd Length: 188 Bit Score: 58.37 E-value: 9.49e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 187 FRILVAITNAVLSRLDMDELVSEVSKEIHHYFKIDAISIALRGNRKGKLNIYSTHYLDEANPAHEQSEVDEaGtLSERVF 266
Cdd:COG3605 3 LKALRRISEAVASALDLDEALDRIVRRIAEALGVDVCSIYLLDPDGGRLELRATEGLNPEAVGKVRLPLGE-G-LVGLVA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 267 KSKEILLLNLNEQDPVAPYERMlfnTWGNKIQTLCLLPLMSGNTMLGVLKLAQCDEAVFTTANLKLLRQIAERISIALDN 346
Cdd:COG3605 81 ERGEPLNLADAASHPRFKYFPE---TGEEGFRSFLGVPIIRRGRVLGVLVVQSREPREFTEEEVEFLVTLAAQLAEAIAN 157
|
170
....*....|....
gi 515952225 347 ALAYQEIHRLKERL 360
Cdd:COG3605 158 AELLGELRAALAEL 171
|
|
| AAA_5 |
pfam07728 |
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
405-536 |
1.07e-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: 1.07e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 405 VLILGETGTGKELIARAI-HNLSNRNSRRMvkmncaAMPAGLLESDLFGHERGAfTGASSQRLGRFELADKSS--LFLDE 481
Cdd:pfam07728 2 VLLVGPPGTGKTELAERLaAALSNRPVFYV------QLTRDTTEEDLFGRRNID-PGGASWVDGPLVRAAREGeiAVLDE 74
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*....
gi 515952225 482 VGDMPLELQPKLLRVLQEQEFERLGSNKLIQ---TDVRLIAATN-RDLKKMVADREFRS 536
Cdd:pfam07728 75 INRANPDVLNSLLSLLDERRLLLPDGGELVKaapDGFRLIATMNpLDRGLNELSPALRS 133
|
|
| GAF_2 |
pfam13185 |
GAF domain; The GAF domain is named after some of the proteins it is found in, including ... |
201-345 |
1.55e-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: 45.15 E-value: 1.55e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 201 LDMDELVSEVSKEIHHyFKIDAISIALRGNRKGKLNIYSthYLDEANPAHEQSEVDEAgtLSERVFKSKEILLLNLNEQD 280
Cdd:pfam13185 2 ADLEELLDAVLEAAVE-LGASAVGFILLVDDDGRLAAWG--GAADELSAALDDPPGEG--LVGEALRTGRPVIVNDLAAD 76
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 515952225 281 PVAPYERMLfntwGNKIQTLCLLPLMSGNTMLGVLKLAQCDEAVFTTANLKLLRQIAERISIALD 345
Cdd:pfam13185 77 PAKKGLPAG----HAGLRSFLSVPLVSGGRVVGVLALGSNRPGAFDEEDLELLELLAEQAAIAIE 137
|
|
| GAF_3 |
pfam13492 |
GAF domain; |
202-346 |
2.90e-05 |
|
GAF domain;
Pssm-ID: 433253 [Multi-domain] Cd Length: 129 Bit Score: 44.28 E-value: 2.90e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 202 DMDELVSEVSKEIHHYFKIDAISIALRGNRKGKLNIYSTHyldEANPAHEQSeVDEAGTLSERVFKSKEILLLNLNEQDP 281
Cdd:pfam13492 1 SLDEILEALLKLLVRLLGAERAAVYLLDEDGNKLQVAAGY---DGEPDPSES-LDADSPLARRALSSGEPISGLGSAGED 76
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 515952225 282 VAPYERMLFntwgnkiqtlclLPLMSGNTMLGVLKLAQCDEAVFTTANLKLLRQIAERISIALDN 346
Cdd:pfam13492 77 GLPDGPALV------------VPLVAGRRVIGVLALASSKPRAFDAEDLRLLESLAAQIATAIEN 129
|
|
| GAF |
smart00065 |
Domain present in phytochromes and cGMP-specific phosphodiesterases; Mutations within these ... |
26-168 |
5.49e-05 |
|
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: 43.91 E-value: 5.49e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 26 DLGALSDALTRLVRQSALADSAAIVLWHSATHRASYFSTRDNGKIFEYEDETFLAHGPVRRILSRPEALHCNFDQFRQAW 105
Cdd:smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDENDRGELVLVAADGLTLPTLGIRFPLDEGLAGRVAETGRPLNIPDVEADPLF 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 515952225 106 PKLAESnLYHPFGHYSMLPLAVEGQIFGGCEFIRDTDQ-PWSEAEYERLHTFTQIVAVVAEQIQ 168
Cdd:smart00065 81 AEDLLG-RYQGVRSFLAVPLVADGELVGVLALHNKKSPrPFTEEDEELLQALANQLAIALANAQ 143
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
405-523 |
8.74e-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: 42.58 E-value: 8.74e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 405 VLILGETGTGKELIARAIHNLSNRNsrrMVKMNCaampaglleSDLFGHergaFTGASSQRL-GRFELADKSS---LFLD 480
Cdd:pfam00004 1 LLLYGPPGTGKTTLAKAVAKELGAP---FIEISG---------SELVSK----YVGESEKRLrELFEAAKKLApcvIFID 64
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 515952225 481 EV-----------GDMPLELQPKLLRVLqeQEFERLGSNkliqtdVRLIAATNR 523
Cdd:pfam00004 65 EIdalagsrgsggDSESRRVVNQLLTEL--DGFTSSNSK------VIVIAATNR 110
|
|
| RPT1 |
COG1222 |
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ... |
405-523 |
1.80e-03 |
|
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];
Pssm-ID: 440835 [Multi-domain] Cd Length: 326 Bit Score: 41.15 E-value: 1.80e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 405 VLILGETGTGKELIARAIHNLSNRNSRRMVkmncaamPAGLLESdlfghergaFTGASSQRLGR-FELADKSS---LFLD 480
Cdd:COG1222 115 VLLYGPPGTGKTLLAKAVAGELGAPFIRVR-------GSELVSK---------YIGEGARNVREvFELAREKApsiIFID 178
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 515952225 481 EV-------GDM--PLELQPKLLRVLQE-QEFERLGsnkliqtDVRLIAATNR 523
Cdd:COG1222 179 EIdaiaarrTDDgtSGEVQRTVNQLLAElDGFESRG-------DVLIIAATNR 224
|
|
| RecA-like_protease |
cd19481 |
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
403-523 |
2.20e-03 |
|
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: 39.19 E-value: 2.20e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 403 STVLILGETGTGKELIARAIHNLSNRNsrrMVKMNCaampaglleSDLFgherGAFTGASSQRLGR-FELADKSS---LF 478
Cdd:cd19481 27 KGILLYGPPGTGKTLLAKALAGELGLP---LIVVKL---------SSLL----SKYVGESEKNLRKiFERARRLApciLF 90
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*..
gi 515952225 479 LDEV------------GDMPLELQPKLLRVLQEQEferlgsnklIQTDVRLIAATNR 523
Cdd:cd19481 91 IDEIdaigrkrdssgeSGELRRVLNQLLTELDGVN---------SRSKVLVIAATNR 138
|
|
| HTH_8 |
pfam02954 |
Bacterial regulatory protein, Fis family; |
643-681 |
3.39e-03 |
|
Bacterial regulatory protein, Fis family;
Pssm-ID: 427077 [Multi-domain] Cd Length: 40 Bit Score: 35.83 E-value: 3.39e-03
10 20 30
....*....|....*....|....*....|....*....
gi 515952225 643 EYQLIMRVLKETNGVVagpKGAAQRLGLKRTTLLSRMKR 681
Cdd:pfam02954 5 EKELIEAALERTGGNK---SKAARLLGISRRTLYRKLKK 40
|
|
| SpoVK |
COG0464 |
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
405-611 |
3.78e-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: 40.28 E-value: 3.78e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 405 VLILGETGTGKELIARAIHNLSNRNsrrmvkmncaampagLLE---SDLFGhergAFTGASSQRLGR-FELADKSS---L 477
Cdd:COG0464 194 LLLYGPPGTGKTLLARALAGELGLP---------------LIEvdlSDLVS----KYVGETEKNLREvFDKARGLApcvL 254
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 478 FLDEVgDmplelqpKLLRVLQE--QEFERLGSNKLIQ------TDVRLIAATNRdlkKMVADREFRSdlyyRLN-VFPIC 548
Cdd:COG0464 255 FIDEA-D-------ALAGKRGEvgDGVGRRVVNTLLTemeelrSDVVVIAATNR---PDLLDPALLR----RFDeIIFFP 319
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 515952225 549 LPPLRERpedipllvkaftAKIARRMGRNIDSIPAETLRTLSAMEWPGNVRELENVIERAVLL 611
Cdd:COG0464 320 LPDAEER------------LEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQ 370
|
|
| RecA-like_PAN_like |
cd19502 |
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ... |
405-523 |
4.82e-03 |
|
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which 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. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.
Pssm-ID: 410910 [Multi-domain] Cd Length: 171 Bit Score: 38.47 E-value: 4.82e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 515952225 405 VLILGETGTGKELIARAIHNLSNRNSRRMVKmncaampaglleSDLFgherGAFTGASSqRLGR--FELADK---SSLFL 479
Cdd:cd19502 40 VLLYGPPGTGKTLLAKAVANHTDATFIRVVG------------SELV----QKYIGEGA-RLVRelFEMAREkapSIIFI 102
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*...
gi 515952225 480 DEV-------------GDMplELQPKLLRVLQEQE-FERLGsnkliqtDVRLIAATNR 523
Cdd:cd19502 103 DEIdaigakrfdsgtgGDR--EVQRTMLELLNQLDgFDPRG-------NIKVIMATNR 151
|
|
| |
