|
Name |
Accession |
Description |
Interval |
E-value |
| RNA_repair_RtcR |
NF038308 |
RNA repair transcriptional activator RtcR; |
1-536 |
0e+00 |
|
RNA repair transcriptional activator RtcR;
Pssm-ID: 468466 [Multi-domain] Cd Length: 527 Bit Score: 692.00 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 1 MRSIVFSTV-SHLDMYTGEDRKDRWRPLLELLRIHDFKVDRLYFFISHLYRHIVPTLVKDMNNVCPETEIVPVITNLNGV 79
Cdd:NF038308 2 KKTVVIGFLgTTLDQGKGAKRWQKWRPTVALCQQPDLPVDRLELLHDRRDRALAERVAADIEEVSPETEVRLVPVVLRDP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 80 LTYEDIapaYKVFSAYFEQYRFDLSNERYFFHLGPGnLFQHALMLIMLFHFKRLPFQMLRLAPNPEKPgDIIMEIYEGDI 159
Cdd:NF038308 82 WDFEEV---YGALLDFARAYPFDTENEDYLVHITTG-THVAQICWFLLVEARYLPARLLQTSPPRDKE-EGTYEIIDLDL 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 160 RKWIASIADSEKRNVAAQTFLKSCIETRNPVFNKLIEEMEHVATHSTAPVLLSGPTGSGKSHLARKIYELRYNKGLVPGS 239
Cdd:NF038308 157 SRYDALAQRFAREQAEAVSFLKSGIATRNAAFNRLIEQIERVALRSRAPILLTGPTGAGKSFLARRIYELKKRRHQVSGP 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 240 FVEVNCATLQGESVLSNLFGHVRGSFTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVH 319
Cdd:NF038308 237 FVEVNCATLRGDLAMSELFGHVKGAFTGAQADRAGLLRAADGGTLFLDEIGELGLDEQAMLLRAIEEKRFLPVGSDKEVS 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 320 SDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHFRLPALRERLEDIEPNINYELDRHTRLKGFKADFLPEARERYLNFA 399
Cdd:NF038308 317 SDFQLIAGTNRDLRQEVAEGRFREDLYARINLWTFRLPGLRERREDIEPNLDYELDRFARELGRQVRFNKEARFRYLAFA 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 400 MSPEAIWPGNFRDLSSSIERMQSYALGGIINEELVEEEIIRLRAIWHTPALAElpapkqGAPLLSRLFTPSQLDQMDLFD 479
Cdd:NF038308 397 TSPEALWPGNFRELSASVTRMATLADGGRITEELVEEEIARLRAAWQSAPAAA------DDDALADLLGGEQLAELDLFD 470
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*..
gi 491167813 480 KIQLENVIRVCCDCSTRTEAGRKLFGVSRGRKKHADDTTRLNKYLKSQGVTWEQIQS 536
Cdd:NF038308 471 RVQLAAVLRVCRQSRSLSAAGRRLFGVSRQQKASPNDADRLRKYLARFGLSWEDIKA 527
|
|
| RtcR |
COG4650 |
Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a ... |
1-538 |
0e+00 |
|
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: 610.30 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 1 MRSIVFSTV-SHLDMYT-GEDRKDRWRPLLELLRIHDFKVDRLYFFISHLYRHIVPTLVKDMNNVCPETEIVPVITNLNG 78
Cdd:COG4650 3 KKTVVIGFLgTTLDRRGkGPNRWEKWRPTVSLCQQEDLLVDRLELLHDPRDRALAEQVAEDIAQVSPETEVRLHEVDLAD 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 79 VLTYEDiapaykVFSAYFE---QYRFDLSNERYFFHLGPGNlfqHaLMLIMLF-----HFkrLPFQMLRLAPNPEKPGDI 150
Cdd:COG4650 83 PWDFEE------VYAALLDfarAYPFDPEREDYLVHITTGT---H-VAQICWFllteaRY--LPGRLLQTSPPRKRRAGA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 151 --IMEIYEGDIRKW--IASIADSEKRNvaAQTFLKSCIETRNPVFNKLIEEMEHVATHSTAPVLLSGPTGSGKSHLARKI 226
Cdd:COG4650 151 agSYTIIDLDLSRYdaIASRFAQEQQE--AVSFLKSGIATRNAAFNRLIEQIERVAIRSRAPILLTGPTGAGKSQLARRI 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 227 YELRYNKGLVPGSFVEVNCATLQGESVLSNLFGHVRGSFTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEE 306
Cdd:COG4650 229 YELKKARHQVSGRFVEVNCATLRGDGAMSALFGHVKGAFTGAVSDRAGLLRSADGGVLFLDEIGELGLDEQAMLLRAIEE 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 307 KKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHFRLPALRERLEDIEPNINYELDRHTRLKGFKAD 386
Cdd:COG4650 309 KRFLPVGSDKEVSSDFQLIAGTNRDLRQEVAEGRFREDLLARINLWTFRLPGLAERREDIEPNLDYELARFAREQGRRVR 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 387 FLPEARERYLNFAMSPEAIWPGNFRDLSSSIERMQSYALGGIINEELVEEEIIRLRAIWHTpalaelPAPKQGAPLLSRL 466
Cdd:COG4650 389 FNKEARARYLAFATSPEALWSGNFRDLNASVTRMATLAEGGRITVALVDEEIARLRRLWQR------AEAATGDDLLAEL 462
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 491167813 467 FTPSQLDQMDLFDKIQLENVIRVCCDCSTRTEAGRKLFGVSRGRKKHADDTTRLNKYLKSQGVTWEQIQSLR 538
Cdd:COG4650 463 LGAEQAAELDLFDRVQLAAVIRVCRRSRSLSEAGRTLFAVSRQQKASPNDADRLRKYLARFGLSWDQVKART 534
|
|
| AtoC |
COG2204 |
DNA-binding transcriptional response regulator, NtrC family, contains REC, AAA-type ATPase, ... |
158-440 |
1.36e-72 |
|
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: 237.17 E-value: 1.36e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 158 DIRKWIASIADS-EKRNVAAQTFLKSCIETRNPVFNKLIEEMEHVAThSTAPVLLSGPTGSGKSHLARKIYELRYNKGlv 236
Cdd:COG2204 106 DLEELLAAVERAlERRRLRRENAEDSGLIGRSPAMQEVRRLIEKVAP-SDATVLITGESGTGKELVARAIHRLSPRAD-- 182
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 237 pGSFVEVNCATLQGESVLSNLFGHVRGSFTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDT 316
Cdd:COG2204 183 -GPFVAVNCAAIPEELLESELFGHEKGAFTGAVARRIGKFELADGGTLFLDEIGEMPLALQAKLLRVLQEREFERVGGNK 261
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 317 PVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHFRLPALRERLEDIEPNINYELDRHTRLKGFKADFLPEARERYL 396
Cdd:COG2204 262 PIPVDVRVIAATNRDLEELVEEGRFREDLYYRLNVFPIELPPLRERREDIPLLARHFLARFAAELGKPVKLSPEALEALL 341
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|.
gi 491167813 397 NFAmspeaiWPGNFRDLSSSIERMQSYALGGIINE-------ELVEEEIIR 440
Cdd:COG2204 342 AYD------WPGNVRELENVIERAVILADGEVITAedlpealEEVERELIE 386
|
|
| RocR |
COG3829 |
RocR-type transcriptional regulator, contains PAS, AAA-type ATPase, and DNA-binding Fis ... |
158-523 |
3.06e-71 |
|
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: 234.67 E-value: 3.06e-71
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 158 DIRKWIASIADSEKRNVAAQTFLKSCIETRNPVFNKLIEEMEHVAtHSTAPVLLSGPTGSGKSHLARKIYELRYNKGlvp 237
Cdd:COG3829 114 ELKRLERKLREEELERGLSAKYTFDDIIGKSPAMKELLELAKRVA-KSDSTVLILGESGTGKELFARAIHNASPRRD--- 189
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 238 GSFVEVNCATLQgESVL-SNLFGHVRGSFTGATTV-RQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSD 315
Cdd:COG3829 190 GPFVAVNCAAIP-ENLLeSELFGYEKGAFTGAKKGgKPGLFELADGGTLFLDEIGEMPLSLQAKLLRVLQEKEVRRVGGT 268
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 316 TPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHFRLPALRERLEDIEPNINYELDRHTRLKGFKA-DFLPEARER 394
Cdd:COG3829 269 KPIPVDVRIIAATNRDLEEMVEEGRFREDLYYRLNVIPIHIPPLRERKEDIPLLAEHFLEKFNKKYGKNIkGISPEALEL 348
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 395 YLNFAmspeaiWPGNFRDLSSSIERMQSYALGGIINEELVEEEIIRLRAIWHTPALAELPapkqgapllsrlftpsqlDQ 474
Cdd:COG3829 349 LLAYD------WPGNVRELENVIERAVVLSEGDVITPEHLPEYLLEEAEAASAAEEGSLK------------------EA 404
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|..
gi 491167813 475 MDLFDKIQLENVIRVCcdCSTRTEAGRKLfGVSRgrkkhaddTT---RLNKY 523
Cdd:COG3829 405 LEEVEKELIEEALEKT--GGNKSKAAKAL-GISR--------STlyrKLKKY 445
|
|
| Sigma54_activat |
pfam00158 |
Sigma-54 interaction domain; |
184-350 |
8.33e-61 |
|
Sigma-54 interaction domain;
Pssm-ID: 425491 [Multi-domain] Cd Length: 168 Bit Score: 198.01 E-value: 8.33e-61
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 184 IETRNPVFNKLIEEMEHVAtHSTAPVLLSGPTGSGKSHLARKIYELRYNKGlvpGSFVEVNCATLQGESVLSNLFGHVRG 263
Cdd:pfam00158 1 IIGESPAMQEVLEQAKRVA-PTDAPVLITGESGTGKELFARAIHQLSPRAD---GPFVAVNCAAIPEELLESELFGHEKG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 264 SFTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRL 343
Cdd:pfam00158 77 AFTGADSDRKGLFELADGGTLFLDEIGELPLELQAKLLRVLQEGEFERVGGTKPIKVDVRIIAATNRDLEEAVAEGRFRE 156
|
....*..
gi 491167813 344 DLLSRIN 350
Cdd:pfam00158 157 DLYYRLN 163
|
|
| AcoR |
COG3284 |
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription]; |
184-466 |
4.47e-60 |
|
Transcriptional regulator DhaR of acetoin/glycerol metabolism [Transcription];
Pssm-ID: 442514 [Multi-domain] Cd Length: 625 Bit Score: 209.37 E-value: 4.47e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 184 IETRNPVFNKLIEEMEHVATHStAPVLLSGPTGSGKSHLARKIYELRYNKGlvpGSFVEVNCATLQGESVLSNLFGHVRG 263
Cdd:COG3284 323 LAGGDPAMRRALRRARRLADRD-IPVLILGETGTGKELFARAIHAASPRAD---GPFVAVNCAAIPEELIESELFGYEPG 398
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 264 SFTGATTV-RQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFR 342
Cdd:COG3284 399 AFTGARRKgRPGKIEQADGGTLFLDEIGDMPLALQARLLRVLQEREVTPLGGTKPIPVDVRLIAATHRDLRELVAAGRFR 478
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 343 LDLLSRINMWHFRLPALRERlEDIEPNINYELDRHTRLKGFkADFLPEARERYLNFAmspeaiWPGNFRDLSSSIERMQS 422
Cdd:COG3284 479 EDLYYRLNGLTLTLPPLRER-EDLPALIEHLLRELAAGRGP-LRLSPEALALLAAYP------WPGNVRELRNVLRTALA 550
|
250 260 270 280
....*....|....*....|....*....|....*....|....
gi 491167813 423 YALGGIINEELVEEEIirlraiwHTPALAELPAPKQGAPLLSRL 466
Cdd:COG3284 551 LADGGVITVEDLPDEL-------RAELAAAAPAAAAPLTSLEEA 587
|
|
| PRK11361 |
PRK11361 |
acetoacetate metabolism transcriptional regulator AtoC; |
184-439 |
1.95e-55 |
|
acetoacetate metabolism transcriptional regulator AtoC;
Pssm-ID: 183099 [Multi-domain] Cd Length: 457 Bit Score: 193.14 E-value: 1.95e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 184 IETRNPVFNKLIEEMEHVAThSTAPVLLSGPTGSGKSHLARKIYelrYNKGLVPGSFVEVNCATLQgESVL-SNLFGHVR 262
Cdd:PRK11361 145 ILTNSPAMMDICKDTAKIAL-SQASVLISGESGTGKELIARAIH---YNSRRAKGPFIKVNCAALP-ESLLeSELFGHEK 219
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 263 GSFTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFR 342
Cdd:PRK11361 220 GAFTGAQTLRQGLFERANEGTLLLDEIGEMPLVLQAKLLRILQEREFERIGGHQTIKVDIRIIAATNRDLQAMVKEGTFR 299
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 343 LDLLSRINMWHFRLPALRERLEDIEPNINYELDRHTRLKGFK-ADFLPEARERYLNFAmspeaiWPGNFRDLSSSIERMQ 421
Cdd:PRK11361 300 EDLFYRLNVIHLILPPLRDRREDISLLANHFLQKFSSENQRDiIDIDPMAMSLLTAWS------WPGNIRELSNVIERAV 373
|
250
....*....|....*...
gi 491167813 422 SYALGGIINEELVEEEII 439
Cdd:PRK11361 374 VMNSGPIIFSEDLPPQIR 391
|
|
| PRK15115 |
PRK15115 |
response regulator GlrR; Provisional |
184-436 |
3.05e-50 |
|
response regulator GlrR; Provisional
Pssm-ID: 185070 [Multi-domain] Cd Length: 444 Bit Score: 178.88 E-value: 3.05e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 184 IETRNPVFNKLIEEMEHVAtHSTAPVLLSGPTGSGKSHLARKIYEL--RYNKglvpgSFVEVNCATLQGESVLSNLFGHV 261
Cdd:PRK15115 136 IVTRSPLMLRLLEQARMVA-QSDVSVLINGQSGTGKEILAQAIHNAspRASK-----PFIAINCGALPEQLLESELFGHA 209
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 262 RGSFTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRF 341
Cdd:PRK15115 210 RGAFTGAVSNREGLFQAAEGGTLFLDEIGDMPAPLQVKLLRVLQERKVRPLGSNRDIDIDVRIISATHRDLPKAMARGEF 289
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 342 RLDLLSRINMWHFRLPALRERLEDIEPNINYEL----DRHtrlKGFKADFLPEARERYLNfamspeAIWPGNFRDLSSSI 417
Cdd:PRK15115 290 REDLYYRLNVVSLKIPALAERTEDIPLLANHLLrqaaERH---KPFVRAFSTDAMKRLMT------ASWPGNVRQLVNVI 360
|
250
....*....|....*....
gi 491167813 418 ERMQSYALGGIINEELVEE 436
Cdd:PRK15115 361 EQCVALTSSPVISDALVEQ 379
|
|
| nifA |
TIGR01817 |
Nif-specific regulatory protein; This model represents NifA, a DNA-binding regulatory protein ... |
197-431 |
1.23e-49 |
|
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: 179.14 E-value: 1.23e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 197 EMEHVATHSTAPVLLSGPTGSGKSHLARKIYELRYNKGlvpGSFVEVNCATLQgESVL-SNLFGHVRGSFTGATTVRQGL 275
Cdd:TIGR01817 210 DQARVVARSNSTVLLRGESGTGKELIAKAIHYLSPRAK---RPFVKVNCAALS-ETLLeSELFGHEKGAFTGAIAQRKGR 285
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 276 LKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHFR 355
Cdd:TIGR01817 286 FELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNRDLEEAVAKGEFRADLYYRINVVPIF 365
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 356 LPALRERLEDIEpninyELDRHtrlkgfkadFLPE-ARERYLNFAMSPEAI-------WPGNFRDLSSSIERMQSYALGG 427
Cdd:TIGR01817 366 LPPLRERREDIP-----LLAEA---------FLEKfNRENGRPLTITPSAIrvlmsckWPGNVRELENCLERTATLSRSG 431
|
....
gi 491167813 428 IINE 431
Cdd:TIGR01817 432 TITR 435
|
|
| PRK05022 |
PRK05022 |
nitric oxide reductase transcriptional regulator NorR; |
189-419 |
8.17e-49 |
|
nitric oxide reductase transcriptional regulator NorR;
Pssm-ID: 235331 [Multi-domain] Cd Length: 509 Bit Score: 176.13 E-value: 8.17e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 189 PVFNKLIEEMEHVAtHSTAPVLLSGPTGSGKSHLARKIYEL--RYNKGLVpgsfvEVNCATLQgESVL-SNLFGHVRGSF 265
Cdd:PRK05022 194 PAMQQLKKEIEVVA-ASDLNVLILGETGVGKELVARAIHAAspRADKPLV-----YLNCAALP-ESLAeSELFGHVKGAF 266
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 266 TGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDL 345
Cdd:PRK05022 267 TGAISNRSGKFELADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRDLREEVRAGRFRADL 346
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 346 LSRINMWHFRLPALRERLEDIepninyeldrhTRLKGFkadFLPEARERY--LNFAMSPEAI-------WPGNFRDLSSS 416
Cdd:PRK05022 347 YHRLSVFPLSVPPLRERGDDV-----------LLLAGY---FLEQNRARLglRSLRLSPAAQaallaydWPGNVRELEHV 412
|
...
gi 491167813 417 IER 419
Cdd:PRK05022 413 ISR 415
|
|
| PRK10365 |
PRK10365 |
sigma-54-dependent response regulator transcription factor ZraR; |
187-431 |
3.55e-45 |
|
sigma-54-dependent response regulator transcription factor ZraR;
Pssm-ID: 182412 [Multi-domain] Cd Length: 441 Bit Score: 164.82 E-value: 3.55e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 187 RNPVFNKLIEEMEHVAThSTAPVLLSGPTGSGKSHLARKIY--ELRYNKGLVpgsfvEVNCATLQgESVL-SNLFGHVRG 263
Cdd:PRK10365 144 KSPAMQHLLSEIALVAP-SEATVLIHGDSGTGKELVARAIHasSARSEKPLV-----TLNCAALN-ESLLeSELFGHEKG 216
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 264 SFTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRL 343
Cdd:PRK10365 217 AFTGADKRREGRFVEADGGTLFLDEIGDISPMMQVRLLRAIQEREVQRVGSNQTISVDVRLIAATHRDLAAEVNAGRFRQ 296
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 344 DLLSRINMWHFRLPALRERLEDIEPNINYELDRHT-RLKGFKADFLPEARERYLNFAmspeaiWPGNFRDLSSSIERMQS 422
Cdd:PRK10365 297 DLYYRLNVVAIEVPSLRQRREDIPLLAGHFLQRFAeRNRKAVKGFTPQAMDLLIHYD------WPGNIRELENAVERAVV 370
|
....*....
gi 491167813 423 YALGGIINE 431
Cdd:PRK10365 371 LLTGEYISE 379
|
|
| ntrC |
TIGR01818 |
nitrogen regulation protein NR(I); This model represents NtrC, a DNA-binding response ... |
204-459 |
9.44e-45 |
|
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: 164.14 E-value: 9.44e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 204 HSTAPVLLSGPTGSGKSHLARKIYelRYNKgLVPGSFVEVNCATLQGESVLSNLFGHVRGSFTGATTVRQGLLKTAHEGI 283
Cdd:TIGR01818 155 RSDITVLINGESGTGKELVARALH--RHSP-RANGPFIALNMAAIPKDLIESELFGHEKGAFTGANTRRQGRFEQADGGT 231
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 284 LFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHFRLPALRERL 363
Cdd:TIGR01818 232 LFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQNLEALVRQGKFREDLFHRLNVIRIHLPPLRERR 311
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 364 EDIEPNINYELDRHTRLKGFKADFL-PEARERYLNFAmspeaiWPGNFRDLSSSIERMQSYALGGIINEELVEEEIIRlr 442
Cdd:TIGR01818 312 EDIPRLARHFLALAARELDVEPKLLdPEALERLKQLR------WPGNVRQLENLCRWLTVMASGDEVLVSDLPAELAL-- 383
|
250
....*....|....*..
gi 491167813 443 aiwhTPALAELPAPKQG 459
Cdd:TIGR01818 384 ----TGRPASAPDSDGQ 396
|
|
| PRK15424 |
PRK15424 |
propionate catabolism operon regulatory protein PrpR; Provisional |
196-420 |
2.33e-43 |
|
propionate catabolism operon regulatory protein PrpR; Provisional
Pssm-ID: 237963 [Multi-domain] Cd Length: 538 Bit Score: 161.81 E-value: 2.33e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 196 EEMEHVA------THSTAPVLLSGPTGSGKSHLARKI---YELRY--NKGLVPGSFVEVNCATLqGESVL-SNLFGHVRG 263
Cdd:PRK15424 226 PQMEQVRqtillyARSSAAVLIQGETGTGKELAAQAIhreYFARHdaRQGKKSHPFVAVNCGAI-AESLLeAELFGYEEG 304
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 264 SFTGATTV-RQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFR 342
Cdd:PRK15424 305 AFTGSRRGgRAGLFEIAHGGTLFLDEIGEMPLPLQTRLLRVLEEKEVTRVGGHQPVPVDVRVISATHCDLEEDVRQGRFR 384
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 491167813 343 LDLLSRINMWHFRLPALRERLEDIEPNINYELDRhtRLKGFKADFLPEARERYLNFAMSPEAI-WPGNFRDLSSSIERM 420
Cdd:PRK15424 385 RDLFYRLSILRLQLPPLRERVADILPLAESFLKQ--SLAALSAPFSAALRQGLQQCETLLLHYdWPGNVRELRNLMERL 461
|
|
| propionate_PrpR |
TIGR02329 |
propionate catabolism operon regulatory protein PrpR; At least five distinct pathways exists ... |
198-462 |
1.01e-42 |
|
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: 160.03 E-value: 1.01e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 198 MEHVA------THSTAPVLLSGPTGSGKSHLARKIYELRYNKGlvpGSFVEVNCATLqGESVL-SNLFGHVRGSFTGATT 270
Cdd:TIGR02329 221 MEQVRalvrlyARSDATVLILGESGTGKELVAQAIHQLSGRRD---FPFVAINCGAI-AESLLeAELFGYEEGAFTGARR 296
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 271 -VRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRI 349
Cdd:TIGR02329 297 gGRTGLIEAAHRGTLFLDEIGEMPLPLQTRLLRVLEEREVVRVGGTEPVPVDVRVVAATHCALTTAVQQGRFRRDLFYRL 376
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 350 NMWHFRLPALRERLEDIEPninyeLDRHTRLKGFKADFLPEARERYLNFAMSPEAI----WPGNFRDLSSSIERMQSYAl 425
Cdd:TIGR02329 377 SILRIALPPLRERPGDILP-----LAAEYLVQAAAALRLPDSEAAAQVLAGVADPLqrypWPGNVRELRNLVERLALEL- 450
|
250 260 270
....*....|....*....|....*....|....*..
gi 491167813 426 gGIINEELVEEEIIRLRAiwhtPALAELPAPKQGAPL 462
Cdd:TIGR02329 451 -SAMPAGALTPDVLRALA----PELAEASGKGKTSAL 482
|
|
| PRK15429 |
PRK15429 |
formate hydrogenlyase transcriptional activator FlhA; |
187-454 |
7.50e-41 |
|
formate hydrogenlyase transcriptional activator FlhA;
Pssm-ID: 237965 [Multi-domain] Cd Length: 686 Bit Score: 156.91 E-value: 7.50e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 187 RNPVFNKLIEEMEHVAtHSTAPVLLSGPTGSGKSHLARKIYELRYNKGLvpgSFVEVNCATLQGESVLSNLFGHVRGSFT 266
Cdd:PRK15429 381 RSEAMYSVLKQVEMVA-QSDSTVLILGETGTGKELIARAIHNLSGRNNR---RMVKMNCAAMPAGLLESDLFGHERGAFT 456
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 267 GATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLL 346
Cdd:PRK15429 457 GASAQRIGRFELADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRDLKKMVADREFRSDLY 536
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 347 SRINMWHFRLPALRERLEDIEPNINYELDRHTRLKGFKADFLPEARERYLNfAMSpeaiWPGNFRDLSSSIERMQSYALG 426
Cdd:PRK15429 537 YRLNVFPIHLPPLRERPEDIPLLVKAFTFKIARRMGRNIDSIPAETLRTLS-NME----WPGNVRELENVIERAVLLTRG 611
|
250 260
....*....|....*....|....*...
gi 491167813 427 GIINEELVEeeiIRLRAIWHTPALAELP 454
Cdd:PRK15429 612 NVLQLSLPD---ITLPEPETPPAATVVA 636
|
|
| PEP_resp_reg |
TIGR02915 |
PEP-CTERM-box response regulator transcription factor; Members of this protein family share ... |
186-432 |
2.09e-40 |
|
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: 151.82 E-value: 2.09e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 186 TRNPVFNKLIEEMEHVAThSTAPVLLSGPTGSGKSHLARKIYELRYNKGlvpGSFVEVNCATLQgESVL-SNLFGHVRGS 264
Cdd:TIGR02915 143 TSSPGMQKICRTIEKIAP-SDITVLLLGESGTGKEVLARALHQLSDRKD---KRFVAINCAAIP-ENLLeSELFGYEKGA 217
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 265 FTGATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLD 344
Cdd:TIGR02915 218 FTGAVKQTLGKIEYAHGGTLFLDEIGDLPLNLQAKLLRFLQERVIERLGGREEIPVDVRIVCATNQDLKRMIAEGTFRED 297
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 345 LLSRINMWHFRLPALRERLEDIEPNINYELDRHTR-----LKGFKADFLpEARERYlnfamspeaIWPGNFRDLSSSIER 419
Cdd:TIGR02915 298 LFYRIAEISITIPPLRSRDGDAVLLANAFLERFARelkrkTKGFTDDAL-RALEAH---------AWPGNVRELENKVKR 367
|
250
....*....|...
gi 491167813 420 MQSYALGGIINEE 432
Cdd:TIGR02915 368 AVIMAEGNQITAE 380
|
|
| pspF |
PRK11608 |
phage shock protein operon transcriptional activator; Provisional |
192-454 |
1.13e-39 |
|
phage shock protein operon transcriptional activator; Provisional
Pssm-ID: 236936 [Multi-domain] Cd Length: 326 Bit Score: 146.74 E-value: 1.13e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 192 NKLIEEMEHVATHS--TAPVLLSGPTGSGKSHLARKiyeLRYNKGLVPGSFVEVNCATLQgESVL-SNLFGHVRGSFTGA 268
Cdd:PRK11608 13 NSFLEVLEQVSRLAplDKPVLIIGERGTGKELIASR---LHYLSSRWQGPFISLNCAALN-ENLLdSELFGHEAGAFTGA 88
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 269 TTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSR 348
Cdd:PRK11608 89 QKRHPGRFERADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNADLPAMVAEGKFRADLLDR 168
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 349 INMWHFRLPALRERLEDIEPNINY---ELDRHTRLKGFKAdFLPEARERYLNFAmspeaiWPGNFRDLSSSIERM----- 420
Cdd:PRK11608 169 LAFDVVQLPPLRERQSDIMLMAEHfaiQMCRELGLPLFPG-FTERARETLLNYR------WPGNIRELKNVVERSvyrhg 241
|
250 260 270
....*....|....*....|....*....|....*
gi 491167813 421 -QSYALGGIINEELVEEEIIRLRAIWHTPALAELP 454
Cdd:PRK11608 242 tSEYPLDNIIIDPFKRRPAEEAIAVSETTSLPTLP 276
|
|
| TyrR |
COG3283 |
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid ... |
189-475 |
4.02e-38 |
|
Transcriptional regulator TyrR of aromatic amino acids metabolism [Transcription, Amino acid transport and metabolism];
Pssm-ID: 442513 [Multi-domain] Cd Length: 514 Bit Score: 146.87 E-value: 4.02e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 189 PVFNKLIEEMEHVATHStAPVLLSGPTGSGKSHLARKIYE--LRYNKglvpgSFVEVNCATLQGESVLSNLFGHVRGSFT 266
Cdd:COG3283 211 PKMRQVIRQAKKMAMLD-APLLIQGETGTGKELLARACHLasPRGDK-----PFLALNCAALPDDVAESELFGYAPGAFG 284
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 267 GATTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLL 346
Cdd:COG3283 285 NAREGKKGLFEQANGGTVFLDEIGEMSPQLQAKLLRFLQDGTFRRVGEEQEVKVDVRVICATQKDLAELVQEGEFREDLY 364
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 347 SRINMWHFRLPALRERLEDIEPNINYELDRHTRLKGFKADFL-PEARERYLNFAmspeaiWPGNFRDLSSSIERMQSYAL 425
Cdd:COG3283 365 YRLNVLTLTLPPLRERKSDILPLAEHFVARFSQQLGRPRPRLsPDLVDFLQSYP------WPGNVRQLENALYRAVSLLE 438
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 491167813 426 GGIIneelveeeiirlraiwhTPALAELPAPKQGAPLLSRLFTPSqLDQM 475
Cdd:COG3283 439 GDEL-----------------TPEDLQLPEYAASAGLLDDLLEGS-LDEI 470
|
|
| glnG |
PRK10923 |
nitrogen regulation protein NR(I); Provisional |
203-413 |
1.76e-36 |
|
nitrogen regulation protein NR(I); Provisional
Pssm-ID: 182842 [Multi-domain] Cd Length: 469 Bit Score: 141.16 E-value: 1.76e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 203 THSTAPVLLSGPTGSGKSHLArkiYELRYNKGLVPGSFVEVNCATLQGESVLSNLFGHVRGSFTGATTVRQGLLKTAHEG 282
Cdd:PRK10923 158 SRSSISVLINGESGTGKELVA---HALHRHSPRAKAPFIALNMAAIPKDLIESELFGHEKGAFTGANTIRQGRFEQADGG 234
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 283 ILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHFRLPALRER 362
Cdd:PRK10923 235 TLFLDEIGDMPLDVQTRLLRVLADGQFYRVGGYAPVKVDVRIIAATHQNLEQRVQEGKFREDLFHRLNVIRVHLPPLRER 314
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|..
gi 491167813 363 LEDIEPNINYELDRHTRLKGFKADFL-PEARERYLNFAmspeaiWPGNFRDL 413
Cdd:PRK10923 315 REDIPRLARHFLQVAARELGVEAKLLhPETEAALTRLA------WPGNVRQL 360
|
|
| PRK10820 |
PRK10820 |
transcriptional regulator TyrR; |
189-439 |
5.98e-33 |
|
transcriptional regulator TyrR;
Pssm-ID: 236769 [Multi-domain] Cd Length: 520 Bit Score: 132.12 E-value: 5.98e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 189 PVFNKLIEEMEHVATHStAPVLLSGPTGSGKSHLARKIYeLRYNKGLVPgsFVEVNCATLQGESVLSNLFGHVRGSFTGA 268
Cdd:PRK10820 211 PKMRQVVEQARKLAMLD-APLLITGDTGTGKDLLAYACH-LRSPRGKKP--FLALNCASIPDDVVESELFGHAPGAYPNA 286
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 269 TTVRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSR 348
Cdd:PRK10820 287 LEGKKGFFEQANGGSVLLDEIGEMSPRMQAKLLRFLNDGTFRRVGEDHEVHVDVRVICATQKNLVELVQKGEFREDLYYR 366
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 349 INMWHFRLPALRERLEDIEPNINYELDRHTRLKGF-KADFLPEARerylnfAMSPEAIWPGNFRDLSSSIERmqsyALGG 427
Cdd:PRK10820 367 LNVLTLNLPPLRDRPQDIMPLTELFVARFADEQGVpRPKLAADLN------TVLTRYGWPGNVRQLKNAIYR----ALTQ 436
|
250
....*....|..
gi 491167813 428 IINEELVEEEII 439
Cdd:PRK10820 437 LEGYELRPQDIL 448
|
|
| PRK11388 |
PRK11388 |
DNA-binding transcriptional regulator DhaR; Provisional |
197-508 |
6.07e-29 |
|
DNA-binding transcriptional regulator DhaR; Provisional
Pssm-ID: 183114 [Multi-domain] Cd Length: 638 Bit Score: 121.32 E-value: 6.07e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 197 EMEHV------ATHSTAPVLLSGPTGSGKSHLARKIYELRYNKGlvpGSFVEVNCATLQGESVLSNLFGhvrGSFTGATT 270
Cdd:PRK11388 333 QMRRLihfgrqAAKSSFPVLLCGEEGVGKALLAQAIHNESERAA---GPYIAVNCQLYPDEALAEEFLG---SDRTDSEN 406
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 271 VRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRIN 350
Cdd:PRK11388 407 GRLSKFELAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTADLAMLVEQNRFSRQLYYALH 486
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 351 MWHFRLPALRERLEDIEPNINYELDRHTRLKGFKADFLPEARERYLNFAmspeaiWPGNFRDLSSSIERMQSYALGGIIN 430
Cdd:PRK11388 487 AFEITIPPLRMRREDIPALVNNKLRSLEKRFSTRLKIDDDALARLVSYR------WPGNDFELRSVIENLALSSDNGRIR 560
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491167813 431 EELVEEEIirlraiwhtpaLAELPAPKQGAPLLSRLFTpsqldqmdlFDKIQLENVIRVCCDCSTRTEAGRKLFGVSR 508
Cdd:PRK11388 561 LSDLPEHL-----------FTEQATDDVSATRLSTSLS---------LAELEKEAIINAAQVCGGRIQEMAALLGIGR 618
|
|
| FhlA |
COG3604 |
FhlA-type transcriptional regulator, contains GAF, AAA-type ATPase, and DNA-binding Fis ... |
195-435 |
3.41e-27 |
|
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: 112.25 E-value: 3.41e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 195 IEEMEHVATHstAPVLLSGPTGSGKSHLARKIYELRYNKGlvpGSFVEVNCATLQGEsvlsnlfghvrgsftgattvrqg 274
Cdd:COG3604 106 LRLLETLASL--AAVAILGETGTGKELVANAIHELSPRAD---KPFVKVNCAALPES----------------------- 157
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 275 llktahegilfldeiaeiplqiqviLLKAIEEKKFYPFGSDTPVHSDFQLICGTNRDLAEEVRQGRFRLDLLSRINMWHF 354
Cdd:COG3604 158 -------------------------LLESLQEGEFERVGGDETIKVDVRIIAATNRDLEEEVAEGRFREDLYYRLNVFPI 212
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 355 RLPALRERLEDIEPNINYELDRHTRLKGFKADFL-PEARERYLNFAmspeaiWPGNFRDLSSSIERMQSYALGGIINEEL 433
Cdd:COG3604 213 RLPPLRERREDIPLLAEHFLEKFSRRLGKPILRLsPEALEALMAYP------WPGNVRELENVIERAVILAEGGVLDADD 286
|
..
gi 491167813 434 VE 435
Cdd:COG3604 287 LA 288
|
|
| PspF |
COG1221 |
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ... |
208-362 |
5.91e-22 |
|
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: 100.18 E-value: 5.91e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 208 PVLLSGPTGSGKSHLARKIYELRYNKGLVP--GSFVEVNCA------TLqgesVLSNLFGHVRGSFTGATTVRQGLLKTA 279
Cdd:COG1221 132 HTLILGPTGVGKSFFAELMYEYAIEIGVLPedAPFVVFNCAdyannpQL----LMSQLFGYVKGAFTGADKDKEGLIEKA 207
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 280 HEGILFLDEIAEIPLQIQVILLKAIEEKKFYPFG-SDTPVHSDFQLICGTNRDLaEEVrqgrfrldLLS----RINMwHF 354
Cdd:COG1221 208 DGGILFLDEVHRLPPEGQEMLFTFMDKGIYRRLGeTEKTRKANVRIIFATTEDP-ESS--------LLKtflrRIPM-VI 277
|
....*...
gi 491167813 355 RLPALRER 362
Cdd:COG1221 278 KLPSLEER 285
|
|
| AAA |
cd00009 |
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ... |
201-357 |
1.13e-17 |
|
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: 79.88 E-value: 1.13e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 201 VATHSTAPVLLSGPTGSGKSHLARKI-YELRYNKglvpGSFVEVNCATLQGESVLSNLFGHVrgsftgATTVRQGLLKTA 279
Cdd:cd00009 14 LELPPPKNLLLYGPPGTGKTTLARAIaNELFRPG----APFLYLNASDLLEGLVVAELFGHF------LVRLLFELAEKA 83
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491167813 280 HEGILFLDEIAEIPLQIQVILLKAIEEkkfypFGSDTPVHSDFQLICGTNRDLAeevrqGRFRLDLLSRINMwHFRLP 357
Cdd:cd00009 84 KPGVLFIDEIDSLSRGAQNALLRVLET-----LNDLRIDRENVRVIGATNRPLL-----GDLDRALYDRLDI-RIVIP 150
|
|
| RtcR |
pfam06956 |
Regulator of RNA terminal phosphate cyclase; RtcR is a sigma54-dependent enhancer binding ... |
2-182 |
2.88e-12 |
|
Regulator of RNA terminal phosphate cyclase; RtcR is a sigma54-dependent enhancer binding protein that activates transcription of the rtcBA operon. The product of the rtcA gene is an RNA 3'-terminal phosphate cyclase. This domain is found at the N terminus of the RtcR sequence. RtcR, and other sigma54-dependent activators, contain pfam00158 in the central region of the protein sequence.
Pssm-ID: 429211 [Multi-domain] Cd Length: 183 Bit Score: 65.32 E-value: 2.88e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 2 RSIVFSTV-SHLDMY-TGEDRKDRWRPLLELLRIHDFKVDRLYFFISHLYRHIVPTLVKDMNNVCPETEIVPVITNLNGV 79
Cdd:pfam06956 2 KTVVIGFLgTTLDRRgKGAKRWERWRPTVSLCQQPDLLVDRLELLHDRRDRALAERVRADIAQVSPETEVRLHEVNFRDP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 80 LTYEdiapayKVFSAYF---EQYRFDLSNERYFFHLGPGNlfqHaLMLIMLF---HFKRLPFQMLRLAPNPEKPGDII-- 151
Cdd:pfam06956 82 WDFE------EVYGALHdfaRAYPFDPEQEDYLVHITTGT---H-VAQICWFlltEARYIPGRLLQTSPPRRRERGAAgs 151
|
170 180 190
....*....|....*....|....*....|...
gi 491167813 152 MEIYEGDIRKW--IASIADSEKRnvAAQTFLKS 182
Cdd:pfam06956 152 YTIIDLDLSRYdaIASRFAQEQQ--EGTSFLKS 182
|
|
| AAA_5 |
pfam07728 |
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ... |
208-348 |
2.76e-10 |
|
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: 58.46 E-value: 2.76e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 208 PVLLSGPTGSGKSHLARKIYELrynkgLVPGSFVEVNCATLQGESvlsNLFGHVRGSFTGATTVRQGLLKTAHEG-ILFL 286
Cdd:pfam07728 1 GVLLVGPPGTGKTELAERLAAA-----LSNRPVFYVQLTRDTTEE---DLFGRRNIDPGGASWVDGPLVRAAREGeIAVL 72
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 491167813 287 DEIAEIPLQIQVILLKAIEEKKFYPFGSDTPVHS---DFQLICGTNrdlaeEVRQGRFRLD--LLSR 348
Cdd:pfam07728 73 DEINRANPDVLNSLLSLLDERRLLLPDGGELVKAapdGFRLIATMN-----PLDRGLNELSpaLRSR 134
|
|
| Sigma54_activ_2 |
pfam14532 |
Sigma-54 interaction domain; |
187-359 |
1.08e-08 |
|
Sigma-54 interaction domain;
Pssm-ID: 434021 [Multi-domain] Cd Length: 138 Bit Score: 53.89 E-value: 1.08e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 187 RNPVFNKLIEEMEHVAtHSTAPVLLSGPTGSGKSHLARKIYELRynkGLVPGSFVEVNCATLQGEsvlsnlfghvrgsft 266
Cdd:pfam14532 3 ASAAIQEIKRRLEQAA-QSTLPVFLTGEPGSGKEFCARYLHNPS---TPWVQPFDIEYLAHAPLE--------------- 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 267 gattvrqgLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKFYpfgsdtpvhsDFQLICGTNRDLAEEVRQGRFRLDLL 346
Cdd:pfam14532 64 --------LLEQAKGGTLYLKDIADLSKALQKGLLLLLAKAEGY----------RVRLVCTSSKDLPQLAAAGLFDEQLY 125
|
170
....*....|...
gi 491167813 347 SRINMWHFRLPAL 359
Cdd:pfam14532 126 FELSALRLHVPPL 138
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
208-331 |
1.87e-08 |
|
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: 53.53 E-value: 1.87e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 208 PVLLSGPTGSGKSHLARKI-YELRYNKglvpGSFVEVNCATLQGESVLSN---LFGHVRGSFTGATTVRQG--LLKTAHE 281
Cdd:smart00382 4 VILIVGPPGSGKTTLARALaRELGPPG----GGVIYIDGEDILEEVLDQLlliIVGGKKASGSGELRLRLAlaLARKLKP 79
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 491167813 282 GILFLDEIAEIPLQIQVILLKAIEEkkfYPFGSDTPVHSDFQLICGTNRD 331
Cdd:smart00382 80 DVLILDEITSLLDAEQEALLLLLEE---LRLLLLLKSEKNLTVILTTNDE 126
|
|
| SpoVK |
COG0464 |
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ... |
209-387 |
9.25e-05 |
|
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: 44.90 E-value: 9.25e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 209 VLLSGPTGSGKSHLARKI-YELRYNkglvpgsFVEVNCATLqgesvLSNLFGHvrgsftGATTVRQgLLKTAHE---GIL 284
Cdd:COG0464 194 LLLYGPPGTGKTLLARALaGELGLP-------LIEVDLSDL-----VSKYVGE------TEKNLRE-VFDKARGlapCVL 254
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 285 FLDEI----------AEIPLQIQV-ILLKAIEEKKFypfgsdtpvhsDFQLICGTNRdlaeevrqgRFRLD--LLSRIN- 350
Cdd:COG0464 255 FIDEAdalagkrgevGDGVGRRVVnTLLTEMEELRS-----------DVVVIAATNR---------PDLLDpaLLRRFDe 314
|
170 180 190
....*....|....*....|....*....|....*..
gi 491167813 351 MWHFRLPALRERLEdIepninyeLDRHTRLKGFKADF 387
Cdd:COG0464 315 IIFFPLPDAEERLE-I-------FRIHLRKRPLDEDV 343
|
|
| Mg_chelatase |
pfam01078 |
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ... |
209-329 |
2.16e-04 |
|
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.
Pssm-ID: 426032 [Multi-domain] Cd Length: 207 Bit Score: 42.52 E-value: 2.16e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 209 VLLSGPTGSGKSHLARKIYELrynkgLVPGSFVE-VNCATLQGESVLSNLFGHVR-----------------GsftGATT 270
Cdd:pfam01078 25 LLMIGPPGSGKTMLAKRLPGI-----LPPLTEAEaLEVTAIHSVAGLGGDGGLIRrrpfraphhsasaaalvG---GGSI 96
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 491167813 271 VRQGLLKTAHEGILFLDEIAEIPLQIQVILLKAIEEKKF----------YPfgsdtpvhSDFQLICGTN 329
Cdd:pfam01078 97 PRPGEISLAHNGVLFLDELPEFKRRVLESLRQPLEDGEItisrarakvtFP--------ARFQLVAAMN 157
|
|
| AAA |
pfam00004 |
ATPase family associated with various cellular activities (AAA); AAA family proteins often ... |
209-341 |
2.50e-04 |
|
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: 41.04 E-value: 2.50e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 209 VLLSGPTGSGKSHLARKI-YELRYNkglvpgsFVEVNCATL----QGESVlsnlfGHVRGSFTGAttvrqgllKTAHEGI 283
Cdd:pfam00004 1 LLLYGPPGTGKTTLAKAVaKELGAP-------FIEISGSELvskyVGESE-----KRLRELFEAA--------KKLAPCV 60
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 491167813 284 LFLDEI-----------AEIPLQIQVILLKAIEEKkfypfgsdTPVHSDFQLICGTNR--DLAEEVRqGRF 341
Cdd:pfam00004 61 IFIDEIdalagsrgsggDSESRRVVNQLLTELDGF--------TSSNSKVIVIAATNRpdKLDPALL-GRF 122
|
|
| COG1223 |
COG1223 |
Predicted ATPase, AAA+ superfamily [General function prediction only]; |
192-289 |
8.93e-04 |
|
Predicted ATPase, AAA+ superfamily [General function prediction only];
Pssm-ID: 440836 [Multi-domain] Cd Length: 246 Bit Score: 41.02 E-value: 8.93e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 192 NKLIEEMEHVATHStapVLLSGPTGSGKSHLARKI-YELRynkglVPgsFVEVNCATLQGESV------LSNLFGHVRgs 264
Cdd:COG1223 24 RENLRKFGLWPPRK---ILFYGPPGTGKTMLAEALaGELK-----LP--LLTVRLDSLIGSYLgetarnLRKLFDFAR-- 91
|
90 100
....*....|....*....|....*
gi 491167813 265 ftgattvrqgllktAHEGILFLDEI 289
Cdd:COG1223 92 --------------RAPCVIFFDEF 102
|
|
| AAA_2 |
pfam07724 |
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ... |
209-366 |
1.98e-03 |
|
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.
Pssm-ID: 400187 [Multi-domain] Cd Length: 168 Bit Score: 39.10 E-value: 1.98e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 209 VLLSGPTGSGKSHLARKIYELRYNKglvPGSFVEVNCATLQGESVLSNLF----GHVR----GSFTGAttVRQGLlktah 280
Cdd:pfam07724 6 FLFLGPTGVGKTELAKALAELLFGD---ERALIRIDMSEYMEEHSVSRLIgappGYVGyeegGQLTEA--VRRKP----- 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 281 EGILFLDEIAEIPLQIQVILLKAIEEKKFYPfGSDTPVhsDFQ---LICGTN---RDLAEEVRQGRFRLDLLSRINMW-- 352
Cdd:pfam07724 76 YSIVLIDEIEKAHPGVQNDLLQILEGGTLTD-KQGRTV--DFKntlFIMTGNfgsEKISDASRLGDSPDYELLKEEVMdl 152
|
170
....*....|....*..
gi 491167813 353 ---HFRlPALRERLEDI 366
Cdd:pfam07724 153 lkkGFI-PEFLGRLPII 168
|
|
| RecA-like_FtsH |
cd19501 |
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ... |
209-289 |
8.93e-03 |
|
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and 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: 410909 [Multi-domain] Cd Length: 171 Bit Score: 37.21 E-value: 8.93e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 209 VLLSGPTGSGKSHLARKIyelrYNKGLVP-----GS-FVEVncatlqgesvlsnlFGHVrgsftGATTVRQgLLKTAHEG 282
Cdd:cd19501 40 VLLVGPPGTGKTLLAKAV----AGEAGVPffsisGSdFVEM--------------FVGV-----GASRVRD-LFEQAKKN 95
|
90
....*....|
gi 491167813 283 ---ILFLDEI 289
Cdd:cd19501 96 apcIVFIDEI 105
|
|
| RecA-like_protease |
cd19481 |
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ... |
209-341 |
9.20e-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: 37.26 E-value: 9.20e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491167813 209 VLLSGPTGSGKSHLARKIyelrynKGLVPGSFVEVNCATLQGESVLSnlfghvrgsftGATTVRQgLLKTAHE---GILF 285
Cdd:cd19481 29 ILLYGPPGTGKTLLAKAL------AGELGLPLIVVKLSSLLSKYVGE-----------SEKNLRK-IFERARRlapCILF 90
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 491167813 286 LDEI----------AEIPLQIQVI--LLKAIEEKKfypfgsdtpVHSDFQLICGTNRD---LAEEVRQGRF 341
Cdd:cd19481 91 IDEIdaigrkrdssGESGELRRVLnqLLTELDGVN---------SRSKVLVIAATNRPdllDPALLRPGRF 152
|
|
| |
