|
Name |
Accession |
Description |
Interval |
E-value |
| rho |
PRK09376 |
transcription termination factor Rho; Provisional |
1-418 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 236490 [Multi-domain] Cd Length: 416 Bit Score: 865.61 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 1 MNLTELKSQPISKLVSLGESLGLENLARLRKQDIIFSILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:PRK09376 1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQAEKGGDIFGEGVLEILPDGFGFLRSPDANYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 81 VSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYDKPDNARNKILFENLTPLHANSRMRMERGNGstEDITAR 160
Cdd:PRK09376 81 VSPSQIRRFNLRTGDTVEGKIRPPKEGERYFALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETGNP--EDLSTR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 161 VLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRHV 240
Cdd:PRK09376 159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 241 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:PRK09376 239 QVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 321 VDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIVHPMSETDSMEFLI 400
Cdd:PRK09376 319 IDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKEELLLSPEELQKVWILRKILSPMDEVEAMEFLL 398
|
410
....*....|....*...
gi 491514535 401 DKLSMTKTNDEFFDAMRR 418
Cdd:PRK09376 399 DKLKKTKTNEEFFDSMNR 416
|
|
| Rho |
COG1158 |
Transcription termination factor Rho [Transcription]; |
43-420 |
0e+00 |
|
Transcription termination factor Rho [Transcription];
Pssm-ID: 440772 [Multi-domain] Cd Length: 373 Bit Score: 798.86 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 43 AKSGEDIFGDGVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYD 122
Cdd:COG1158 1 AEDDGLIPVEGVLEILPDGYGFLRS--SNYLPGPDDIYVSPSQIRRFGLRTGDAVTGQVRPPKEGEKYFALLRVESVNGE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 123 KPDNARNKILFENLTPLHANSRMRMERGngsTEDITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPEC 202
Cdd:COG1158 79 DPEEARKRPDFDNLTPLYPDERLRLETT---PDDLSTRVIDLVAPIGKGQRGLIVAPPKAGKTTLLQDIANAITANHPEV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 203 ELMVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSG 282
Cdd:COG1158 156 HLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPAERHVQVAELVIERAKRLVELGKDVVILLDSITRLARAYNLVVPASG 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 283 KVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATALVDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINR 362
Cdd:COG1158 236 RTLSGGVDANALYKPKRFFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINK 315
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*...
gi 491514535 363 SGTRREELLAKADELQKMWILRKIVHPMSETDSMEFLIDKLSMTKTNDEFFDAMRRQK 420
Cdd:COG1158 316 SGTRREELLLSPEELEKVWILRRALSGMDPVEAMEFLLDRLKKTKSNAEFLESMNKTT 373
|
|
| rho |
TIGR00767 |
transcription termination factor Rho; This RNA helicase, the transcription termination factor ... |
1-418 |
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: 796.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 1 MNLTELKSQPISKLVSLGESLGLENLARLRKQDIIFSILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:TIGR00767 1 YNIEELKNMPLEELRKLAEQLGVENTSSLKKQELIFAILKAHAEQGGLIFGEGVLEILPDGFGFLRSPDSSYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 81 VSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYDKPDNARNKILFENLTPLHANSRMRMErgnGSTEDITAR 160
Cdd:TIGR00767 81 VSPSQIRRFNLRTGDTIEGQIRSPKEGERYFALLKVESVNGDDPEKAKNRVLFENLTPLYPNERLRLE---TSTEDLSTR 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 161 VLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRHV 240
Cdd:TIGR00767 158 VLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 241 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:TIGR00767 238 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPASGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 321 VDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIVHPMSETDSMEFLI 400
Cdd:TIGR00767 318 IDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRIFPAIDIKKSGTRKEELLLTPEELQKIWVLRKIISPMDSIEAMEFLI 397
|
410
....*....|....*...
gi 491514535 401 DKLSMTKTNDEFFDAMRR 418
Cdd:TIGR00767 398 SKLKKTKTNEEFLESMKR 415
|
|
| rho_factor_C |
cd01128 |
C-terminal ATP binding domain of transcription termination factor rho; Transcription ... |
156-404 |
0e+00 |
|
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: 511.75 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 156 DITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLLIDERPEEVTEMQRLVKGEVIASTFDEP 235
Cdd:cd01128 1 ELSTRVIDLIAPIGKGQRGLIVAPPKAGKTTLLQNIANAIAKNHPEVELIVLLIDERPEEVTDMRRSVKGEVVASTFDEP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 236 ASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTI 315
Cdd:cd01128 81 PERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKTLSGGVDANALHKPKRFFGAARNIEEGGSLTI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 316 IATALVDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIVHPMSETDS 395
Cdd:cd01128 161 IATALVDTGSRMDEVIFEEFKGTGNMELVLDRKLAEKRIFPAIDILKSGTRKEELLLTPEELQKIWLLRRILSPMDPIEA 240
|
....*....
gi 491514535 396 MEFLIDKLS 404
Cdd:cd01128 241 MEFLLKKLK 249
|
|
| Rho_RNA_bind |
pfam07497 |
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly ... |
53-125 |
1.11e-43 |
|
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: 146.75 E-value: 1.11e-43
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 491514535 53 GVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYDKPD 125
Cdd:pfam07497 2 GILEILPDGYGFLRS--SNYLPGPDDIYVSPSQIRRFGLRTGDIVEGQVRPPKEGEKYFALLRVESVNGEDPE 72
|
|
| CSP |
smart00357 |
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ... |
53-116 |
3.85e-15 |
|
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: 69.55 E-value: 3.85e-15
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 491514535 53 GVLEILQDGFGFLRSADssylaGPDDIYVSPSQI--RRFNLRTGDTIAGKIRPPKDGERYFALLKV 116
Cdd:smart00357 2 GVVKWFNKGFGFIRPDD-----GGKDVFVHPSQIqgGLKSLREGDEVEFKVVSPEGGEKPEAENVV 62
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| rho |
PRK09376 |
transcription termination factor Rho; Provisional |
1-418 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 236490 [Multi-domain] Cd Length: 416 Bit Score: 865.61 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 1 MNLTELKSQPISKLVSLGESLGLENLARLRKQDIIFSILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:PRK09376 1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQAEKGGDIFGEGVLEILPDGFGFLRSPDANYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 81 VSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYDKPDNARNKILFENLTPLHANSRMRMERGNGstEDITAR 160
Cdd:PRK09376 81 VSPSQIRRFNLRTGDTVEGKIRPPKEGERYFALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETGNP--EDLSTR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 161 VLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRHV 240
Cdd:PRK09376 159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 241 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:PRK09376 239 QVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 321 VDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIVHPMSETDSMEFLI 400
Cdd:PRK09376 319 IDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKEELLLSPEELQKVWILRKILSPMDEVEAMEFLL 398
|
410
....*....|....*...
gi 491514535 401 DKLSMTKTNDEFFDAMRR 418
Cdd:PRK09376 399 DKLKKTKTNEEFFDSMNR 416
|
|
| Rho |
COG1158 |
Transcription termination factor Rho [Transcription]; |
43-420 |
0e+00 |
|
Transcription termination factor Rho [Transcription];
Pssm-ID: 440772 [Multi-domain] Cd Length: 373 Bit Score: 798.86 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 43 AKSGEDIFGDGVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYD 122
Cdd:COG1158 1 AEDDGLIPVEGVLEILPDGYGFLRS--SNYLPGPDDIYVSPSQIRRFGLRTGDAVTGQVRPPKEGEKYFALLRVESVNGE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 123 KPDNARNKILFENLTPLHANSRMRMERGngsTEDITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPEC 202
Cdd:COG1158 79 DPEEARKRPDFDNLTPLYPDERLRLETT---PDDLSTRVIDLVAPIGKGQRGLIVAPPKAGKTTLLQDIANAITANHPEV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 203 ELMVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSG 282
Cdd:COG1158 156 HLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPAERHVQVAELVIERAKRLVELGKDVVILLDSITRLARAYNLVVPASG 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 283 KVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATALVDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINR 362
Cdd:COG1158 236 RTLSGGVDANALYKPKRFFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINK 315
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*...
gi 491514535 363 SGTRREELLAKADELQKMWILRKIVHPMSETDSMEFLIDKLSMTKTNDEFFDAMRRQK 420
Cdd:COG1158 316 SGTRREELLLSPEELEKVWILRRALSGMDPVEAMEFLLDRLKKTKSNAEFLESMNKTT 373
|
|
| rho |
TIGR00767 |
transcription termination factor Rho; This RNA helicase, the transcription termination factor ... |
1-418 |
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: 796.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 1 MNLTELKSQPISKLVSLGESLGLENLARLRKQDIIFSILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:TIGR00767 1 YNIEELKNMPLEELRKLAEQLGVENTSSLKKQELIFAILKAHAEQGGLIFGEGVLEILPDGFGFLRSPDSSYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 81 VSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYDKPDNARNKILFENLTPLHANSRMRMErgnGSTEDITAR 160
Cdd:TIGR00767 81 VSPSQIRRFNLRTGDTIEGQIRSPKEGERYFALLKVESVNGDDPEKAKNRVLFENLTPLYPNERLRLE---TSTEDLSTR 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 161 VLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRHV 240
Cdd:TIGR00767 158 VLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 241 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:TIGR00767 238 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPASGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 321 VDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIVHPMSETDSMEFLI 400
Cdd:TIGR00767 318 IDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRIFPAIDIKKSGTRKEELLLTPEELQKIWVLRKIISPMDSIEAMEFLI 397
|
410
....*....|....*...
gi 491514535 401 DKLSMTKTNDEFFDAMRR 418
Cdd:TIGR00767 398 SKLKKTKTNEEFLESMKR 415
|
|
| PRK12678 |
PRK12678 |
transcription termination factor Rho; Provisional |
53-421 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 237171 [Multi-domain] Cd Length: 672 Bit Score: 607.67 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 53 GVLEILqDGFGFLRsaDSSYLAGPDDIYVSPSQIRRFNLRTGDTIAGKIRPPKDGER------YFALLKVNEVNYDKPDN 126
Cdd:PRK12678 298 GILDVL-DNYAFVR--TSGYLPGPNDVYVSMNQVRKNGLRKGDAVTGAVRAPREGEQgnqrqkFNPLVRLDSVNGMSPEE 374
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 127 ARNKILFENLTPLHANSRMRMErgngsTE--DITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECEL 204
Cdd:PRK12678 375 AKKRPEFGKLTPLYPNERLRLE-----TEpkKLTTRVIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITTNNPECHL 449
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 205 MVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKV 284
Cdd:PRK12678 450 MVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSITRLGRAYNLAAPASGRI 529
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 285 LTGGVDANALHRPKRFFGAARNVEEGGSLTIIATALVDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSG 364
Cdd:PRK12678 530 LSGGVDSTALYPPKRFFGAARNIENGGSLTIIATALVETGSKMDEVIFEEFKGTGNMELKLDRKLADKRIFPAVDVNASG 609
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*..
gi 491514535 365 TRREELLAKADELQKMWILRKIVHPMSETDSMEFLIDKLSMTKTNDEFFdaMRRQKS 421
Cdd:PRK12678 610 TRKEELLLSPDELAIVHKLRRVLSGLDSQQAIDLLISRLKKTKSNYEFL--MQVSKT 664
|
|
| PRK12608 |
PRK12608 |
transcription termination factor Rho; Provisional |
52-416 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 237150 [Multi-domain] Cd Length: 380 Bit Score: 558.16 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 52 DGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTIAGKIRPPkdgERYFALLKVNEVNYDKPDNARNKI 131
Cdd:PRK12608 20 LGVLEILGDGFGFLRSARRNYLPSPDDVFVPPALIRRFNLRTGDVVEGVARPR---ERYRVLVRVDSVNGTDPEKLARRP 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 132 LFENLTPLHANSRMRMERGngsTEDITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLLIDE 211
Cdd:PRK12608 97 HFDDLTPLHPRERLRLETG---SDDLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDE 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 212 RPEEVTEMQRLVKGEVIASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVDA 291
Cdd:PRK12608 174 RPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNNEVESSGRTLSGGVDA 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 292 NALHRPKRFFGAARNVEEGGSLTIIATALVDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELL 371
Cdd:PRK12608 254 RALQRPKRLFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKRVFPAIDIAKSGTRREELL 333
|
330 340 350 360
....*....|....*....|....*....|....*....|....*
gi 491514535 372 AKADELQKMWILRKIVHPMSETDSMEFLIDKLSMTKTNDEFFDAM 416
Cdd:PRK12608 334 LDSKELEKVRRLRRALASRKPVEAMEALLEKLRETPDNAEFLNSV 378
|
|
| rho_factor_C |
cd01128 |
C-terminal ATP binding domain of transcription termination factor rho; Transcription ... |
156-404 |
0e+00 |
|
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: 511.75 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 156 DITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLLIDERPEEVTEMQRLVKGEVIASTFDEP 235
Cdd:cd01128 1 ELSTRVIDLIAPIGKGQRGLIVAPPKAGKTTLLQNIANAIAKNHPEVELIVLLIDERPEEVTDMRRSVKGEVVASTFDEP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 236 ASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTI 315
Cdd:cd01128 81 PERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKTLSGGVDANALHKPKRFFGAARNIEEGGSLTI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 316 IATALVDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIVHPMSETDS 395
Cdd:cd01128 161 IATALVDTGSRMDEVIFEEFKGTGNMELVLDRKLAEKRIFPAIDILKSGTRKEELLLTPEELQKIWLLRRILSPMDPIEA 240
|
....*....
gi 491514535 396 MEFLIDKLS 404
Cdd:cd01128 241 MEFLLKKLK 249
|
|
| Rho_RNA_bind |
pfam07497 |
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly ... |
53-125 |
1.11e-43 |
|
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: 146.75 E-value: 1.11e-43
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 491514535 53 GVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNEVNYDKPD 125
Cdd:pfam07497 2 GILEILPDGYGFLRS--SNYLPGPDDIYVSPSQIRRFGLRTGDIVEGQVRPPKEGEKYFALLRVESVNGEDPE 72
|
|
| Rho_CSD |
cd04459 |
Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination ... |
51-118 |
1.67e-41 |
|
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: 141.22 E-value: 1.67e-41
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 491514535 51 GDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTIAGKIRPPKDGERYFALLKVNE 118
Cdd:cd04459 1 GSGVLEILPDGFGFLRSSGYNYLPGPDDIYVSPSQIRRFNLRTGDTVVGQIRPPKEGERYFALLKVEA 68
|
|
| ATP-synt_ab |
pfam00006 |
ATP synthase alpha/beta family, nucleotide-binding domain; This entry includes the ATP ... |
160-363 |
1.79e-25 |
|
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: 102.82 E-value: 1.79e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAqsiahNHPECELMVL-LIDERPEEVTEMQRLVKGE-------VIAST 231
Cdd:pfam00006 3 RAIDGLLPIGRGQRIGIFGGSGVGKTVLAGMIA-----RQASADVVVYaLIGERGREVREFIEELLGSgalkrtvVVVAT 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 232 FDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVL-----TGGVD---ANALHRpkrffgA 303
Cdd:pfam00006 78 SDEPPLARYRAPYTALTIAEYFRDQGKDVLLIMDSLTRFAEALREISLALGEPPgregyPPSVFsllARLLER------A 151
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 304 ARNVEEGGSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRS 363
Cdd:pfam00006 152 GRVKGKGGSITALPTVLVP-GDDITDPIPDNTRSILDGQIVLSRDLAEKGHYPAIDVLAS 210
|
|
| ATPase_flagellum-secretory_path_III |
cd01136 |
Flagellum-specific ATPase/type III secretory pathway virulence-related protein; ... |
160-366 |
3.21e-23 |
|
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: 98.02 E-value: 3.21e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAqsiahNHPECELMVL-LIDERPEEVTEMQRLVKGE-------VIAST 231
Cdd:cd01136 56 RAIDGLLTCGEGQRIGIFAGSGVGKSTLLGMIA-----RNTDADVNVIaLIGERGREVREFIEKDLGEeglkrsvLVVAT 130
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 232 FDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLT-GGVDANALHRPKRFFGAARNVEEg 310
Cdd:cd01136 131 SDESPLLRVRAAYTATAIAEYFRDQGKKVLLLMDSLTRFAMAQREVGLAAGEPPTrRGYPPSVFALLPRLLERAGNGEK- 209
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 491514535 311 GSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTR 366
Cdd:cd01136 210 GSITAFYTVLVE-GDDFNDPIADEVRSILDGHIVLSRRLAERGHYPAIDVLASISR 264
|
|
| PRK07594 |
PRK07594 |
EscN/YscN/HrcN family type III secretion system ATPase; |
160-385 |
5.13e-20 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 136438 [Multi-domain] Cd Length: 433 Bit Score: 91.55 E-value: 5.13e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLqniaqSIAHNHPECELMVL-LIDERPEEVTEM----------QRLVkgeVI 228
Cdd:PRK07594 144 RAIDSVATCGEGQRVGIFSAPGVGKSTLL-----AMLCNAPDADSNVLvLIGERGREVREFidftlseetrKRCV---IV 215
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 229 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTGGVdanalHRPKRFFGAARNVE 308
Cdd:PRK07594 216 VATSDRPALERVRALFVATTIAEFFRDNGKRVVLLADSLTRYARAAREIALAAGETAVSGE-----YPPGVFSALPRLLE 290
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 309 -----EGGSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWIL 383
Cdd:PRK07594 291 rtgmgEKGSITAFYTVLVE-GDDMNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVFPVVTSHEHRQLAAIL 369
|
..
gi 491514535 384 RK 385
Cdd:PRK07594 370 RR 371
|
|
| PRK06820 |
PRK06820 |
EscN/YscN/HrcN family type III secretion system ATPase; |
160-400 |
2.16e-19 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 180712 [Multi-domain] Cd Length: 440 Bit Score: 89.87 E-value: 2.16e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAqsiahNHPECELMVL-LIDERPEEVTEM----------QRLVkgeVI 228
Cdd:PRK06820 152 RAIDGILSCGEGQRIGIFAAAGVGKSTLLGMLC-----ADSAADVMVLaLIGERGREVREFleqvltpearARTV---VV 223
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 229 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKV-LTGGVDANALHRPKRFFGAARNV 307
Cdd:PRK06820 224 VATSDRPALERLKGLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREIGLAAGEPpAAGSFPPSVFANLPRLLERTGNS 303
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 308 EEGgSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIv 387
Cdd:PRK06820 304 DRG-SITAFYTVLVE-GDDMNEPVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIMPQIVSAGQLAMAQKLRRM- 380
|
250
....*....|...
gi 491514535 388 hpMSETDSMEFLI 400
Cdd:PRK06820 381 --LACYQEIELLV 391
|
|
| fliI |
PRK08927 |
flagellar protein export ATPase FliI; |
137-400 |
4.95e-17 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 236351 [Multi-domain] Cd Length: 442 Bit Score: 82.72 E-value: 4.95e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 137 TPLHANSRMRMergnGSTEDITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAhnhpeCELMVL-LIDERPEE 215
Cdd:PRK08927 128 PPPPAHSRARV----GEPLDLGVRALNTFLTCCRGQRMGIFAGSGVGKSVLLSMLARNAD-----ADVSVIgLIGERGRE 198
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 216 VTEM-------QRLVKGEVIASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSG-----K 283
Cdd:PRK08927 199 VQEFlqddlgpEGLARSVVVVATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLSAGeppttK 278
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 284 VLTGGVDANAlhrPKRFFGAARNVEEGGSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRS 363
Cdd:PRK08927 279 GYTPTVFAEL---PRLLERAGPGPIGEGTITGLFTVLVD-GDDHNEPVADAVRGILDGHIVMERAIAERGRYPAINVLKS 354
|
250 260 270
....*....|....*....|....*....|....*..
gi 491514535 364 GTRREELLAKADELQkmwILRKIVHPMSETDSMEFLI 400
Cdd:PRK08927 355 VSRTMPGCNDPEENP---LVRRARQLMATYADMEELI 388
|
|
| fliI |
PRK07196 |
flagellar protein export ATPase FliI; |
156-381 |
3.32e-16 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 180875 [Multi-domain] Cd Length: 434 Bit Score: 79.93 E-value: 3.32e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 156 DITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQsiahnHPECELMVL-LIDERPEEVTEM-------QRLVKGEV 227
Cdd:PRK07196 140 DVGVNAINGLLTIGKGQRVGLMAGSGVGKSVLLGMITR-----YTQADVVVVgLIGERGREVKEFiehslqaAGMAKSVV 214
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 228 IASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKV-LTGGVDANALHRPKRFFGAARN 306
Cdd:PRK07196 215 VAAPADESPLMRIKATELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIALSLGEPpATKGYPPSAFSIIPRLAESAGN 294
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 307 VEEGGSLTIIATALVDTGSKMDEVIyEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKAD------ELQKM 380
Cdd:PRK07196 295 SSGNGTMTAIYTVLAEGDDQQDPIV-DCARAVLDGHIVLSRKLAEAGHYPAIDISQSISRCMSQVIGSQqakaasLLKQC 373
|
.
gi 491514535 381 W 381
Cdd:PRK07196 374 Y 374
|
|
| RecA-like_ion-translocating_ATPases |
cd19476 |
RecA-like domain of ion-translocating ATPases; RecA-like NTPases. This family includes the ... |
160-366 |
7.66e-16 |
|
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: 77.11 E-value: 7.66e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHPECeLMVLLIDERPEEVTE-MQRLVKGE------VIASTF 232
Cdd:cd19476 56 KVIDLLAPYGRGQKIGIFGGSGVGKTVLAMQLARNQAKAHAGV-VVFAGIGERGREVNDlYEEFTKSGamertvVVANTA 134
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 233 DEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTV------IPSS----GKVLTggvDANALHrpKRffg 302
Cdd:cd19476 135 NDPPGARMRVPYTGLTIAEYFRDNGQHVLLIIDDISRYAEALREMsallgePPGRegypPYLFT---KLATLY--ER--- 206
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 491514535 303 AARNVEEGGSLTIIATALVDTGSKMDEVIYEEFKGTgNMELHLSRKIAEKRVFPAIDINRSGTR 366
Cdd:cd19476 207 AGKVKDGGGSITAIPAVSTPGDDLTDPIPDNTFAIL-DGQIVLSRELARKGIYPAINVLDSTSR 269
|
|
| CSP |
smart00357 |
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ... |
53-116 |
3.85e-15 |
|
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: 69.55 E-value: 3.85e-15
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 491514535 53 GVLEILQDGFGFLRSADssylaGPDDIYVSPSQI--RRFNLRTGDTIAGKIRPPKDGERYFALLKV 116
Cdd:smart00357 2 GVVKWFNKGFGFIRPDD-----GGKDVFVHPSQIqgGLKSLREGDEVEFKVVSPEGGEKPEAENVV 62
|
|
| FliI |
COG1157 |
Flagellar biosynthesis/type III secretory pathway ATPase FliI [Cell motility, Intracellular ... |
160-363 |
1.47e-14 |
|
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: 75.07 E-value: 1.47e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQR-GlIVAPPKAGKTMLLQNIAQsiahnHPECELMVL-LIDERPEEVTE----------MQRLVkgeV 227
Cdd:COG1157 146 RAIDGLLTVGRGQRiG-IFAGSGVGKSTLLGMIAR-----NTEADVNVIaLIGERGREVREfieddlgeegLARSV---V 216
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 228 IASTFDEPASRHVQVAEMviekAKRLVEH----KKDVVILLDSITRLARA----------------YntviPSSgkvltg 287
Cdd:COG1157 217 VVATSDEPPLMRLRAAYT----ATAIAEYfrdqGKNVLLLMDSLTRFAMAqreiglaageppatrgY----PPS------ 282
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 288 gvdanalhrpkrFFGA-ARNVE-----EGGSLTIIATALVDtGSKMDEVIYEEFKGT--GnmelH--LSRKIAEKRVFPA 357
Cdd:COG1157 283 ------------VFALlPRLLEragngGKGSITAFYTVLVE-GDDMNDPIADAVRGIldG----HivLSRKLAERGHYPA 345
|
....*.
gi 491514535 358 IDINRS 363
Cdd:COG1157 346 IDVLAS 351
|
|
| fliI |
PRK07721 |
flagellar protein export ATPase FliI; |
160-400 |
1.87e-14 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181092 [Multi-domain] Cd Length: 438 Bit Score: 74.76 E-value: 1.87e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQsiahnHPECELMVL-LIDERPEEVTE-MQR------LVKGEVIAST 231
Cdd:PRK07721 147 RAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMIAR-----NTSADLNVIaLIGERGREVREfIERdlgpegLKRSIVVVAT 221
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 232 FDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTV-----IPSSGKVLTGGVDANAlhrPKRFFGAARN 306
Cdd:PRK07721 222 SDQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREIglavgEPPTTKGYTPSVFAIL---PKLLERTGTN 298
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 307 veEGGSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKI 386
Cdd:PRK07721 299 --ASGSITAFYTVLVD-GDDMNEPIADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVMNHIVSPEHKEAANRFREL 375
|
250
....*....|....
gi 491514535 387 vhpMSETDSMEFLI 400
Cdd:PRK07721 376 ---LSTYQNSEDLI 386
|
|
| PRK06936 |
PRK06936 |
EscN/YscN/HrcN family type III secretion system ATPase; |
160-400 |
2.20e-14 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 180762 [Multi-domain] Cd Length: 439 Bit Score: 74.40 E-value: 2.20e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQsiahnHPECELMVL-LIDERPEEVTEM-------QRLVKGEVIAST 231
Cdd:PRK06936 151 RVIDGLLTCGEGQRMGIFAAAGGGKSTLLASLIR-----SAEVDVTVLaLIGERGREVREFiesdlgeEGLRKAVLVVAT 225
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 232 FDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVLTggvdanalHR---PKRFFGAARNVE 308
Cdd:PRK06936 226 SDRPSMERAKAGFVATSIAEYFRDQGKRVLLLMDSVTRFARAQREIGLAAGEPPT--------RRgypPSVFAALPRLME 297
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 309 -----EGGSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWIL 383
Cdd:PRK06936 298 ragqsDKGSITALYTVLVE-GDDMTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMNQIVSKEHKTWAGRL 376
|
250
....*....|....*..
gi 491514535 384 RKIvhpMSETDSMEFLI 400
Cdd:PRK06936 377 REL---LAKYEEVELLL 390
|
|
| Rho_N |
smart00959 |
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ... |
5-47 |
3.79e-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.
Pssm-ID: 198027 [Multi-domain] Cd Length: 43 Bit Score: 66.24 E-value: 3.79e-14
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 491514535 5 ELKSQPISKLVSLGESLGLENLARLRKQDIIFSILKQHAKSGE 47
Cdd:smart00959 1 ELKKKTLSELLEIAKELGIENASRLRKQELIFAILKAQAKKGG 43
|
|
| PRK08149 |
PRK08149 |
FliI/YscN family ATPase; |
169-366 |
7.21e-14 |
|
FliI/YscN family ATPase;
Pssm-ID: 236166 [Multi-domain] Cd Length: 428 Bit Score: 72.72 E-value: 7.21e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 169 GKGQRGLIVAPPKAGKTMLLQNIAqsiahNHPECELMVL-LIDERPEEVTE----MQRLVKGE---VIASTFDEPASRHV 240
Cdd:PRK08149 149 GVGQRMGIFASAGCGKTSLMNMLI-----EHSEADVFVIgLIGERGREVTEfvesLRASSRREkcvLVYATSDFSSVDRC 223
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 241 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKV-LTGGVDANA-------LHRPKRFfgaarnveEGGS 312
Cdd:PRK08149 224 NAALVATTVAEYFRDQGKRVVLFIDSMTRYARALRDVALAAGELpARRGYPASVfdslprlLERPGAT--------LAGS 295
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....
gi 491514535 313 LTIIATALVDTGSKMDeVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTR 366
Cdd:PRK08149 296 ITAFYTVLLESEEEPD-PIGDEIRSILDGHIYLSRKLAAKGHYPAIDVLKSVSR 348
|
|
| Rho_N |
pfam07498 |
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ... |
5-47 |
1.73e-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 (pfam07497).
Pssm-ID: 429493 [Multi-domain] Cd Length: 43 Bit Score: 64.32 E-value: 1.73e-13
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 491514535 5 ELKSQPISKLVSLGESLGLENLARLRKQDIIFSILKQHAKSGE 47
Cdd:pfam07498 1 ELKEKTLSELREIAKELGIENYSRLRKQELIFAILKAQAEKGG 43
|
|
| PRK09099 |
PRK09099 |
type III secretion system ATPase; Provisional |
123-378 |
2.08e-13 |
|
type III secretion system ATPase; Provisional
Pssm-ID: 169656 [Multi-domain] Cd Length: 441 Bit Score: 71.34 E-value: 2.08e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 123 KPDNARNKILFENLTPLHANSRMRMERGNGSTEDITA-RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIahnhpE 201
Cdd:PRK09099 114 EPIDGGGPLDCDELVPVIAAPPDPMSRRMVEAPLPTGvRIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFARGT-----Q 188
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 202 CELMVL-LIDERPEEVTEMQRLVKGE-------VIASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARA 273
Cdd:PRK09099 189 CDVNVIaLIGERGREVREFIELILGEdgmarsvVVCATSDRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARA 268
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 274 YNTVIPSSGKVLTggvdanalHR---PKRFFGAARNVE-----EGGSLTIIATALV--DTGSkmdEVIYEEFKGTGNMEL 343
Cdd:PRK09099 269 QREIGLAAGEPPA--------RRgfpPSVFAELPRLLEragmgETGSITALYTVLAedESGS---DPIAEEVRGILDGHM 337
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|.
gi 491514535 344 HLSRKIAEKRVFPAIDI----------------NRSGTRREELLAKADELQ 378
Cdd:PRK09099 338 ILSREIAARNQYPAIDVlgslsrvmpqvvprehVQAAGRLRQLLAKHREVE 388
|
|
| fliI |
PRK06002 |
flagellar protein export ATPase FliI; |
134-393 |
2.98e-13 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 235666 [Multi-domain] Cd Length: 450 Bit Score: 71.18 E-value: 2.98e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 134 ENLTPlHANSRMRMERG--NGsteditARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNhpecELMVLLIDE 211
Cdd:PRK06002 133 DATAP-PAMTRARVETGlrTG------VRVIDIFTPLCAGQRIGIFAGSGVGKSTLLAMLARADAFD----TVVIALVGE 201
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 212 RPEEVTEM------QRLVKGEVIASTFDE-PASRhvqvaEMVIEKAKRLVEHKKD----VVILLDSITRLARAYNTVIPS 280
Cdd:PRK06002 202 RGREVREFledtlaDNLKKAVAVVATSDEsPMMR-----RLAPLTATAIAEYFRDrgenVLLIVDSVTRFAHAAREVALA 276
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 281 SGKvltggvDANALHRPKRFFG--------AARNVEEGGSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEK 352
Cdd:PRK06002 277 AGE------PPVARGYPPSVFSelprllerAGPGAEGGGSITGIFSVLVD-GDDHNDPVADSIRGTLDGHIVLDRAIAEQ 349
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 491514535 353 RVFPAIDINRSGTRreelLAK----ADELQKMWILRKIVHPMSET 393
Cdd:PRK06002 350 GRYPAVDPLASISR----LARhawtPEQRKLVSRLKSMIARFEET 390
|
|
| fliI |
PRK06793 |
flagellar protein export ATPase FliI; |
97-411 |
2.06e-12 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 180696 [Multi-domain] Cd Length: 432 Bit Score: 68.47 E-value: 2.06e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 97 IAGKIRPPKDGERYFALLKVN-EVNYDKPDNARNKILFENLTPLHANSRMRMErgngSTEDITARVLDLASPIGKGQRGL 175
Cdd:PRK06793 85 IAEDVVIPRGNHLLGKVLSANgEVLNEEAENIPLQKIKLDAPPIHAFEREEIT----DVFETGIKSIDSMLTIGIGQKIG 160
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 176 IVAPPKAGKTMLLQNIAQSiahnhPECELMVL-LIDERPEEVTEMQRLVKGE-------VIASTFDEPASRHVQVAEMVI 247
Cdd:PRK06793 161 IFAGSGVGKSTLLGMIAKN-----AKADINVIsLVGERGREVKDFIRKELGEegmrksvVVVATSDESHLMQLRAAKLAT 235
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 248 EKAKRLVEHKKDVVILLDSITRLARAYNTV------IPSSGK-VLTGGVDANALHRPKRffgaarnvEEGGSLTIIATAL 320
Cdd:PRK06793 236 SIAEYFRDQGNNVLLMMDSVTRFADARRSVdiavkeLPIGGKtLLMESYMKKLLERSGK--------TQKGSITGIYTVL 307
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 321 VDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKMWILRKIVHPMSETDsmefLI 400
Cdd:PRK06793 308 VD-GDDLNGPVPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIMEEIVSPNHWQLANEMRKILSIYKENE----LY 382
|
330
....*....|.
gi 491514535 401 DKLSMTKTNDE 411
Cdd:PRK06793 383 FKLGTIQENAE 393
|
|
| fliI |
PRK05688 |
flagellar protein export ATPase FliI; |
168-380 |
3.86e-10 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 168181 [Multi-domain] Cd Length: 451 Bit Score: 61.28 E-value: 3.86e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 168 IGKGQRGLIVAPPKAGKTMLLQNIAQsiahnHPECELMVL-LIDERPEEVTEMQRLVKGE-------VIASTFDEPASRH 239
Cdd:PRK05688 165 VGRGQRLGLFAGTGVGKSVLLGMMTR-----FTEADIIVVgLIGERGREVKEFIEHILGEeglkrsvVVASPADDAPLMR 239
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 240 VQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKV-LTGGVDANALHRPKRFFGAARNVEEG-GSLTIIA 317
Cdd:PRK05688 240 LRAAMYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQREIALAIGEPpATKGYPPSVFAKLPKLVERAGNAEPGgGSITAFY 319
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 491514535 318 TALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKADELQKM 380
Cdd:PRK05688 320 TVLSE-GDDQQDPIADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRVMPQVVDPEHLRRA 381
|
|
| RecA-like_superfamily |
cd01120 |
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
174-336 |
1.25e-07 |
|
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: 49.81 E-value: 1.25e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 174 GLIVAPPKAGKTMLLQNIAQSIAHNhpecelmvlliderpeevtemqrlVKGEVIASTFDepasrhvqvaeMVIEKAKRL 253
Cdd:cd01120 1 ILITGPPGSGKTTLLLQFAEQALLS------------------------DEPVIFISFLD-----------TILEAIEDL 45
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 254 VEHKKDVVILLDSITRLARAYntvipssgkvlTGGVDANALHRPKRFFGAARNveegGSLTIIATALVDT------GSKM 327
Cdd:cd01120 46 IEEKKLDIIIIDSLSSLARAS-----------QGDRSSELLEDLAKLLRAARN----TGITVIATIHSDKfdidrgGSSN 110
|
....*....
gi 491514535 328 DEVIYEEFK 336
Cdd:cd01120 111 DERLLKSLR 119
|
|
| fliI |
PRK07960 |
flagellum-specific ATP synthase FliI; |
156-366 |
2.99e-07 |
|
flagellum-specific ATP synthase FliI;
Pssm-ID: 181182 [Multi-domain] Cd Length: 455 Bit Score: 52.48 E-value: 2.99e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 156 DITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIAQsiahnHPECELMVL-LIDERPEEVTEMQRLVKGE-------V 227
Cdd:PRK07960 160 DTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMAR-----YTQADVIVVgLIGERGREVKDFIENILGAegrarsvV 234
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 228 IASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKV-LTGGVDANALHR-PKRFFGAAR 305
Cdd:PRK07960 235 IAAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPpATKGYPPSVFAKlPALVERAGN 314
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 491514535 306 NVEEGGSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTR 366
Cdd:PRK07960 315 GISGGGSITAFYTVLTE-GDDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISR 374
|
|
| PRK05922 |
PRK05922 |
type III secretion system ATPase; Validated |
160-314 |
4.35e-07 |
|
type III secretion system ATPase; Validated
Pssm-ID: 102061 [Multi-domain] Cd Length: 434 Bit Score: 51.83 E-value: 4.35e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 160 RVLDLASPIGKGQRGLIVAPPKAGKTMLLQNIA----QSIAhnhpecelMVLLIDERPEEVTE----------MQRLVkg 225
Cdd:PRK05922 146 KAIDAFLTLGKGQRIGVFSEPGSGKSSLLSTIAkgskSTIN--------VIALIGERGREVREyieqhkeglaAQRTI-- 215
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 226 eVIASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVIPSSGKVL-TGGVDANALHRPKRFFGAA 304
Cdd:PRK05922 216 -IIASPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALARGETLsAHHYAASVFHHVSEFTERA 294
|
170
....*....|
gi 491514535 305 RNvEEGGSLT 314
Cdd:PRK05922 295 GN-NDKGSIT 303
|
|
| fliI |
PRK08972 |
flagellar protein export ATPase FliI; |
156-386 |
8.00e-06 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181599 [Multi-domain] Cd Length: 444 Bit Score: 47.77 E-value: 8.00e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 156 DITARVLDLASPIGKGQRGLIVAPPKAGKTMLLQ-----NIAQSIahnhpecelMVLLIDERPEEVTEMQRLVKGEvias 230
Cdd:PRK08972 147 DVGVRAINAMLTVGKGQRMGLFAGSGVGKSVLLGmmtrgTTADVI---------VVGLVGERGREVKEFIEEILGE---- 213
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 231 tfdEPASRHVQVAE-------MVI---EKAKRLVEHKKD----VVILLDSITRLARAYNTVIPSSGKV-LTGGVDANALH 295
Cdd:PRK08972 214 ---EGRARSVVVAApadtsplMRLkgcETATTIAEYFRDqglnVLLLMDSLTRYAQAQREIALAVGEPpATKGYPPSVFA 290
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 296 RPKRFFGAARNVEEG-GSLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTRREELLAKA 374
Cdd:PRK08972 291 KLPALVERAGNGGPGqGSITAFYTVLTE-GDDLQDPIADASRAILDGHIVLSRELADSGHYPAIDIEASISRVMPMVISE 369
|
250
....*....|..
gi 491514535 375 DELQKMWILRKI 386
Cdd:PRK08972 370 EHLEAMRRVKQV 381
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
170-319 |
4.53e-05 |
|
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: 43.52 E-value: 4.53e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 170 KGQRGLIVAPPKAGKTMLLQNIAQSIAhnhPECELMVLLIDERPEEVTEMQRLVKGEVIASTFDEPASRhvqvaemvIEK 249
Cdd:smart00382 1 PGEVILIVGPPGSGKTTLARALARELG---PPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELR--------LRL 69
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 250 AKRLVEHKKDVVILLDSITRLARAyNTVIPSSGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATA 319
Cdd:smart00382 70 ALALARKLKPDVLILDEITSLLDA-EQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRRRF 138
|
|
| fliI |
PRK08472 |
flagellar protein export ATPase FliI; |
169-366 |
5.84e-05 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181439 [Multi-domain] Cd Length: 434 Bit Score: 45.06 E-value: 5.84e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 169 GKGQRGLIVAPPKAGKTMLLQNIAQSiahnhpeCEL---MVLLIDERPEEVTE-MQRLVKGE------VIASTFDEPASR 238
Cdd:PRK08472 155 GKGQKLGIFAGSGVGKSTLMGMIVKG-------CLApikVVALIGERGREIPEfIEKNLGGDlentviVVATSDDSPLMR 227
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 239 H------VQVAEMVIEKAKrlvehkkDVVILLDSITRLARAYNTVIPSSGKVLTG-GVDANALHRPKRFFGAARNVEEGG 311
Cdd:PRK08472 228 KygafcaMSVAEYFKNQGL-------DVLFIMDSVTRFAMAQREIGLALGEPPTSkGYPPSVLSLLPQLMERAGKEEGKG 300
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 491514535 312 SLTIIATALVDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDINRSGTR 366
Cdd:PRK08472 301 SITAFFTVLVE-GDDMSDPIADQSRSILDGHIVLSRELTDFGIYPPINILNSASR 354
|
|
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
53-110 |
1.73e-04 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 43.94 E-value: 1.73e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 491514535 53 GVLEILQDGFGFLRSADssylaGPDDIYVSPSQIRrfNLRTGDTIAGKIRPPKDGERY 110
Cdd:COG0557 72 GRVRGHRDGFGFVIPDD-----GEEDIFIPPRELN--GALHGDRVLVRVTKEDRRGRP 122
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
168-270 |
3.57e-03 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 39.11 E-value: 3.57e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 168 IGKGQRGLIVAPPKAGKTMLLQNIAQSIAHNHP----ECE-LMVLLID-ERPEEVTE--MQRLVKG-----EVIASTFDE 234
Cdd:COG3598 10 LPEGGVTLLAGPPGTGKSFLALQLAAAVAAGGPwlgrRVPpGKVLYLAaEDDRGELRrrLKALGADlglpfADLDGRLRL 89
|
90 100 110
....*....|....*....|....*....|....*.
gi 491514535 235 PASRHVQVAEMVIEKAKRLVEHKKDVVILLDSITRL 270
Cdd:COG3598 90 LSLAGDLDDTDDLEALERAIEEEGPDLVVIDPLARV 125
|
|
| AAA_22 |
pfam13401 |
AAA domain; |
174-265 |
9.92e-03 |
|
AAA domain;
Pssm-ID: 379165 [Multi-domain] Cd Length: 129 Bit Score: 36.17 E-value: 9.92e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 491514535 174 GLIVAPPKAGKTMLLQNIAQSIAHNHPECELMVLliderPEEVTEMQRLvkgEVIASTFDEPASRHVQVAEMVIEKAKRL 253
Cdd:pfam13401 8 LVLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDL-----PSGTSPKDLL---RALLRALGLPLSGRLSKEELLAALQQLL 79
|
90
....*....|..
gi 491514535 254 VEHKKDVVILLD 265
Cdd:pfam13401 80 LALAVAVVLIID 91
|
|
| |
