|
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: 866.76 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 1 MNLTELKNTPVSDLITLGENMGLENQARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:PRK09376 1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQAEKGGDIFGEGVLEILPDGFGFLRSPDANYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 81 VSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYDKPENSRNKILFENLTPLHANSRLRMERGNGstEDLTAR 160
Cdd:PRK09376 81 VSPSQIRRFNLRTGDTVEGKIRPPKEGERYFALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETGNP--EDLSTR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 161 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHV 240
Cdd:PRK09376 159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 241 QVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:PRK09376 239 QVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 321 IDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLI 400
Cdd:PRK09376 319 IDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKEELLLSPEELQKVWILRKILSPMDEVEAMEFLL 398
|
410
....*....|....*...
gi 1603843987 401 NKLAMTKTNDDFFDMMKR 418
Cdd:PRK09376 399 DKLKKTKTNEEFFDSMNR 416
|
|
| 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: 813.15 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 1 MNLTELKNTPVSDLITLGENMGLENQARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:TIGR00767 1 YNIEELKNMPLEELRKLAEQLGVENTSSLKKQELIFAILKAHAEQGGLIFGEGVLEILPDGFGFLRSPDSSYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 81 VSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYDKPENSRNKILFENLTPLHANSRLRMErgnGSTEDLTAR 160
Cdd:TIGR00767 81 VSPSQIRRFNLRTGDTIEGQIRSPKEGERYFALLKVESVNGDDPEKAKNRVLFENLTPLYPNERLRLE---TSTEDLSTR 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 161 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHV 240
Cdd:TIGR00767 158 VLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 241 QVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:TIGR00767 238 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPASGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 321 IDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLI 400
Cdd:TIGR00767 318 IDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRIFPAIDIKKSGTRKEELLLTPEELQKIWVLRKIISPMDSIEAMEFLI 397
|
410
....*....|....*...
gi 1603843987 401 NKLAMTKTNDDFFDMMKR 418
Cdd:TIGR00767 398 SKLKKTKTNEEFLESMKR 415
|
|
| Rho |
COG1158 |
Transcription termination factor Rho [Transcription]; |
43-419 |
0e+00 |
|
Transcription termination factor Rho [Transcription];
Pssm-ID: 440772 [Multi-domain] Cd Length: 373 Bit Score: 793.46 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 43 AKSGEDIFGDGVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYD 122
Cdd:COG1158 1 AEDDGLIPVEGVLEILPDGYGFLRS--SNYLPGPDDIYVSPSQIRRFGLRTGDAVTGQVRPPKEGEKYFALLRVESVNGE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 123 KPENSRNKILFENLTPLHANSRLRMERGngsTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDC 202
Cdd:COG1158 79 DPEEARKRPDFDNLTPLYPDERLRLETT---PDDLSTRVIDLVAPIGKGQRGLIVAPPKAGKTTLLQDIANAITANHPEV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 203 VLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASG 282
Cdd:COG1158 156 HLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPAERHVQVAELVIERAKRLVELGKDVVILLDSITRLARAYNLVVPASG 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 283 KVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNR 362
Cdd:COG1158 236 RTLSGGVDANALYKPKRFFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINK 315
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*..
gi 1603843987 363 SGTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLINKLAMTKTNDDFFDMMKRS 419
Cdd:COG1158 316 SGTRREELLLSPEELEKVWILRRALSGMDPVEAMEFLLDRLKKTKSNAEFLESMNKT 372
|
|
| 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: 513.68 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 156 DLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEP 235
Cdd:cd01128 1 ELSTRVIDLIAPIGKGQRGLIVAPPKAGKTTLLQNIANAIAKNHPEVELIVLLIDERPEEVTDMRRSVKGEVVASTFDEP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 236 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTI 315
Cdd:cd01128 81 PERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKTLSGGVDANALHKPKRFFGAARNIEEGGSLTI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 316 IATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEIDA 395
Cdd:cd01128 161 IATALVDTGSRMDEVIFEEFKGTGNMELVLDRKLAEKRIFPAIDILKSGTRKEELLLTPEELQKIWLLRRILSPMDPIEA 240
|
....*....
gi 1603843987 396 MEFLINKLA 404
Cdd:cd01128 241 MEFLLKKLK 249
|
|
| Rho_RNA_bind |
pfam07497 |
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly ... |
53-125 |
2.38e-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: 148.68 E-value: 2.38e-44
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1603843987 53 GVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYDKPE 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 |
4.88e-16 |
|
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: 72.25 E-value: 4.88e-16
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1603843987 53 GVLEILQDGFGFLRSADssylaGPDDIYVSPSQI--RRFNLRTGDTISGKIRPPKEGERYFALLKV 116
Cdd:smart00357 2 GVVKWFNKGFGFIRPDD-----GGKDVFVHPSQIqgGLKSLREGDEVEFKVVSPEGGEKPEAENVV 62
|
|
| BREX_3_BrxF |
NF033453 |
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino ... |
175-267 |
5.40e-04 |
|
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: 40.17 E-value: 5.40e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 175 LIVAPPKAGKTMLLQNIAQSIAYnhpdCVLMV-LLIDERPEEVTEMQrlvkgevvastfdepasRHVQVAEMViekaKRL 253
Cdd:NF033453 20 LLVGPPGSGKTALLRELAAKRGA----PVINVnLELSRRLLELPEKQ-----------------RALRAPRLL----DEI 74
|
90
....*....|....
gi 1603843987 254 VEHKKDVIILLDSI 267
Cdd:NF033453 75 AEKSSGDVVLLDNI 88
|
|
| |
|
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: 866.76 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 1 MNLTELKNTPVSDLITLGENMGLENQARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:PRK09376 1 MNLSELKNKSLSELLELAEELGIENASRLRKQELIFAILKAQAEKGGDIFGEGVLEILPDGFGFLRSPDANYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 81 VSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYDKPENSRNKILFENLTPLHANSRLRMERGNGstEDLTAR 160
Cdd:PRK09376 81 VSPSQIRRFNLRTGDTVEGKIRPPKEGERYFALLKVETVNGEDPEKARNRPLFENLTPLYPNERLRLETGNP--EDLSTR 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 161 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHV 240
Cdd:PRK09376 159 IIDLIAPIGKGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 241 QVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:PRK09376 239 QVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 321 IDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLI 400
Cdd:PRK09376 319 IDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINRSGTRKEELLLSPEELQKVWILRKILSPMDEVEAMEFLL 398
|
410
....*....|....*...
gi 1603843987 401 NKLAMTKTNDDFFDMMKR 418
Cdd:PRK09376 399 DKLKKTKTNEEFFDSMNR 416
|
|
| 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: 813.15 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 1 MNLTELKNTPVSDLITLGENMGLENQARMRKQDIIFAILKQHAKSGEDIFGDGVLEILQDGFGFLRSADSSYLAGPDDIY 80
Cdd:TIGR00767 1 YNIEELKNMPLEELRKLAEQLGVENTSSLKKQELIFAILKAHAEQGGLIFGEGVLEILPDGFGFLRSPDSSYLPGPDDIY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 81 VSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYDKPENSRNKILFENLTPLHANSRLRMErgnGSTEDLTAR 160
Cdd:TIGR00767 81 VSPSQIRRFNLRTGDTIEGQIRSPKEGERYFALLKVESVNGDDPEKAKNRVLFENLTPLYPNERLRLE---TSTEDLSTR 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 161 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHV 240
Cdd:TIGR00767 158 VLDLFAPIGKGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHV 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 241 QVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATAL 320
Cdd:TIGR00767 238 QVAEMVIEKAKRLVEHKKDVVILLDSITRLARAYNTVTPASGKVLSGGVDANALHRPKRFFGAARNIEEGGSLTIIATAL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 321 IDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLI 400
Cdd:TIGR00767 318 IDTGSRMDEVIFEEFKGTGNMELHLDRKLADRRIFPAIDIKKSGTRKEELLLTPEELQKIWVLRKIISPMDSIEAMEFLI 397
|
410
....*....|....*...
gi 1603843987 401 NKLAMTKTNDDFFDMMKR 418
Cdd:TIGR00767 398 SKLKKTKTNEEFLESMKR 415
|
|
| Rho |
COG1158 |
Transcription termination factor Rho [Transcription]; |
43-419 |
0e+00 |
|
Transcription termination factor Rho [Transcription];
Pssm-ID: 440772 [Multi-domain] Cd Length: 373 Bit Score: 793.46 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 43 AKSGEDIFGDGVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYD 122
Cdd:COG1158 1 AEDDGLIPVEGVLEILPDGYGFLRS--SNYLPGPDDIYVSPSQIRRFGLRTGDAVTGQVRPPKEGEKYFALLRVESVNGE 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 123 KPENSRNKILFENLTPLHANSRLRMERGngsTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDC 202
Cdd:COG1158 79 DPEEARKRPDFDNLTPLYPDERLRLETT---PDDLSTRVIDLVAPIGKGQRGLIVAPPKAGKTTLLQDIANAITANHPEV 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 203 VLMVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASG 282
Cdd:COG1158 156 HLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPAERHVQVAELVIERAKRLVELGKDVVILLDSITRLARAYNLVVPASG 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 283 KVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNR 362
Cdd:COG1158 236 RTLSGGVDANALYKPKRFFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMELHLDRKLAEKRIFPAIDINK 315
|
330 340 350 360 370
....*....|....*....|....*....|....*....|....*....|....*..
gi 1603843987 363 SGTRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLINKLAMTKTNDDFFDMMKRS 419
Cdd:COG1158 316 SGTRREELLLSPEELEKVWILRRALSGMDPVEAMEFLLDRLKKTKSNAEFLESMNKT 372
|
|
| PRK12678 |
PRK12678 |
transcription termination factor Rho; Provisional |
53-412 |
0e+00 |
|
transcription termination factor Rho; Provisional
Pssm-ID: 237171 [Multi-domain] Cd Length: 672 Bit Score: 602.66 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 53 GVLEILqDGFGFLRsaDSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGER------YFALLKVNEVNYDKPEN 126
Cdd:PRK12678 298 GILDVL-DNYAFVR--TSGYLPGPNDVYVSMNQVRKNGLRKGDAVTGAVRAPREGEQgnqrqkFNPLVRLDSVNGMSPEE 374
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 127 SRNKILFENLTPLHANSRLRMErgngsTE--DLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVL 204
Cdd:PRK12678 375 AKKRPEFGKLTPLYPNERLRLE-----TEpkKLTTRVIDLIMPIGKGQRGLIVSPPKAGKTTILQNIANAITTNNPECHL 449
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 205 MVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKV 284
Cdd:PRK12678 450 MVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIERAKRLVELGKDVVVLLDSITRLGRAYNLAAPASGRI 529
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 285 LTGGVDANALHRPKRFFGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSG 364
Cdd:PRK12678 530 LSGGVDSTALYPPKRFFGAARNIENGGSLTIIATALVETGSKMDEVIFEEFKGTGNMELKLDRKLADKRIFPAVDVNASG 609
|
330 340 350 360
....*....|....*....|....*....|....*....|....*...
gi 1603843987 365 TRKEELLTTQEELQKMWILRKIIHPMGEIDAMEFLINKLAMTKTNDDF 412
Cdd:PRK12678 610 TRKEELLLSPDELAIVHKLRRVLSGLDSQQAIDLLISRLKKTKSNYEF 657
|
|
| 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: 555.08 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 52 DGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPkegERYFALLKVNEVNYDKPENSRNKI 131
Cdd:PRK12608 20 LGVLEILGDGFGFLRSARRNYLPSPDDVFVPPALIRRFNLRTGDVVEGVARPR---ERYRVLVRVDSVNGTDPEKLARRP 96
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 132 LFENLTPLHANSRLRMERGngsTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDE 211
Cdd:PRK12608 97 HFDDLTPLHPRERLRLETG---SDDLSMRVVDLVAPIGKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDE 173
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 212 RPEEVTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDA 291
Cdd:PRK12608 174 RPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLTRLARAYNNEVESSGRTLSGGVDA 253
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 292 NALHRPKRFFGAARNVEEGGSLTIIATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELL 371
Cdd:PRK12608 254 RALQRPKRLFGAARNIEEGGSLTIIATALVDTGSRMDEVIFEEFKGTGNMEIVLDRELADKRVFPAIDIAKSGTRREELL 333
|
330 340 350 360
....*....|....*....|....*....|....*....|....*
gi 1603843987 372 TTQEELQKMWILRKIIHPMGEIDAMEFLINKLAMTKTNDDFFDMM 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: 513.68 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 156 DLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDEP 235
Cdd:cd01128 1 ELSTRVIDLIAPIGKGQRGLIVAPPKAGKTTLLQNIANAIAKNHPEVELIVLLIDERPEEVTDMRRSVKGEVVASTFDEP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 236 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTI 315
Cdd:cd01128 81 PERHVQVAEMVIEKAKRLVEHGKDVVILLDSITRLARAYNTVVPSSGKTLSGGVDANALHKPKRFFGAARNIEEGGSLTI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 316 IATALIDTGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEIDA 395
Cdd:cd01128 161 IATALVDTGSRMDEVIFEEFKGTGNMELVLDRKLAEKRIFPAIDILKSGTRKEELLLTPEELQKIWLLRRILSPMDPIEA 240
|
....*....
gi 1603843987 396 MEFLINKLA 404
Cdd:cd01128 241 MEFLLKKLK 249
|
|
| Rho_RNA_bind |
pfam07497 |
Rho termination factor, RNA-binding domain; The Rho termination factor disengages newly ... |
53-125 |
2.38e-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: 148.68 E-value: 2.38e-44
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1603843987 53 GVLEILQDGFGFLRSadSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNEVNYDKPE 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 |
4.15e-42 |
|
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: 142.76 E-value: 4.15e-42
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1603843987 51 GDGVLEILQDGFGFLRSADSSYLAGPDDIYVSPSQIRRFNLRTGDTISGKIRPPKEGERYFALLKVNE 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 |
2.15e-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: 2.15e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIA-QSIAynhpDCVLMVlLIDERPEEVTEMQRLVKGE-------VVAST 231
Cdd:pfam00006 3 RAIDGLLPIGRGQRIGIFGGSGVGKTVLAGMIArQASA----DVVVYA-LIGERGREVREFIEELLGSgalkrtvVVVAT 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 232 FDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVL-----TGGVD---ANALHRpkrffgA 303
Cdd:pfam00006 78 SDEPPLARYRAPYTALTIAEYFRDQGKDVLLIMDSLTRFAEALREISLALGEPPgregyPPSVFsllARLLER------A 151
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 304 ARNVEEGGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRS 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 |
3.68e-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: 3.68e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAqsiayNHPDCVLMVL-LIDERPEEVTEMQRLVKGE-------VVAST 231
Cdd:cd01136 56 RAIDGLLTCGEGQRIGIFAGSGVGKSTLLGMIA-----RNTDADVNVIaLIGERGREVREFIEKDLGEeglkrsvLVVAT 130
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 232 FDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLT-GGVDANALHRPKRFFGAARNVEEg 310
Cdd:cd01136 131 SDESPLLRVRAAYTATAIAEYFRDQGKKVLLLMDSLTRFAMAQREVGLAAGEPPTrRGYPPSVFALLPRLLERAGNGEK- 209
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 1603843987 311 GSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTR 366
Cdd:cd01136 210 GSITAFYTVLVE-GDDFNDPIADEVRSILDGHIVLSRRLAERGHYPAIDVLASISR 264
|
|
| PRK07594 |
PRK07594 |
EscN/YscN/HrcN family type III secretion system ATPase; |
160-387 |
1.85e-21 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 136438 [Multi-domain] Cd Length: 433 Bit Score: 95.79 E-value: 1.85e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLqniaqSIAYNHPDCVLMVL-LIDERPEEVTEM----------QRLVkgeVV 228
Cdd:PRK07594 144 RAIDSVATCGEGQRVGIFSAPGVGKSTLL-----AMLCNAPDADSNVLvLIGERGREVREFidftlseetrKRCV---IV 215
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 229 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVdanalHRPKRFFGAARNVE 308
Cdd:PRK07594 216 VATSDRPALERVRALFVATTIAEFFRDNGKRVVLLADSLTRYARAAREIALAAGETAVSGE-----YPPGVFSALPRLLE 290
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 309 -----EGGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWIL 383
Cdd:PRK07594 291 rtgmgEKGSITAFYTVLVE-GDDMNEPLADEVRSLLDGHIVLSRRLAERGHYPAIDVLATLSRVFPVVTSHEHRQLAAIL 369
|
....
gi 1603843987 384 RKII 387
Cdd:PRK07594 370 RRCL 373
|
|
| PRK06820 |
PRK06820 |
EscN/YscN/HrcN family type III secretion system ATPase; |
160-394 |
2.31e-19 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 180712 [Multi-domain] Cd Length: 440 Bit Score: 89.49 E-value: 2.31e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAqsiayNHPDCVLMVL-LIDERPEEVTEM----------QRLVkgeVV 228
Cdd:PRK06820 152 RAIDGILSCGEGQRIGIFAAAGVGKSTLLGMLC-----ADSAADVMVLaLIGERGREVREFleqvltpearARTV---VV 223
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 229 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKV-LTGGVDANALHRPKRFFGAARNV 307
Cdd:PRK06820 224 VATSDRPALERLKGLSTATTIAEYFRDRGKKVLLMADSLTRYARAAREIGLAAGEPpAAGSFPPSVFANLPRLLERTGNS 303
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 308 EEGgSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKII 387
Cdd:PRK06820 304 DRG-SITAFYTVLVE-GDDMNEPVADEVRSLLDGHIVLSRRLAGAGHYPAIDIAASVSRIMPQIVSAGQLAMAQKLRRML 381
|
....*..
gi 1603843987 388 HPMGEID 394
Cdd:PRK06820 382 ACYQEIE 388
|
|
| RecA-like_ion-translocating_ATPases |
cd19476 |
RecA-like domain of ion-translocating ATPases; RecA-like NTPases. This family includes the ... |
160-366 |
3.76e-17 |
|
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: 80.96 E-value: 3.76e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDcVLMVLLIDERPEEVTE-MQRLVKGE------VVASTF 232
Cdd:cd19476 56 KVIDLLAPYGRGQKIGIFGGSGVGKTVLAMQLARNQAKAHAG-VVVFAGIGERGREVNDlYEEFTKSGamertvVVANTA 134
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 233 DEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKV-LTGGVDANALHRPKRFFG-AARNVEEG 310
Cdd:cd19476 135 NDPPGARMRVPYTGLTIAEYFRDNGQHVLLIIDDISRYAEALREMSALLGEPpGREGYPPYLFTKLATLYErAGKVKDGG 214
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*.
gi 1603843987 311 GSLTIIATALIDTGSKMDEVIYEEFKGTgNMELHLSRKIAEKRVFPAIDYNRSGTR 366
Cdd:cd19476 215 GSITAIPAVSTPGDDLTDPIPDNTFAIL-DGQIVLSRELARKGIYPAINVLDSTSR 269
|
|
| fliI |
PRK08927 |
flagellar protein export ATPase FliI; |
137-400 |
8.82e-17 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 236351 [Multi-domain] Cd Length: 442 Bit Score: 81.95 E-value: 8.82e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 137 TPLHANSRLRMergnGSTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQsiaynHPDC-VLMVLLIDERPEE 215
Cdd:PRK08927 128 PPPPAHSRARV----GEPLDLGVRALNTFLTCCRGQRMGIFAGSGVGKSVLLSMLAR-----NADAdVSVIGLIGERGRE 198
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 216 VTEM-------QRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASG-----K 283
Cdd:PRK08927 199 VQEFlqddlgpEGLARSVVVVATSDEPALMRRQAAYLTLAIAEYFRDQGKDVLCLMDSVTRFAMAQREIGLSAGeppttK 278
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 284 VLTGGVDANAlhrPKRFFGAARNVEEGGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRS 363
Cdd:PRK08927 279 GYTPTVFAEL---PRLLERAGPGPIGEGTITGLFTVLVD-GDDHNEPVADAVRGILDGHIVMERAIAERGRYPAINVLKS 354
|
250 260 270
....*....|....*....|....*....|....*..
gi 1603843987 364 GTRKEELLTTQEELQkmwILRKIIHPMGEIDAMEFLI 400
Cdd:PRK08927 355 VSRTMPGCNDPEENP---LVRRARQLMATYADMEELI 388
|
|
| PRK06936 |
PRK06936 |
EscN/YscN/HrcN family type III secretion system ATPase; |
157-394 |
3.54e-16 |
|
EscN/YscN/HrcN family type III secretion system ATPase;
Pssm-ID: 180762 [Multi-domain] Cd Length: 439 Bit Score: 79.80 E-value: 3.54e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 157 LTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNhpdcVLMVLLIDERPEEVTEM-------QRLVKGEVVA 229
Cdd:PRK06936 148 LGVRVIDGLLTCGEGQRMGIFAAAGGGKSTLLASLIRSAEVD----VTVLALIGERGREVREFiesdlgeEGLRKAVLVV 223
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 230 STFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTggvdanalHR---PKRFFGAARN 306
Cdd:PRK06936 224 ATSDRPSMERAKAGFVATSIAEYFRDQGKRVLLLMDSVTRFARAQREIGLAAGEPPT--------RRgypPSVFAALPRL 295
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 307 VE-----EGGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMW 381
Cdd:PRK06936 296 MEragqsDKGSITALYTVLVE-GDDMTEPVADETRSILDGHIILSRKLAAANHYPAIDVLRSASRVMNQIVSKEHKTWAG 374
|
250
....*....|...
gi 1603843987 382 ILRKIIHPMGEID 394
Cdd:PRK06936 375 RLRELLAKYEEVE 387
|
|
| CSP |
smart00357 |
Cold shock protein domain; RNA-binding domain that functions as a RNA-chaperone in bacteria ... |
53-116 |
4.88e-16 |
|
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: 72.25 E-value: 4.88e-16
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1603843987 53 GVLEILQDGFGFLRSADssylaGPDDIYVSPSQI--RRFNLRTGDTISGKIRPPKEGERYFALLKV 116
Cdd:smart00357 2 GVVKWFNKGFGFIRPDD-----GGKDVFVHPSQIqgGLKSLREGDEVEFKVVSPEGGEKPEAENVV 62
|
|
| fliI |
PRK07196 |
flagellar protein export ATPase FliI; |
156-366 |
3.14e-15 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 180875 [Multi-domain] Cd Length: 434 Bit Score: 77.24 E-value: 3.14e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 156 DLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQsiaYNHPDcVLMVLLIDERPEEVTEM-------QRLVKGEVV 228
Cdd:PRK07196 140 DVGVNAINGLLTIGKGQRVGLMAGSGVGKSVLLGMITR---YTQAD-VVVVGLIGERGREVKEFiehslqaAGMAKSVVV 215
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 229 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKV-LTGGVDANALHRPKRFFGAARNV 307
Cdd:PRK07196 216 AAPADESPLMRIKATELCHAIATYYRDKGHDVLLLVDSLTRYAMAQREIALSLGEPpATKGYPPSAFSIIPRLAESAGNS 295
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 1603843987 308 EEGGSLTIIATALIDTGSKMDEVIyEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTR 366
Cdd:PRK07196 296 SGNGTMTAIYTVLAEGDDQQDPIV-DCARAVLDGHIVLSRKLAEAGHYPAIDISQSISR 353
|
|
| Rho_N |
smart00959 |
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ... |
5-47 |
1.84e-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: 67.01 E-value: 1.84e-14
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 1603843987 5 ELKNTPVSDLITLGENMGLENQARMRKQDIIFAILKQHAKSGE 47
Cdd:smart00959 1 ELKKKTLSELLEIAKELGIENASRLRKQELIFAILKAQAKKGG 43
|
|
| PRK08149 |
PRK08149 |
FliI/YscN family ATPase; |
169-378 |
2.78e-14 |
|
FliI/YscN family ATPase;
Pssm-ID: 236166 [Multi-domain] Cd Length: 428 Bit Score: 74.26 E-value: 2.78e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 169 GRGQRGLIVAPPKAGKTMLL-QNIAQSIAynhpDcVLMVLLIDERPEEVTE----MQRLVKGE---VVASTFDEPASRHV 240
Cdd:PRK08149 149 GVGQRMGIFASAGCGKTSLMnMLIEHSEA----D-VFVIGLIGERGREVTEfvesLRASSRREkcvLVYATSDFSSVDRC 223
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 241 QVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKV-LTGGVDANA-------LHRPKRFfgaarnveEGGS 312
Cdd:PRK08149 224 NAALVATTVAEYFRDQGKRVVLFIDSMTRYARALRDVALAAGELpARRGYPASVfdslprlLERPGAT--------LAGS 295
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 313 LTIIATALIDTGSKMDeVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRK----------------EELLTTQEE 376
Cdd:PRK08149 296 ITAFYTVLLESEEEPD-PIGDEIRSILDGHIYLSRKLAAKGHYPAIDVLKSVSRVfgqvtdpkhrqlaaafRKLLTRLEE 374
|
..
gi 1603843987 377 LQ 378
Cdd:PRK08149 375 LQ 376
|
|
| fliI |
PRK06002 |
flagellar protein export ATPase FliI; |
134-388 |
5.63e-14 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 235666 [Multi-domain] Cd Length: 450 Bit Score: 73.11 E-value: 5.63e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 134 ENLTPlHANSRLRMERG--NGstedltARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYnhpDCVLmVLLIDE 211
Cdd:PRK06002 133 DATAP-PAMTRARVETGlrTG------VRVIDIFTPLCAGQRIGIFAGSGVGKSTLLAMLARADAF---DTVV-IALVGE 201
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 212 RPEEVTEM------QRLVKGEVVASTFDE-PASRhvqvaEMVIEKAKRLVEHKKD----VIILLDSITRLARAYNTVVPA 280
Cdd:PRK06002 202 RGREVREFledtlaDNLKKAVAVVATSDEsPMMR-----RLAPLTATAIAEYFRDrgenVLLIVDSVTRFAHAAREVALA 276
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 281 SGKvltggvDANALHRPKRFFG--------AARNVEEGGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEK 352
Cdd:PRK06002 277 AGE------PPVARGYPPSVFSelprllerAGPGAEGGGSITGIFSVLVD-GDDHNDPVADSIRGTLDGHIVLDRAIAEQ 349
|
250 260 270
....*....|....*....|....*....|....*.
gi 1603843987 353 RVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIH 388
Cdd:PRK06002 350 GRYPAVDPLASISRLARHAWTPEQRKLVSRLKSMIA 385
|
|
| PRK09099 |
PRK09099 |
type III secretion system ATPase; Provisional |
160-396 |
6.32e-14 |
|
type III secretion system ATPase; Provisional
Pssm-ID: 169656 [Multi-domain] Cd Length: 441 Bit Score: 73.26 E-value: 6.32e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNhpdcVLMVLLIDERPEEVTEMQRLVKGE-------VVASTF 232
Cdd:PRK09099 152 RIVDGLMTLGEGQRMGIFAPAGVGKSTLMGMFARGTQCD----VNVIALIGERGREVREFIELILGEdgmarsvVVCATS 227
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 233 DEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTggvdanalHR---PKRFFGAARNVE- 308
Cdd:PRK09099 228 DRSSIERAKAAYVATAIAEYFRDRGLRVLLMMDSLTRFARAQREIGLAAGEPPA--------RRgfpPSVFAELPRLLEr 299
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 309 ----EGGSLTIIATALI--DTGSkmdEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWI 382
Cdd:PRK09099 300 agmgETGSITALYTVLAedESGS---DPIAEEVRGILDGHMILSREIAARNQYPAIDVLGSLSRVMPQVVPREHVQAAGR 376
|
250
....*....|....
gi 1603843987 383 LRKIIHPMGEIDAM 396
Cdd:PRK09099 377 LRQLLAKHREVETL 390
|
|
| FliI |
COG1157 |
Flagellar biosynthesis/type III secretory pathway ATPase FliI [Cell motility, Intracellular ... |
160-401 |
2.04e-13 |
|
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: 71.60 E-value: 2.04e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQR-GlIVAPPKAGKTMLLQNIAQsiaynHPDCVLMVL-LIDERPEEVTE----------MQRLVkgeV 227
Cdd:COG1157 146 RAIDGLLTVGRGQRiG-IFAGSGVGKSTLLGMIAR-----NTEADVNVIaLIGERGREVREfieddlgeegLARSV---V 216
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 228 VASTFDEPASRHVQVAEMviekAKRLVEH----KKDVIILLDSITRLARA----------------YntvvPASgkvltg 287
Cdd:COG1157 217 VVATSDEPPLMRLRAAYT----ATAIAEYfrdqGKNVLLLMDSLTRFAMAqreiglaageppatrgY----PPS------ 282
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 288 gvdanalhrpkrFFGA-ARNVE-----EGGSLTIIATALIDtGSKMDEVIYEEFKGT--GnmelH--LSRKIAEKRVFPA 357
Cdd:COG1157 283 ------------VFALlPRLLEragngGKGSITAFYTVLVE-GDDMNDPIADAVRGIldG----HivLSRKLAERGHYPA 345
|
250 260 270 280
....*....|....*....|....*....|....*....|....
gi 1603843987 358 IDYNRSGTRKEELLTTQEELQKMWILRKIihpMGEIDAMEFLIN 401
Cdd:COG1157 346 IDVLASISRVMPDIVSPEHRALARRLRRL---LARYEENEDLIR 386
|
|
| fliI |
PRK07721 |
flagellar protein export ATPase FliI; |
160-387 |
8.08e-13 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181092 [Multi-domain] Cd Length: 438 Bit Score: 69.75 E-value: 8.08e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNhpdcVLMVLLIDERPEEVTE-MQR------LVKGEVVASTF 232
Cdd:PRK07721 147 RAIDSLLTVGKGQRVGIFAGSGVGKSTLMGMIARNTSAD----LNVIALIGERGREVREfIERdlgpegLKRSIVVVATS 222
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 233 DEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASG-----KVLTGGVDANAlhrPKRFFGAARNv 307
Cdd:PRK07721 223 DQPALMRIKGAYTATAIAEYFRDQGLNVMLMMDSVTRVAMAQREIGLAVGeppttKGYTPSVFAIL---PKLLERTGTN- 298
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 308 eEGGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKII 387
Cdd:PRK07721 299 -ASGSITAFYTVLVD-GDDMNEPIADTVRGILDGHFVLDRQLANKGQYPAINVLKSVSRVMNHIVSPEHKEAANRFRELL 376
|
|
| Rho_N |
pfam07498 |
Rho termination factor, N-terminal domain; The Rho termination factor disengages newly ... |
5-47 |
1.01e-12 |
|
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: 62.01 E-value: 1.01e-12
10 20 30 40
....*....|....*....|....*....|....*....|...
gi 1603843987 5 ELKNTPVSDLITLGENMGLENQARMRKQDIIFAILKQHAKSGE 47
Cdd:pfam07498 1 ELKEKTLSELREIAKELGIENYSRLRKQELIFAILKAQAEKGG 43
|
|
| fliI |
PRK06793 |
flagellar protein export ATPase FliI; |
138-387 |
3.49e-12 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 180696 [Multi-domain] Cd Length: 432 Bit Score: 67.70 E-value: 3.49e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 138 PLHANSRLRMErgngSTEDLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQsiayNHPDCVLMVLLIDERPEEVT 217
Cdd:PRK06793 127 PIHAFEREEIT----DVFETGIKSIDSMLTIGIGQKIGIFAGSGVGKSTLLGMIAK----NAKADINVISLVGERGREVK 198
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 218 EMQRLVKGE-------VVASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVLTGGVD 290
Cdd:PRK06793 199 DFIRKELGEegmrksvVVVATSDESHLMQLRAAKLATSIAEYFRDQGNNVLLMMDSVTRFADARRSVDIAVKELPIGGKT 278
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 291 ANALHRPKRFFGAARNVEEgGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEEL 370
Cdd:PRK06793 279 LLMESYMKKLLERSGKTQK-GSITGIYTVLVD-GDDLNGPVPDLARGILDGHIVLKRELATLSHYPAISVLDSVSRIMEE 356
|
250
....*....|....*..
gi 1603843987 371 LTTQEELQKMWILRKII 387
Cdd:PRK06793 357 IVSPNHWQLANEMRKIL 373
|
|
| fliI |
PRK05688 |
flagellar protein export ATPase FliI; |
168-380 |
1.11e-11 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 168181 [Multi-domain] Cd Length: 451 Bit Score: 66.29 E-value: 1.11e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 168 IGRGQRGLIVAPPKAGKTMLLQNIAQsiaYNHPDcVLMVLLIDERPEEVTEMQRLVKGE-------VVASTFDEPASRHV 240
Cdd:PRK05688 165 VGRGQRLGLFAGTGVGKSVLLGMMTR---FTEAD-IIVVGLIGERGREVKEFIEHILGEeglkrsvVVASPADDAPLMRL 240
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 241 QVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKV-LTGGVDANALHRPKRFFGAARNVEEG-GSLTIIAT 318
Cdd:PRK05688 241 RAAMYCTRIAEYFRDKGKNVLLLMDSLTRFAQAQREIALAIGEPpATKGYPPSVFAKLPKLVERAGNAEPGgGSITAFYT 320
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1603843987 319 ALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKM 380
Cdd:PRK05688 321 VLSE-GDDQQDPIADSARGVLDGHIVLSRRLAEEGHYPAIDIEASISRVMPQVVDPEHLRRA 381
|
|
| fliI |
PRK07960 |
flagellum-specific ATP synthase FliI; |
156-366 |
4.52e-09 |
|
flagellum-specific ATP synthase FliI;
Pssm-ID: 181182 [Multi-domain] Cd Length: 455 Bit Score: 57.87 E-value: 4.52e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 156 DLTARVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQsiaYNHPDcVLMVLLIDERPEEVTEMQRLVKGE-------VV 228
Cdd:PRK07960 160 DTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMAR---YTQAD-VIVVGLIGERGREVKDFIENILGAegrarsvVI 235
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 229 ASTFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKV-LTGGVDANALHR-PKRFFGAARN 306
Cdd:PRK07960 236 AAPADVSPLLRMQGAAYATRIAEDFRDRGQHVLLIMDSLTRYAMAQREIALAIGEPpATKGYPPSVFAKlPALVERAGNG 315
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 307 VEEGGSLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTR 366
Cdd:PRK07960 316 ISGGGSITAFYTVLTE-GDDQQDPIADSARAILDGHIVLSRRLAEAGHYPAIDIEASISR 374
|
|
| RecA-like_superfamily |
cd01120 |
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ... |
174-336 |
2.13e-08 |
|
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: 52.12 E-value: 2.13e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 174 GLIVAPPKAGKTMLLQNIAQSIAynHPDCVLmvlliderpeevtemqrlvkgeVVASTFDepasrhvqvaeMVIEKAKRL 253
Cdd:cd01120 1 ILITGPPGSGKTTLLLQFAEQAL--LSDEPV----------------------IFISFLD-----------TILEAIEDL 45
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 254 VEHKKDVIILLDSITRLARAYntvvpasgkvlTGGVDANALHRPKRFFGAARNveegGSLTIIATALIDT------GSKM 327
Cdd:cd01120 46 IEEKKLDIIIIDSLSSLARAS-----------QGDRSSELLEDLAKLLRAARN----TGITVIATIHSDKfdidrgGSSN 110
|
....*....
gi 1603843987 328 DEVIYEEFK 336
Cdd:cd01120 111 DERLLKSLR 119
|
|
| PRK05922 |
PRK05922 |
type III secretion system ATPase; Validated |
160-314 |
7.45e-08 |
|
type III secretion system ATPase; Validated
Pssm-ID: 102061 [Multi-domain] Cd Length: 434 Bit Score: 54.14 E-value: 7.45e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 160 RVLDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSiaynHPDCVLMVLLIDERPEEVTE----------MQRLVkgeVVA 229
Cdd:PRK05922 146 KAIDAFLTLGKGQRIGVFSEPGSGKSSLLSTIAKG----SKSTINVIALIGERGREVREyieqhkeglaAQRTI---IIA 218
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 230 STFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRLARAYNTVVPASGKVL-TGGVDANALHRPKRFFGAARNvE 308
Cdd:PRK05922 219 SPAHETAPTKVIAGRAAMTIAEYFRDQGHRVLFIMDSLSRWIAALQEVALARGETLsAHHYAASVFHHVSEFTERAGN-N 297
|
....*.
gi 1603843987 309 EGGSLT 314
Cdd:PRK05922 298 DKGSIT 303
|
|
| fliI |
PRK08972 |
flagellar protein export ATPase FliI; |
168-386 |
3.62e-07 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181599 [Multi-domain] Cd Length: 444 Bit Score: 52.01 E-value: 3.62e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 168 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNhpdcVLMVLLIDERPEEVTEMQRLVKGEvvastfdEPASRHVQVAE--- 244
Cdd:PRK08972 159 VGKGQRMGLFAGSGVGKSVLLGMMTRGTTAD----VIVVGLVGERGREVKEFIEEILGE-------EGRARSVVVAApad 227
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 245 ----MVI---EKAKRLVEHKKD----VIILLDSITRLARAYNTVVPASGKV-LTGGVDANALHRPKRFFGAARNVEEG-G 311
Cdd:PRK08972 228 tsplMRLkgcETATTIAEYFRDqglnVLLLMDSLTRYAQAQREIALAVGEPpATKGYPPSVFAKLPALVERAGNGGPGqG 307
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1603843987 312 SLTIIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKI 386
Cdd:PRK08972 308 SITAFYTVLTE-GDDLQDPIADASRAILDGHIVLSRELADSGHYPAIDIEASISRVMPMVISEEHLEAMRRVKQV 381
|
|
| AAA |
smart00382 |
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ... |
170-319 |
1.03e-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: 45.06 E-value: 1.03e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 170 RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCvlmVLLIDERPEEVTEMQRLVKGEVVASTFDEPASRhvqvaemvIEK 249
Cdd:smart00382 1 PGEVILIVGPPGSGKTTLARALARELGPPGGGV---IYIDGEDILEEVLDQLLLIIVGGKKASGSGELR--------LRL 69
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 250 AKRLVEHKKDVIILLDSITRLARAyNTVVPASGKVLTGGVDANALHRPKRFFGAARNVEEGGSLTIIATA 319
Cdd:smart00382 70 ALALARKLKPDVLILDEITSLLDA-EQEALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRRRF 138
|
|
| fliI |
PRK08472 |
flagellar protein export ATPase FliI; |
169-414 |
4.08e-05 |
|
flagellar protein export ATPase FliI;
Pssm-ID: 181439 [Multi-domain] Cd Length: 434 Bit Score: 45.45 E-value: 4.08e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 169 GRGQRGLIVAPPKAGKTMLLQNIAQSIayNHPdcVLMVLLIDERPEEVTE-MQRLVKGE------VVASTFDEPASRH-- 239
Cdd:PRK08472 155 GKGQKLGIFAGSGVGKSTLMGMIVKGC--LAP--IKVVALIGERGREIPEfIEKNLGGDlentviVVATSDDSPLMRKyg 230
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 240 ----VQVAEMVIEKAKrlvehkkDVIILLDSITRLARAYNTVVPASGKVLTG-GVDANALHRPKRFFGAARNVEEGGSLT 314
Cdd:PRK08472 231 afcaMSVAEYFKNQGL-------DVLFIMDSVTRFAMAQREIGLALGEPPTSkGYPPSVLSLLPQLMERAGKEEGKGSIT 303
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 315 IIATALIDtGSKMDEVIYEEFKGTGNMELHLSRKIAEKRVFPAIDYNRSGTRKEELLTTQEELQKMWILRKIIHPMGEid 394
Cdd:PRK08472 304 AFFTVLVE-GDDMSDPIADQSRSILDGHIVLSRELTDFGIYPPINILNSASRVMNDIISPEHKLAARKFKRLYSLLKE-- 380
|
250 260
....*....|....*....|
gi 1603843987 395 aMEFLINKLAMTKTNDDFFD 414
Cdd:PRK08472 381 -NEVLIRIGAYQKGNDKELD 399
|
|
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
53-110 |
1.52e-04 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 43.94 E-value: 1.52e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 1603843987 53 GVLEILQDGFGFLRSADssylaGPDDIYVSPSQIRrfNLRTGDTISGKIRPPKEGERY 110
Cdd:COG0557 72 GRVRGHRDGFGFVIPDD-----GEEDIFIPPRELN--GALHGDRVLVRVTKEDRRGRP 122
|
|
| BREX_3_BrxF |
NF033453 |
BREX-3 system P-loop-containing protein BrxF; This family of proteins that are about 150 amino ... |
175-267 |
5.40e-04 |
|
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: 40.17 E-value: 5.40e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 175 LIVAPPKAGKTMLLQNIAQSIAYnhpdCVLMV-LLIDERPEEVTEMQrlvkgevvastfdepasRHVQVAEMViekaKRL 253
Cdd:NF033453 20 LLVGPPGSGKTALLRELAAKRGA----PVINVnLELSRRLLELPEKQ-----------------RALRAPRLL----DEI 74
|
90
....*....|....
gi 1603843987 254 VEHKKDVIILLDSI 267
Cdd:NF033453 75 AEKSSGDVVLLDNI 88
|
|
| AAA_22 |
pfam13401 |
AAA domain; |
174-265 |
7.54e-03 |
|
AAA domain;
Pssm-ID: 379165 [Multi-domain] Cd Length: 129 Bit Score: 36.55 E-value: 7.54e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 174 GLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLliderPEEVTEMQRLvkgEVVASTFDEPASRHVQVAEMVIEKAKRL 253
Cdd:pfam13401 8 LVLTGESGTGKTTLLRRLLEQLPEVRDSVVFVDL-----PSGTSPKDLL---RALLRALGLPLSGRLSKEELLAALQQLL 79
|
90
....*....|..
gi 1603843987 254 VEHKKDVIILLD 265
Cdd:pfam13401 80 LALAVAVVLIID 91
|
|
| RepA |
COG3598 |
RecA-family ATPase [Replication, recombination and repair]; |
168-270 |
8.90e-03 |
|
RecA-family ATPase [Replication, recombination and repair];
Pssm-ID: 442817 [Multi-domain] Cd Length: 313 Bit Score: 37.96 E-value: 8.90e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1603843987 168 IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHP----DC----VLMVLLIDERPEEVTEMQRLVKG-----EVVASTFDE 234
Cdd:COG3598 10 LPEGGVTLLAGPPGTGKSFLALQLAAAVAAGGPwlgrRVppgkVLYLAAEDDRGELRRRLKALGADlglpfADLDGRLRL 89
|
90 100 110
....*....|....*....|....*....|....*.
gi 1603843987 235 PASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRL 270
Cdd:COG3598 90 LSLAGDLDDTDDLEALERAIEEEGPDLVVIDPLARV 125
|
|
| |
