|
Name |
Accession |
Description |
Interval |
E-value |
| rho |
PRK09376 |
transcription termination factor Rho; Provisional |
1-421 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 236490 [Multi-domain] Cd Length: 416 Bit Score: 736.95 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 1 MNTAELESKTMVELYRIARELNLSGYSRMRKKELVFEIAKALAQKEQQehqeeareeqLQAQGILEILPDGYGFLRP--F 78
Cdd:PRK09376 1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQAEKGGD----------IFGEGVLEILPDGFGFLRSpdA 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 79 GYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPETAAERLHFDALTPIYPSERYTLETA 158
Cdd:PRK09376 71 NYLPGPDDIYVSPSQIRRFNLRTGDTVEGKIRPPKEGERYFALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETG 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 159 NGDP-SARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERPEEVTDIERSVRGEVISSTF 237
Cdd:PRK09376 151 NPEDlSTRIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTF 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 238 DEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTALYKPKRFFGAARNIEEGGS 317
Cdd:PRK09376 231 DEPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGS 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 318 LTIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSREELELVWNFRRVSSGMGP 397
Cdd:PRK09376 311 LTIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKEELLLSPEELQKVWILRKILSPMDE 390
|
410 420
....*....|....*....|....
gi 499713145 398 VEVTETLIDAMKKTKSNQDLLRAL 421
Cdd:PRK09376 391 VEAMEFLLDKLKKTKTNEEFFDSM 414
|
|
| Rho |
COG1158 |
Transcription termination factor Rho [Transcription]; |
59-421 |
0e+00 |
|
Transcription termination factor Rho [Transcription];
Pssm-ID: 440772 [Multi-domain] Cd Length: 373 Bit Score: 731.06 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 59 LQAQGILEILPDGYGFLRPFGYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPETAAER 138
Cdd:COG1158 7 IPVEGVLEILPDGYGFLRSSNYLPGPDDIYVSPSQIRRFGLRTGDAVTGQVRPPKEGEKYFALLRVESVNGEDPEEARKR 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 139 LHFDALTPIYPSERYTLETANGDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERP 218
Cdd:COG1158 87 PDFDNLTPLYPDERLRLETTPDDLSTRVIDLVAPIGKGQRGLIVAPPKAGKTTLLQDIANAITANHPEVHLIVLLIDERP 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 219 EEVTDIERSVRGEVISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTA 298
Cdd:COG1158 167 EEVTDMQRSVKGEVIASTFDEPAERHVQVAELVIERAKRLVELGKDVVILLDSITRLARAYNLVVPASGRTLSGGVDANA 246
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 299 LYKPKRFFGAARNIEEGGSLTIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLS 378
Cdd:COG1158 247 LYKPKRFFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINKSGTRREELLLS 326
|
330 340 350 360
....*....|....*....|....*....|....*....|...
gi 499713145 379 REELELVWNFRRVSSGMGPVEVTETLIDAMKKTKSNQDLLRAL 421
Cdd:COG1158 327 PEELEKVWILRRALSGMDPVEAMEFLLDRLKKTKSNAEFLESM 369
|
|
| rho |
TIGR00767 |
transcription termination factor Rho; This RNA helicase, the transcription termination factor ... |
1-421 |
0e+00 |
|
transcription termination factor Rho; This RNA helicase, the transcription termination factor Rho, occurs in nearly all bacteria but is missing from the Cyanobacteria, the Mollicutes (Mycoplasmas), and various Lactobacillales including Streptococcus. It is also missing, of course, from the Archaea, which also lack Nus factors. Members of this family from Micrococcus luteus, Mycobacterium tuberculosis, and related species have a related but highly variable long, highly charged insert near the amino end. Members of this family differ in the specificity of RNA binding. [Transcription, Transcription factors]
Pssm-ID: 162030 [Multi-domain] Cd Length: 415 Bit Score: 657.14 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 1 MNTAELESKTMVELYRIARELNLSGYSRMRKKELVFEIAKALAQKEQQehqeeareeqLQAQGILEILPDGYGFLR--PF 78
Cdd:TIGR00767 1 YNIEELKNMPLEELRKLAEQLGVENTSSLKKQELIFAILKAHAEQGGL----------IFGEGVLEILPDGFGFLRspDS 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 79 GYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPETAAERLHFDALTPIYPSERYTLETA 158
Cdd:TIGR00767 71 SYLPGPDDIYVSPSQIRRFNLRTGDTIEGQIRSPKEGERYFALLKVESVNGDDPEKAKNRVLFENLTPLYPNERLRLETS 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 159 NGDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERPEEVTDIERSVRGEVISSTFD 238
Cdd:TIGR00767 151 TEDLSTRVLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFD 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 239 EFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTALYKPKRFFGAARNIEEGGSL 318
Cdd:TIGR00767 231 EPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPASGKVLSGGVDANALHRPKRFFGAARNIEEGGSL 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 319 TIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSREELELVWNFRRVSSGMGPV 398
Cdd:TIGR00767 311 TIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRIFPAIDIKKSGTRKEELLLTPEELQKIWVLRKIISPMDSI 390
|
410 420
....*....|....*....|...
gi 499713145 399 EVTETLIDAMKKTKSNQDLLRAL 421
Cdd:TIGR00767 391 EAMEFLISKLKKTKTNEEFLESM 413
|
|
| rho_factor_C |
cd01128 |
C-terminal ATP binding domain of transcription termination factor rho; Transcription ... |
163-409 |
2.61e-167 |
|
C-terminal ATP binding domain of transcription termination factor rho; Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal oligonucleotide/oligosaccharide binding fold (OB-fold) domain which binds cysteine-rich nucleotides, and a C-terminal ATP binding domain. This alignment is of the C-terminal ATP binding domain.
Pssm-ID: 410872 [Multi-domain] Cd Length: 249 Bit Score: 469.38 E-value: 2.61e-167
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 163 SARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERPEEVTDIERSVRGEVISSTFDEFPE 242
Cdd:cd01128 3 STRVIDLIAPIGKGQRGLIVAPPKAGKTTLLQNIANAIAKNHPEVELIVLLIDERPEEVTDMRRSVKGEVVASTFDEPPE 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 243 NHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTALYKPKRFFGAARNIEEGGSLTIVA 322
Cdd:cd01128 83 RHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKTLSGGVDANALHKPKRFFGAARNIEEGGSLTIIA 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 323 TALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSREELELVWNFRRVSSGMGPVEVTE 402
Cdd:cd01128 163 TALVDTGSRMDEVIFEEFKGTGNMELVLDRKLAEKRIFPAIDILKSGTRKEELLLTPEELQKIWLLRRILSPMDPIEAME 242
|
....*..
gi 499713145 403 TLIDAMK 409
Cdd:cd01128 243 FLLKKLK 249
|
|
| Rho_RNA_bind |
pfam07497 |
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly ... |
62-133 |
4.02e-44 |
|
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers.
Pssm-ID: 462182 [Multi-domain] Cd Length: 72 Bit Score: 148.29 E-value: 4.02e-44
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 499713145 62 QGILEILPDGYGFLRPFGYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPE 133
Cdd:pfam07497 1 EGILEILPDGYGFLRSSNYLPGPDDIYVSPSQIRRFGLRTGDIVEGQVRPPKEGEKYFALLRVESVNGEDPE 72
|
|
| CSP |
smart00357 |
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ... |
62-125 |
1.05e-13 |
|
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Pssm-ID: 214633 [Multi-domain] Cd Length: 64 Bit Score: 65.70 E-value: 1.05e-13
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499713145 62 QGILEILPDGYGFLRPFGYlasGDDIYISASQI--RRFDLRTGDKVAGLVRPPKDNERFFALLRVE 125
Cdd:smart00357 1 TGVVKWFNKGFGFIRPDDG---GKDVFVHPSQIqgGLKSLREGDEVEFKVVSPEGGEKPEAENVVK 63
|
|
| BREX_3_BrxF |
NF033453 |
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino ... |
180-283 |
4.05e-03 |
|
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino acids in length includes BrxF from type 3 BREX (bacteriophage exclusion) systems. Most members have the P-loop motif GxxGxGKT, but the region is surprisingly poorly conserved in a sizable fraction of otherwise strongly similar proteins.
Pssm-ID: 468038 Cd Length: 149 Bit Score: 37.47 E-value: 4.05e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 180 LIVSPPKAGKTVLLKKIANaiKTNYPEVELMiLLIDERPEEVTDIERSVRgevISSTFDEfpenhvkvadmvlerakrLV 259
Cdd:NF033453 20 LLVGPPGSGKTALLRELAA--KRGAPVINVN-LELSRRLLELPEKQRALR---APRLLDE------------------IA 75
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 499713145 260 EHKKDVVVLLDSIT----------------RLARAHNLVV 283
Cdd:NF033453 76 EKSSGDVVLLDNIEilfdkhlkldplrllkRISRNRTVVA 115
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| rho |
PRK09376 |
transcription termination factor Rho; Provisional |
1-421 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 236490 [Multi-domain] Cd Length: 416 Bit Score: 736.95 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 1 MNTAELESKTMVELYRIARELNLSGYSRMRKKELVFEIAKALAQKEQQehqeeareeqLQAQGILEILPDGYGFLRP--F 78
Cdd:PRK09376 1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQAEKGGD----------IFGEGVLEILPDGFGFLRSpdA 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 79 GYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPETAAERLHFDALTPIYPSERYTLETA 158
Cdd:PRK09376 71 NYLPGPDDIYVSPSQIRRFNLRTGDTVEGKIRPPKEGERYFALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETG 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 159 NGDP-SARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERPEEVTDIERSVRGEVISSTF 237
Cdd:PRK09376 151 NPEDlSTRIIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTF 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 238 DEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTALYKPKRFFGAARNIEEGGS 317
Cdd:PRK09376 231 DEPAERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGS 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 318 LTIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSREELELVWNFRRVSSGMGP 397
Cdd:PRK09376 311 LTIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKEELLLSPEELQKVWILRKILSPMDE 390
|
410 420
....*....|....*....|....
gi 499713145 398 VEVTETLIDAMKKTKSNQDLLRAL 421
Cdd:PRK09376 391 VEAMEFLLDKLKKTKTNEEFFDSM 414
|
|
| Rho |
COG1158 |
Transcription termination factor Rho [Transcription]; |
59-421 |
0e+00 |
|
Transcription termination factor Rho [Transcription];
Pssm-ID: 440772 [Multi-domain] Cd Length: 373 Bit Score: 731.06 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 59 LQAQGILEILPDGYGFLRPFGYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPETAAER 138
Cdd:COG1158 7 IPVEGVLEILPDGYGFLRSSNYLPGPDDIYVSPSQIRRFGLRTGDAVTGQVRPPKEGEKYFALLRVESVNGEDPEEARKR 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 139 LHFDALTPIYPSERYTLETANGDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERP 218
Cdd:COG1158 87 PDFDNLTPLYPDERLRLETTPDDLSTRVIDLVAPIGKGQRGLIVAPPKAGKTTLLQDIANAITANHPEVHLIVLLIDERP 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 219 EEVTDIERSVRGEVISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTA 298
Cdd:COG1158 167 EEVTDMQRSVKGEVIASTFDEPAERHVQVAELVIERAKRLVELGKDVVILLDSITRLARAYNLVVPASGRTLSGGVDANA 246
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 299 LYKPKRFFGAARNIEEGGSLTIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLS 378
Cdd:COG1158 247 LYKPKRFFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINKSGTRREELLLS 326
|
330 340 350 360
....*....|....*....|....*....|....*....|...
gi 499713145 379 REELELVWNFRRVSSGMGPVEVTETLIDAMKKTKSNQDLLRAL 421
Cdd:COG1158 327 PEELEKVWILRRALSGMDPVEAMEFLLDRLKKTKSNAEFLESM 369
|
|
| rho |
TIGR00767 |
transcription termination factor Rho; This RNA helicase, the transcription termination factor ... |
1-421 |
0e+00 |
|
transcription termination factor Rho; This RNA helicase, the transcription termination factor Rho, occurs in nearly all bacteria but is missing from the Cyanobacteria, the Mollicutes (Mycoplasmas), and various Lactobacillales including Streptococcus. It is also missing, of course, from the Archaea, which also lack Nus factors. Members of this family from Micrococcus luteus, Mycobacterium tuberculosis, and related species have a related but highly variable long, highly charged insert near the amino end. Members of this family differ in the specificity of RNA binding. [Transcription, Transcription factors]
Pssm-ID: 162030 [Multi-domain] Cd Length: 415 Bit Score: 657.14 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 1 MNTAELESKTMVELYRIARELNLSGYSRMRKKELVFEIAKALAQKEQQehqeeareeqLQAQGILEILPDGYGFLR--PF 78
Cdd:TIGR00767 1 YNIEELKNMPLEELRKLAEQLGVENTSSLKKQELIFAILKAHAEQGGL----------IFGEGVLEILPDGFGFLRspDS 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 79 GYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPETAAERLHFDALTPIYPSERYTLETA 158
Cdd:TIGR00767 71 SYLPGPDDIYVSPSQIRRFNLRTGDTIEGQIRSPKEGERYFALLKVESVNGDDPEKAKNRVLFENLTPLYPNERLRLETS 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 159 NGDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERPEEVTDIERSVRGEVISSTFD 238
Cdd:TIGR00767 151 TEDLSTRVLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFD 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 239 EFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTALYKPKRFFGAARNIEEGGSL 318
Cdd:TIGR00767 231 EPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPASGKVLSGGVDANALHRPKRFFGAARNIEEGGSL 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 319 TIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSREELELVWNFRRVSSGMGPV 398
Cdd:TIGR00767 311 TIIATALIDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRIFPAIDIKKSGTRKEELLLTPEELQKIWVLRKIISPMDSI 390
|
410 420
....*....|....*....|...
gi 499713145 399 EVTETLIDAMKKTKSNQDLLRAL 421
Cdd:TIGR00767 391 EAMEFLISKLKKTKTNEEFLESM 413
|
|
| PRK12678 |
PRK12678 |
transcription termination factor Rho; Provisional |
63-420 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 237171 [Multi-domain] Cd Length: 672 Bit Score: 586.10 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 63 GILEILpDGYGFLRPFGYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNER------FFALLRVEKVNGENPETAA 136
Cdd:PRK12678 298 GILDVL-DNYAFVRTSGYLPGPNDVYVSMNQVRKNGLRKGDAVTGAVRAPREGEQgnqrqkFNPLVRLDSVNGMSPEEAK 376
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 137 ERLHFDALTPIYPSERYTLETANGDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDE 216
Cdd:PRK12678 377 KRPEFGKLTPLYPNERLRLETEPKKLTTRVIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITTNNPECHLMVVLVDE 456
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 217 RPEEVTDIERSVRGEVISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDP 296
Cdd:PRK12678 457 RPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSITRLGRAYNLAAPASGRILSGGVDS 536
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 297 TALYKPKRFFGAARNIEEGGSLTIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELL 376
Cdd:PRK12678 537 TALYPPKRFFGAARNIENGGSLTIIATALVETGSKMDEVIFEEFKGTGNMELKLDRKLADKRIFPAVDVNASGTRKEELL 616
|
330 340 350 360
....*....|....*....|....*....|....*....|....
gi 499713145 377 LSREELELVWNFRRVSSGMGPVEVTETLIDAMKKTKSNQDLLRA 420
Cdd:PRK12678 617 LSPDELAIVHKLRRVLSGLDSQQAIDLLISRLKKTKSNYEFLMQ 660
|
|
| PRK12608 |
PRK12608 |
transcription termination factor Rho; Provisional |
63-421 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 237150 [Multi-domain] Cd Length: 380 Bit Score: 520.80 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 63 GILEILPDGYGFLRPF--GYLASGDDIYISASQIRRFDLRTGDKVAGLVRPpkdNERFFALLRVEKVNGENPETAAERLH 140
Cdd:PRK12608 21 GVLEILGDGFGFLRSArrNYLPSPDDVFVPPALIRRFNLRTGDVVEGVARP---RERYRVLVRVDSVNGTDPEKLARRPH 97
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 141 FDALTPIYPSERYTLETANGDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERPEE 220
Cdd:PRK12608 98 FDDLTPLHPRERLRLETGSDDLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEE 177
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 221 VTDIERSVRGEVISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTALY 300
Cdd:PRK12608 178 VTDMRRSVKGEVYASTFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNNEVESSGRTLSGGVDARALQ 257
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 301 KPKRFFGAARNIEEGGSLTIVATALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSRE 380
Cdd:PRK12608 258 RPKRLFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKRVFPAIDIAKSGTRREELLLDSK 337
|
330 340 350 360
....*....|....*....|....*....|....*....|.
gi 499713145 381 ELELVWNFRRVSSGMGPVEVTETLIDAMKKTKSNQDLLRAL 421
Cdd:PRK12608 338 ELEKVRRLRRALASRKPVEAMEALLEKLRETPDNAEFLNSV 378
|
|
| rho_factor_C |
cd01128 |
C-terminal ATP binding domain of transcription termination factor rho; Transcription ... |
163-409 |
2.61e-167 |
|
C-terminal ATP binding domain of transcription termination factor rho; Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal oligonucleotide/oligosaccharide binding fold (OB-fold) domain which binds cysteine-rich nucleotides, and a C-terminal ATP binding domain. This alignment is of the C-terminal ATP binding domain.
Pssm-ID: 410872 [Multi-domain] Cd Length: 249 Bit Score: 469.38 E-value: 2.61e-167
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 163 SARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMILLIDERPEEVTDIERSVRGEVISSTFDEFPE 242
Cdd:cd01128 3 STRVIDLIAPIGKGQRGLIVAPPKAGKTTLLQNIANAIAKNHPEVELIVLLIDERPEEVTDMRRSVKGEVVASTFDEPPE 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 243 NHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVDPTALYKPKRFFGAARNIEEGGSLTIVA 322
Cdd:cd01128 83 RHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKTLSGGVDANALHKPKRFFGAARNIEEGGSLTIIA 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 323 TALIETGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSREELELVWNFRRVSSGMGPVEVTE 402
Cdd:cd01128 163 TALVDTGSRMDEVIFEEFKGTGNMELVLDRKLAEKRIFPAIDILKSGTRKEELLLTPEELQKIWLLRRILSPMDPIEAME 242
|
....*..
gi 499713145 403 TLIDAMK 409
Cdd:cd01128 243 FLLKKLK 249
|
|
| Rho_RNA_bind |
pfam07497 |
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly ... |
62-133 |
4.02e-44 |
|
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers.
Pssm-ID: 462182 [Multi-domain] Cd Length: 72 Bit Score: 148.29 E-value: 4.02e-44
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 499713145 62 QGILEILPDGYGFLRPFGYLASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEKVNGENPE 133
Cdd:pfam07497 1 EGILEILPDGYGFLRSSNYLPGPDDIYVSPSQIRRFGLRTGDIVEGQVRPPKEGEKYFALLRVESVNGEDPE 72
|
|
| Rho_CSD |
cd04459 |
Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination ... |
61-126 |
1.53e-33 |
|
Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA are released from DNA template by an mRNA stem loop structure, which resembles the transcription termination mechanism used by eukaryotic pol III. The second mechanism is mediated by Rho factor. Rho factor terminates transcription by using energy from ATP hydrolysis to forcibly dissociate the transcripts from RNA polymerase. Rho protein contains an N-terminal S1-like domain, which binds single-stranded RNA. Rho has a C-terminal ATPase domain which hydrolyzes ATP to provide energy to strip RNA polymerase and mRNA from the DNA template. Rho functions as a homohexamer.
Pssm-ID: 239906 [Multi-domain] Cd Length: 68 Bit Score: 120.04 E-value: 1.53e-33
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 499713145 61 AQGILEILPDGYGFLRPFGY--LASGDDIYISASQIRRFDLRTGDKVAGLVRPPKDNERFFALLRVEK 126
Cdd:cd04459 1 GSGVLEILPDGFGFLRSSGYnyLPGPDDIYVSPSQIRRFNLRTGDTVVGQIRPPKEGERYFALLKVEA 68
|
|
| ATP-synt_ab |
pfam00006 |
ATP synthase alpha/beta family, nucleotide-binding domain; This entry includes the ATP ... |
165-368 |
7.52e-23 |
|
ATP synthase alpha/beta family, nucleotide-binding domain; This entry includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho.
Pssm-ID: 425417 [Multi-domain] Cd Length: 212 Bit Score: 95.89 E-value: 7.52e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIAnaiktNYPEVELMIL-LIDERPEEVTD----------IERSVrgeVI 233
Cdd:pfam00006 3 RAIDGLLPIGRGQRIGIFGGSGVGKTVLAGMIA-----RQASADVVVYaLIGERGREVREfieellgsgaLKRTV---VV 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 234 SSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVV-----PPSgrtlSGGVDPTALYKPKRFF-G 307
Cdd:pfam00006 75 VATSDEPPLARYRAPYTALTIAEYFRDQGKDVLLIMDSLTRFAEALREISlalgePPG----REGYPPSVFSLLARLLeR 150
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 499713145 308 AARNIEEGGSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:pfam00006 151 AGRVKGKGGSITALPTVLVP-GDDITDPIPDNTRSILDGQIVLSRDLAEKGHYPAIDVLAS 210
|
|
| ATPase_flagellum-secretory_path_III |
cd01136 |
Flagellum-specific ATPase/type III secretory pathway virulence-related protein; ... |
165-368 |
5.02e-22 |
|
Flagellum-specific ATPase/type III secretory pathway virulence-related protein; Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton-driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.
Pssm-ID: 410880 [Multi-domain] Cd Length: 265 Bit Score: 94.93 E-value: 5.02e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIAnaiktNYPEVELMIL-LIDERPEEVTD-IERSVRGE------VISST 236
Cdd:cd01136 56 RAIDGLLTCGEGQRIGIFAGSGVGKSTLLGMIA-----RNTDADVNVIaLIGERGREVREfIEKDLGEEglkrsvLVVAT 130
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 237 FDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTL-SGGVDPTALYKPKRFFGAARNIEEg 315
Cdd:cd01136 131 SDESPLLRVRAAYTATAIAEYFRDQGKKVLLLMDSLTRFAMAQREVGLAAGEPPtRRGYPPSVFALLPRLLERAGNGEK- 209
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 499713145 316 GSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:cd01136 210 GSITAFYTVLVE-GDDFNDPIADEVRSILDGHIVLSRRLAERGHYPAIDVLAS 261
|
|
| PRK07594 |
PRK07594 |
EscN/YscN/HrcN family type III secretion system ATPase; |
165-365 |
5.95e-20 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 136438 [Multi-domain] Cd Length: 433 Bit Score: 91.55 E-value: 5.95e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAiktnyPEVELMIL-LIDERPEEVTDI-------ERSVRGEVISST 236
Cdd:PRK07594 144 RAIDSVATCGEGQRVGIFSAPGVGKSTLLAMLCNA-----PDADSNVLvLIGERGREVREFidftlseETRKRCVIVVAT 218
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 237 FDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLSGGVdptalYKPKRFFGAARNIE--- 313
Cdd:PRK07594 219 SDRPALERVRALFVATTIAEFFRDNGKRVVLLADSLTRYARAAREIALAAGETAVSGE-----YPPGVFSALPRLLErtg 293
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....
gi 499713145 314 --EGGSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDV 365
Cdd:PRK07594 294 mgEKGSITAFYTVLVE-GDDMNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDV 346
|
|
| RecA-like_ion-translocating_ATPases |
cd19476 |
RecA-like domain of ion-translocating ATPases; RecA-like NTPases. This family includes the ... |
165-368 |
3.81e-19 |
|
RecA-like domain of ion-translocating ATPases; 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: 410884 [Multi-domain] Cd Length: 270 Bit Score: 86.74 E-value: 3.81e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVELMIlLIDERPEEVTDI----------ERSVrgeVIS 234
Cdd:cd19476 56 KVIDLLAPYGRGQKIGIFGGSGVGKTVLAMQLARNQAKAHAGVVVFA-GIGERGREVNDLyeeftksgamERTV---VVA 131
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 235 STFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVV-----PPSGRtlsgGVDPTALYKPKRFFG-A 308
Cdd:cd19476 132 NTANDPPGARMRVPYTGLTIAEYFRDNGQHVLLIIDDISRYAEALREMSallgePPGRE----GYPPYLFTKLATLYErA 207
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 309 ARNIEEGGSLTIVATALIETGSRMDEVIFEEFKGTgNMELILDRRLAERRIFPAIDVKRS 368
Cdd:cd19476 208 GKVKDGGGSITAIPAVSTPGDDLTDPIPDNTFAIL-DGQIVLSRELARKGIYPAINVLDS 266
|
|
| fliI |
PRK07196 |
flagellar protein export ATPase FliI; |
144-368 |
1.08e-16 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 180875 [Multi-domain] Cd Length: 434 Bit Score: 81.48 E-value: 1.08e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 144 LTPIYPSERYTLETANgDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIanaikTNYPEVELMIL-LIDERPEEVT 222
Cdd:PRK07196 124 LPQIHPLQRRAVDTPL-DVGVNAINGLLTIGKGQRVGLMAGSGVGKSVLLGMI-----TRYTQADVVVVgLIGERGREVK 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 223 D-IERSVRGE------VISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVV-----PPSGRtl 290
Cdd:PRK07196 198 EfIEHSLQAAgmaksvVVAAPADESPLMRIKATELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIAlslgePPATK-- 275
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 499713145 291 sgGVDPTALYKPKRFFGAARNIEEGGSLTIVATALIETGSRMDEVIfEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:PRK07196 276 --GYPPSAFSIIPRLAESAGNSSGNGTMTAIYTVLAEGDDQQDPIV-DCARAVLDGHIVLSRKLAEAGHYPAIDISQS 350
|
|
| PRK06820 |
PRK06820 |
EscN/YscN/HrcN family type III secretion system ATPase; |
165-368 |
3.26e-15 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 180712 [Multi-domain] Cd Length: 440 Bit Score: 77.16 E-value: 3.26e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANaiktnYPEVELMIL-LIDERPEEVTDI-------ERSVRGEVISST 236
Cdd:PRK06820 152 RAIDGILSCGEGQRIGIFAAAGVGKSTLLGMLCA-----DSAADVMVLaLIGERGREVREFleqvltpEARARTVVVVAT 226
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 237 FDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRT-LSGGVDPTALYKPKRFFGAARNIEEG 315
Cdd:PRK06820 227 SDRPALERLKGLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREIGLAAGEPpAAGSFPPSVFANLPRLLERTGNSDRG 306
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 499713145 316 gSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:PRK06820 307 -SITAFYTVLVE-GDDMNEPVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAAS 357
|
|
| Rho_N |
pfam07498 |
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ... |
5-43 |
7.17e-14 |
|
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers. This domain is found to the N-terminus of the RNA binding domain (pfam07497).
Pssm-ID: 429493 [Multi-domain] Cd Length: 43 Bit Score: 65.48 E-value: 7.17e-14
10 20 30
....*....|....*....|....*....|....*....
gi 499713145 5 ELESKTMVELYRIARELNLSGYSRMRKKELVFEIAKALA 43
Cdd:pfam07498 1 ELKEKTLSELREIAKELGIENYSRLRKQELIFAILKAQA 39
|
|
| fliI |
PRK07721 |
flagellar protein export ATPase FliI; |
165-368 |
8.02e-14 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181092 [Multi-domain] Cd Length: 438 Bit Score: 72.83 E-value: 8.02e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIAnaiKTNYPEVELmILLIDERPEEVTD-IERSV------RGEVISSTF 237
Cdd:PRK07721 147 RAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMIA---RNTSADLNV-IALIGERGREVREfIERDLgpeglkRSIVVVATS 222
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 238 DEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVvppsgrTLSGGVDPTAL-YKPKRFFGAARNIE--- 313
Cdd:PRK07721 223 DQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREI------GLAVGEPPTTKgYTPSVFAILPKLLErtg 296
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*..
gi 499713145 314 --EGGSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:PRK07721 297 tnASGSITAFYTVLVD-GDDMNEPIADTVRGILDGHFVLDRQLANKGQYPAINVLKS 352
|
|
| CSP |
smart00357 |
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ... |
62-125 |
1.05e-13 |
|
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria and is involved in regulating translation in eukaryotes. Contains sub-family of RNA-binding domains in the Rho transcription termination factor.
Pssm-ID: 214633 [Multi-domain] Cd Length: 64 Bit Score: 65.70 E-value: 1.05e-13
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499713145 62 QGILEILPDGYGFLRPFGYlasGDDIYISASQI--RRFDLRTGDKVAGLVRPPKDNERFFALLRVE 125
Cdd:smart00357 1 TGVVKWFNKGFGFIRPDDG---GKDVFVHPSQIqgGLKSLREGDEVEFKVVSPEGGEKPEAENVVK 63
|
|
| PRK06936 |
PRK06936 |
EscN/YscN/HrcN family type III secretion system ATPase; |
165-368 |
1.94e-13 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 180762 [Multi-domain] Cd Length: 439 Bit Score: 71.71 E-value: 1.94e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIanaikTNYPEVELMIL-LIDERPEEVTD-IERSV------RGEVISST 236
Cdd:PRK06936 151 RVIDGLLTCGEGQRMGIFAAAGGGKSTLLASL-----IRSAEVDVTVLaLIGERGREVREfIESDLgeeglrKAVLVVAT 225
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 237 FDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVvppsgrTLSGGVDPTAL-YKPKRFFGAARNIE-- 313
Cdd:PRK06936 226 SDRPSMERAKAGFVATSIAEYFRDQGKRVLLLMDSVTRFARAQREI------GLAAGEPPTRRgYPPSVFAALPRLMEra 299
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 499713145 314 ---EGGSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:PRK06936 300 gqsDKGSITALYTVLVE-GDDMTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRS 356
|
|
| Rho_N |
smart00959 |
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ... |
5-43 |
4.11e-13 |
|
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It it thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers. This domain is found to the N-terminus of the RNA binding domain.
Pssm-ID: 198027 [Multi-domain] Cd Length: 43 Bit Score: 63.16 E-value: 4.11e-13
10 20 30
....*....|....*....|....*....|....*....
gi 499713145 5 ELESKTMVELYRIARELNLSGYSRMRKKELVFEIAKALA 43
Cdd:smart00959 1 ELKKKTLSELLEIAKELGIENASRLRKQELIFAILKAQA 39
|
|
| fliI |
PRK05688 |
flagellar protein export ATPase FliI; |
127-368 |
1.02e-12 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 168181 [Multi-domain] Cd Length: 451 Bit Score: 69.37 E-value: 1.02e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 127 VNGENPETAAERLHFDAlTPIYPSERYTLeTANGDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLkkianAIKTNYPE 206
Cdd:PRK05688 121 LDGKGPMKAEDWVPMDG-PTINPLNRHPI-SEPLDVGIRSINGLLTVGRGQRLGLFAGTGVGKSVLL-----GMMTRFTE 193
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 207 VELMIL-LIDERPEEVTDIERSVRGE-------VISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARA 278
Cdd:PRK05688 194 ADIIVVgLIGERGREVKEFIEHILGEeglkrsvVVASPADDAPLMRLRAAMYCTRIAEYFRDKGKNVLLLMDSLTRFAQA 273
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 279 HNLVV-----PPSGRtlsgGVDPTALYKPKRFFGAARNIEEG-GSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDR 352
Cdd:PRK05688 274 QREIAlaigePPATK----GYPPSVFAKLPKLVERAGNAEPGgGSITAFYTVLSE-GDDQQDPIADSARGVLDGHIVLSR 348
|
250
....*....|....*.
gi 499713145 353 RLAERRIFPAIDVKRS 368
Cdd:PRK05688 349 RLAEEGHYPAIDIEAS 364
|
|
| PRK09099 |
PRK09099 |
type III secretion system ATPase; Provisional |
139-365 |
1.07e-12 |
|
type III secretion system ATPase; Provisional
Pssm-ID: 169656 [Multi-domain] Cd Length: 441 Bit Score: 69.41 E-value: 1.07e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 139 LHFDALTPIY-----PSERYTLETANgDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYPevelMILL 213
Cdd:PRK09099 122 LDCDELVPVIaappdPMSRRMVEAPL-PTGVRIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFARGTQCDVN----VIAL 196
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 214 IDERPEEVTDIERSVRGE-------VISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLV---- 282
Cdd:PRK09099 197 IGERGREVREFIELILGEdgmarsvVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARAQREIglaa 276
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 283 -VPPSGRtlsgGVDPTALYKPKRFFGAArNIEEGGSLTIVATALIETGSRMDEVIfEEFKGTGNMELILDRRLAERRIFP 361
Cdd:PRK09099 277 gEPPARR----GFPPSVFAELPRLLERA-GMGETGSITALYTVLAEDESGSDPIA-EEVRGILDGHMILSREIAARNQYP 350
|
....
gi 499713145 362 AIDV 365
Cdd:PRK09099 351 AIDV 354
|
|
| fliI |
PRK06793 |
flagellar protein export ATPase FliI; |
112-365 |
1.28e-12 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 180696 [Multi-domain] Cd Length: 432 Bit Score: 69.24 E-value: 1.28e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 112 PKDNerfFALLRVEKVNGENPETAAERLHFDALT----PIYPSERYTLeTANGDPSARIIDLIAPIGKGQRALIVSPPKA 187
Cdd:PRK06793 92 PRGN---HLLGKVLSANGEVLNEEAENIPLQKIKldapPIHAFEREEI-TDVFETGIKSIDSMLTIGIGQKIGIFAGSGV 167
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 188 GKTVLLKKIANAIKTNYPevelMILLIDERPEEVTDIERSVRGE-------VISSTFDEFPENHVKVADMVLERAKRLVE 260
Cdd:PRK06793 168 GKSTLLGMIAKNAKADIN----VISLVGERGREVKDFIRKELGEegmrksvVVVATSDESHLMQLRAAKLATSIAEYFRD 243
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 261 HKKDVVVLLDSITRLARAHNLV------VPPSGRTLsggVDPTALYKPKRFFGAARNieegGSLTIVATALIEtGSRMDE 334
Cdd:PRK06793 244 QGNNVLLMMDSVTRFADARRSVdiavkeLPIGGKTL---LMESYMKKLLERSGKTQK----GSITGIYTVLVD-GDDLNG 315
|
250 260 270
....*....|....*....|....*....|.
gi 499713145 335 VIFEEFKGTGNMELILDRRLAERRIFPAIDV 365
Cdd:PRK06793 316 PVPDLARGILDGHIVLKRELATLSHYPAISV 346
|
|
| FliI |
COG1157 |
Flagellar biosynthesis/type III secretory pathway ATPase FliI [Cell motility, Intracellular ... |
142-368 |
1.40e-12 |
|
Flagellar biosynthesis/type III secretory pathway ATPase FliI [Cell motility, Intracellular trafficking, secretion, and vesicular transport];
Pssm-ID: 440771 [Multi-domain] Cd Length: 433 Bit Score: 68.90 E-value: 1.40e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 142 DALTPIYPSERYTLETANGDPSAR------------IIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANaiktnYPEVEL 209
Cdd:COG1157 111 DGKGPLPGEERRPLDAPPPNPLERaritepldtgvrAIDGLLTVGRGQRIGIFAGSGVGKSTLLGMIAR-----NTEADV 185
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 210 MIL-LIDERPEEVTD-IE---------RSVrgeVISSTFDEFPenhvkvadmvLERAK------RLVEH----KKDVVVL 268
Cdd:COG1157 186 NVIaLIGERGREVREfIEddlgeeglaRSV---VVVATSDEPP----------LMRLRaaytatAIAEYfrdqGKNVLLL 252
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 269 LDSITRLARAHnlvvppsgR--TLSGGVDPTAL-YKPKRFFGAARNIE-----EGGSLTIVATALIEtGSRMDEVIFEEF 340
Cdd:COG1157 253 MDSLTRFAMAQ--------ReiGLAAGEPPATRgYPPSVFALLPRLLEragngGKGSITAFYTVLVE-GDDMNDPIADAV 323
|
250 260 270
....*....|....*....|....*....|
gi 499713145 341 KGT--GNmeLILDRRLAERRIFPAIDVKRS 368
Cdd:COG1157 324 RGIldGH--IVLSRKLAERGHYPAIDVLAS 351
|
|
| fliI |
PRK08927 |
flagellar protein export ATPase FliI; |
165-368 |
1.23e-11 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 236351 [Multi-domain] Cd Length: 442 Bit Score: 66.16 E-value: 1.23e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAIKTNYpeveLMILLIDERPEEVTD-IE---------RSVrgeVIS 234
Cdd:PRK08927 147 RALNTFLTCCRGQRMGIFAGSGVGKSVLLSMLARNADADV----SVIGLIGERGREVQEfLQddlgpeglaRSV---VVV 219
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 235 STFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVvppsgrTLSGGVDPTAL-YKPKRFFGAARNIE 313
Cdd:PRK08927 220 ATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREI------GLSAGEPPTTKgYTPTVFAELPRLLE 293
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 499713145 314 EGG-------SLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:PRK08927 294 RAGpgpigegTITGLFTVLVD-GDDHNEPVADAVRGILDGHIVMERAIAERGRYPAINVLKS 354
|
|
| fliI |
PRK07960 |
flagellum-specific ATP synthase FliI; |
145-368 |
5.50e-11 |
|
flagellum-specific ATP synthase FliI;
Pssm-ID: 181182 [Multi-domain] Cd Length: 455 Bit Score: 64.03 E-value: 5.50e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 145 TPIYPSERYTLETANgDPSARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANaiktnYPEVELMIL-LIDERPEEVTD 223
Cdd:PRK07960 145 PPFNPLQRTPIEHVL-DTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMAR-----YTQADVIVVgLIGERGREVKD 218
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 224 I-------ERSVRGEVISSTFDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHNLVV-----PPSGRtls 291
Cdd:PRK07960 219 FienilgaEGRARSVVIAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIAlaigePPATK--- 295
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 499713145 292 gGVDPTALYK-PKRFFGAARNIEEGGSLTIVATALIETGSRMDEvIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:PRK07960 296 -GYPPSVFAKlPALVERAGNGISGGGSITAFYTVLTEGDDQQDP-IADSARAILDGHIVLSRRLAEAGHYPAIDIEAS 371
|
|
| PRK08149 |
PRK08149 |
FliI/YscN family ATPase; |
130-368 |
2.34e-09 |
|
FliI/YscN family ATPase;
Pssm-ID: 236166 [Multi-domain] Cd Length: 428 Bit Score: 58.85 E-value: 2.34e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 130 ENPETAAERLHFDALTPIYpSERYTLET--ANGdpsARIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIanaIKTNYPEV 207
Cdd:PRK08149 107 PTVGPISEERVIDVAPPSY-AERRPIREplITG---VRAIDGLLTCGVGQRMGIFASAGCGKTSLMNML---IEHSEADV 179
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 208 eLMILLIDERPEEVTD----IERSVRGE---VISSTFDeFPE----NHVKVADMVlerAKRLVEHKKDVVVLLDSITRLA 276
Cdd:PRK08149 180 -FVIGLIGERGREVTEfvesLRASSRREkcvLVYATSD-FSSvdrcNAALVATTV---AEYFRDQGKRVVLFIDSMTRYA 254
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 277 RAHNLVV-----PPSGRTLSGGVD---PTALYKPKRFfgaarnieEGGSLTIVATALIETGSRMDeVIFEEFKGTGNMEL 348
Cdd:PRK08149 255 RALRDVAlaageLPARRGYPASVFdslPRLLERPGAT--------LAGSITAFYTVLLESEEEPD-PIGDEIRSILDGHI 325
|
250 260
....*....|....*....|
gi 499713145 349 ILDRRLAERRIFPAIDVKRS 368
Cdd:PRK08149 326 YLSRKLAAKGHYPAIDVLKS 345
|
|
| fliI |
PRK06002 |
flagellar protein export ATPase FliI; |
165-368 |
5.19e-09 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 235666 [Multi-domain] Cd Length: 450 Bit Score: 58.09 E-value: 5.19e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 165 RIIDLIAPIGKGQRALIVSPPKAGKTVLLKKIANAikTNYPEVelMILLIDERPEEVTD-IE--------RSVrgeVISS 235
Cdd:PRK06002 154 RVIDIFTPLCAGQRIGIFAGSGVGKSTLLAMLARA--DAFDTV--VIALVGERGREVREfLEdtladnlkKAV---AVVA 226
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 236 TFDEFPENHVKVADMvlerAKRLVEHKKD----VVVLLDSITRLARAHNLVvppsgrTLSGGVDPTALYKPKRFFG---- 307
Cdd:PRK06002 227 TSDESPMMRRLAPLT----ATAIAEYFRDrgenVLLIVDSVTRFAHAAREV------ALAAGEPPVARGYPPSVFSelpr 296
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 499713145 308 ----AARNIEEGGSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRS 368
Cdd:PRK06002 297 llerAGPGAEGGGSITGIFSVLVD-GDDHNDPVADSIRGTLDGHIVLDRAIAEQGRYPAVDPLAS 360
|
|
| fliI |
PRK08972 |
flagellar protein export ATPase FliI; |
142-418 |
3.59e-08 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181599 [Multi-domain] Cd Length: 444 Bit Score: 55.09 E-value: 3.59e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 142 DALTPIYPSERYTLETANGDPSAR------------IIDLIAPIGKGQRALIVSPPKAGKTVLLkkianAIKTNYPEVEL 209
Cdd:PRK08972 116 DGLGPIYTDQRASRHSPPINPLSRrpitepldvgvrAINAMLTVGKGQRMGLFAGSGVGKSVLL-----GMMTRGTTADV 190
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 210 MIL-LIDERPEEVTD-IE---------RSVrgeVISSTFDEFPENHVKVAdmvlERAKRLVEHKKD----VVVLLDSITR 274
Cdd:PRK08972 191 IVVgLVGERGREVKEfIEeilgeegraRSV---VVAAPADTSPLMRLKGC----ETATTIAEYFRDqglnVLLLMDSLTR 263
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 275 LARAHN---LVV--PPSGRtlsgGVDPTALYKPKRFFGAARNIEEG-GSLTIVATALIEtGSRMDEVIFEEFKGTGNMEL 348
Cdd:PRK08972 264 YAQAQReiaLAVgePPATK----GYPPSVFAKLPALVERAGNGGPGqGSITAFYTVLTE-GDDLQDPIADASRAILDGHI 338
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499713145 349 ILDRRLAERRIFPAIDVKRSgtrreelllsreelelvwnfrrVSSGMgPVEVTETLIDAMKKTKS-------NQDLL 418
Cdd:PRK08972 339 VLSRELADSGHYPAIDIEAS----------------------ISRVM-PMVISEEHLEAMRRVKQvyslyqqNRDLI 392
|
|
| PRK05922 |
PRK05922 |
type III secretion system ATPase; Validated |
102-291 |
1.15e-07 |
|
type III secretion system ATPase; Validated
Pssm-ID: 102061 [Multi-domain] Cd Length: 434 Bit Score: 53.75 E-value: 1.15e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 102 GDKVAGLVRPPKDNERFFALLRVEKVNGeNPETAAERLHFDALTPIY---PSERYTLETANGDPSA-RIIDLIAPIGKGQ 177
Cdd:PRK05922 80 GAEVLPLRRPPSLHLSDHLLGRVLDGFG-NPLDGKEQLPKTHLKPLFsspPSPMSRQPIQEIFPTGiKAIDAFLTLGKGQ 158
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 178 RALIVSPPKAGKTVLLKKIANAIKTNYPevelMILLIDERPEEVTD-IERSVRG------EVISSTFDEFPENHVKVADM 250
Cdd:PRK05922 159 RIGVFSEPGSGKSSLLSTIAKGSKSTIN----VIALIGERGREVREyIEQHKEGlaaqrtIIIASPAHETAPTKVIAGRA 234
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 499713145 251 VLERAKRLVEHKKDVVVLLDSITRLARAHNLVVPPSGRTLS 291
Cdd:PRK05922 235 AMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALARGETLS 275
|
|
| fliI |
PRK08472 |
flagellar protein export ATPase FliI; |
167-393 |
3.46e-07 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181439 [Multi-domain] Cd Length: 434 Bit Score: 52.00 E-value: 3.46e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 167 IDLIAPIGKGQRALIVSPPKAGKTVLLKKI---ANA-IKtnypevelMILLIDERPEEVTD-IERSVRGE-----VISST 236
Cdd:PRK08472 148 IDGLLTCGKGQKLGIFAGSGVGKSTLMGMIvkgCLApIK--------VVALIGERGREIPEfIEKNLGGDlentvIVVAT 219
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 237 FDEFPENHVKVADMVLERAKRLVEHKKDVVVLLDSITRLARAHN-----LVVPPSgrtlSGGVDPTALYKPKRFFGAARN 311
Cdd:PRK08472 220 SDDSPLMRKYGAFCAMSVAEYFKNQGLDVLFIMDSVTRFAMAQReiglaLGEPPT----SKGYPPSVLSLLPQLMERAGK 295
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 312 IEEGGSLTIVATALIEtGSRMDEVIFEEFKGTGNMELILDRRLAERRIFPAIDVKRSGTRREELLLSREELELVWNFRRV 391
Cdd:PRK08472 296 EEGKGSITAFFTVLVE-GDDMSDPIADQSRSILDGHIVLSRELTDFGIYPPINILNSASRVMNDIISPEHKLAARKFKRL 374
|
..
gi 499713145 392 SS 393
Cdd:PRK08472 375 YS 376
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
175-360 |
6.66e-06 |
|
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: 45.83 E-value: 6.66e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 175 KGQRALIVSPPKAGKTVLLKKIANAIKTNYPEVelmILLIDERPEEVTDIERSVRGEVISSTFDEFpenhvkvaDMVLER 254
Cdd:smart00382 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGV---IYIDGEDILEEVLDQLLLIIVGGKKASGSG--------ELRLRL 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 255 AKRLVEHKKDVVVLLDSITRLARAHNLvvppsgrtlsggvdptALYKPKRFFGAARNIEEGGSLTIVATALIETgsrmde 334
Cdd:smart00382 70 ALALARKLKPDVLILDEITSLLDAEQE----------------ALLLLLEELRLLLLLKSEKNLTVILTTNDEK------ 127
|
170 180
....*....|....*....|....*.
gi 499713145 335 vifeeFKGTGNMELILDRRLAERRIF 360
Cdd:smart00382 128 -----DLGPALLRRRFDRRIVLLLIL 148
|
|
| PRK07165 |
PRK07165 |
ATP F0F1 synthase subunit alpha; |
167-203 |
3.22e-04 |
|
ATP F0F1 synthase subunit alpha;
Pssm-ID: 235951 [Multi-domain] Cd Length: 507 Bit Score: 43.04 E-value: 3.22e-04
10 20 30
....*....|....*....|....*....|....*...
gi 499713145 167 IDLIAPIGKGQRALIVSPPKAGKT-VLLKKIANAIKTN 203
Cdd:PRK07165 134 IDLLIPIGKGQRELIIGDRQTGKThIALNTIINQKNTN 171
|
|
| RecA-like_superfamily |
cd01120 |
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
180-335 |
5.69e-04 |
|
RecA-like_NTPases; RecA-like NTPases. This superfamily 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: 410865 [Multi-domain] Cd Length: 119 Bit Score: 39.41 E-value: 5.69e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 180 LIVSPPKAGKTVLLKKIA-NAIKTNYPEVELMILliderpeevtdiersvrgevisstfdefpenhvkvaDMVLERAKRL 258
Cdd:cd01120 2 LITGPPGSGKTTLLLQFAeQALLSDEPVIFISFL------------------------------------DTILEAIEDL 45
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499713145 259 VEHKKDVVVLLDSITRLARAhnlvvppsgrtLSGGVDPTALYKPKRFFGAARNieegGSLTIVATALIETGSRMDEV 335
Cdd:cd01120 46 IEEKKLDIIIIDSLSSLARA-----------SQGDRSSELLEDLAKLLRAARN----TGITVIATIHSDKFDIDRGG 107
|
|
| OB_RNB |
pfam08206 |
Ribonuclease B OB domain; This family includes the N-terminal OB domain found in ribonuclease ... |
63-117 |
1.01e-03 |
|
Ribonuclease B OB domain; This family includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.
Pssm-ID: 429863 [Multi-domain] Cd Length: 58 Bit Score: 37.13 E-value: 1.01e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*.
gi 499713145 63 GILEILPDGYGFLRPfgyLASGDDIYISASQIRR-FDlrtGDKVagLVRPPKDNER 117
Cdd:pfam08206 1 GTVRGHKKGFGFLIP---DDEEDDIFIPPNQMKKaMH---GDRV--LVRITKGDRR 48
|
|
| spore_III_AA |
TIGR02858 |
stage III sporulation protein AA; Members of this protein are the stage III sporulation ... |
177-219 |
1.94e-03 |
|
stage III sporulation protein AA; Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation. [Cellular processes, Sporulation and germination]
Pssm-ID: 274324 Cd Length: 270 Bit Score: 40.02 E-value: 1.94e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 499713145 177 QRALIVSPPKAGKTVLLKKIANAIKTNYPEVELM---ILLIDERPE 219
Cdd:TIGR02858 112 LNTLIISPPQCGKTTLLRDLARILSTGISQLGLRgkkVGIVDERSE 157
|
|
| YddA |
COG4178 |
ABC-type uncharacterized transport system, permease and ATPase components [General function ... |
120-197 |
2.04e-03 |
|
ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only];
Pssm-ID: 443337 [Multi-domain] Cd Length: 571 Bit Score: 40.56 E-value: 2.04e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 120 ALLRVEKVNGENP---ETAAERLHFDALTpiypserytLETANGDPSARIIDL-IAPigkGQRALIVSPPKAGKTVLLKK 195
Cdd:COG4178 341 ALEAADALPEAASrieTSEDGALALEDLT---------LRTPDGRPLLEDLSLsLKP---GERLLITGPSGSGKSTLLRA 408
|
..
gi 499713145 196 IA 197
Cdd:COG4178 409 IA 410
|
|
| BREX_3_BrxF |
NF033453 |
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino ... |
180-283 |
4.05e-03 |
|
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino acids in length includes BrxF from type 3 BREX (bacteriophage exclusion) systems. Most members have the P-loop motif GxxGxGKT, but the region is surprisingly poorly conserved in a sizable fraction of otherwise strongly similar proteins.
Pssm-ID: 468038 Cd Length: 149 Bit Score: 37.47 E-value: 4.05e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499713145 180 LIVSPPKAGKTVLLKKIANaiKTNYPEVELMiLLIDERPEEVTDIERSVRgevISSTFDEfpenhvkvadmvlerakrLV 259
Cdd:NF033453 20 LLVGPPGSGKTALLRELAA--KRGAPVINVN-LELSRRLLELPEKQRALR---APRLLDE------------------IA 75
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 499713145 260 EHKKDVVVLLDSIT----------------RLARAHNLVV 283
Cdd:NF033453 76 EKSSGDVVLLDNIEilfdkhlkldplrllkRISRNRTVVA 115
|
|
| |
