|
Name |
Accession |
Description |
Interval |
E-value |
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
8-640 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1159.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 8 NYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH- 86
Cdd:COG0187 5 NYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVDIHp 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 87 KLGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGgKPVTTLEKIGKTKKT 166
Cdd:COG0187 85 KEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGKTDRT 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 167 GTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHD--RHDIFHYETGIQAFVSYLNEEKDSLHP-VVF 243
Cdd:COG0187 164 GTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEepKEETFHYEGGIKDFVEYLNEDKEPLHPeVIY 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 244 FEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREGLGAI 323
Cdd:COG0187 244 FEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVREGLTAV 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 324 VSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARngKKRKR 403
Cdd:COG0187 324 ISVKLPEP--QFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVR--RKSAL 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 404 QETVLSGKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGV 483
Cdd:COG0187 400 ESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTGI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 484 GADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKgsGKKEvvEYSWSDEELQGA 563
Cdd:COG0187 480 GDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKK--GKKT--YYAYSDAELDEL 555
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1264924593 564 IDKV--GRGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESNVAFGLEED 640
Cdd:COG0187 556 LKELkgKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKFVRNLD 634
|
|
| parE_Gpos |
TIGR01058 |
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II ... |
1-643 |
0e+00 |
|
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130130 [Multi-domain] Cd Length: 637 Bit Score: 1096.45 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 1 MARKqqfnYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRG 80
Cdd:TIGR01058 1 MASK----YNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 81 MPTGMHKLGK-PTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGGKPVTTLEK 159
Cdd:TIGR01058 77 IPTGIHQDGNiSTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKK 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 160 IGKTKKTGTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHDRHDIFHYETGIQAFVSYLNEEKDSLH 239
Cdd:TIGR01058 157 IGTTKKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNKTTVFFYENGLVDFVDYINETKETLS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 240 PVVFFEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREG 319
Cdd:TIGR01058 237 QVTYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREG 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 320 LGAIVSVRIPEELLQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARNGK 399
Cdd:TIGR01058 317 LSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 400 KRKRQETVLSGKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAI 479
Cdd:TIGR01058 397 KPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCI 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 480 GGGVGADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKGSGKKevVEYSWSDEE 559
Cdd:TIGR01058 477 GTGIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKK--VKYAWSDLE 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 560 LQGAIDKVgRGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESNVAFGLEE 639
Cdd:TIGR01058 555 LESVKKKL-KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFSVEE 633
|
....
gi 1264924593 640 DPNI 643
Cdd:TIGR01058 634 ELQI 637
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
8-632 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1073.18 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 8 NYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH- 86
Cdd:PRK05644 7 EYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIHp 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 87 KLGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGgKPVTTLEKIGKTKKT 166
Cdd:PRK05644 87 KTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG-VPVTPLEVIGETDET 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 167 GTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKR--HDRHDIFHYETGIQAFVSYLNEEKDSLHP-VVF 243
Cdd:PRK05644 166 GTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDERegEEKEETFHYEGGIKEYVEYLNRNKEPLHEePIY 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 244 FEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREGLGAI 323
Cdd:PRK05644 246 FEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGLTAV 325
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 324 VSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARngkkRKr 403
Cdd:PRK05644 326 ISVKHPEP--QFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTR----RK- 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 404 qeTVLS-----GKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHA 478
Cdd:PRK05644 399 --SALEssslpGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITA 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 479 IGGGVGADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKGSgkkevVEYSWSDE 558
Cdd:PRK05644 477 LGTGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGG-----KEYAYSDE 551
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1264924593 559 ELQGAIDKVGRG----YMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESN 632
Cdd:PRK05644 552 ELDEILAELKLKgnpkYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEEN 629
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
38-634 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 901.54 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 38 GLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH-KLGKPTPEVILTILHAGGKFGQGGYKTSGG 116
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHpKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 117 LHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGGKPVTTLEKIGKTKKTGTTIHFKPDATIFS-TTVYNYDTLCERLRE 195
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 196 SAFLLKGFKIELIDKRHDRHDIFHYETGIQAFVSYLNEEKDSLHPVVFFEGIHH-NIEVEFAFQFNDGYSETILSFVNNV 274
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKdNIRVEVAFQYTDGYSENIVSFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 275 RTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKdkNLEGTDIREGLGAIVSVRIPEEllQFEGQTKGKLGTSEARSSVDA 354
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFISVKIPEP--QFEGQTKEKLGTSEVRFGVEK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 355 VISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARNGKKRKRqetVLSGKLTPAQSRNPQRNELYLVEGDSAG 434
Cdd:smart00433 317 IVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKKKLSSI---SLPGKLADASSAGPKKCELFLVEGDSAG 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 435 GSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVGADFTIDDINYDKIVIMTDADTDGAHIQVLL 514
Cdd:smart00433 394 GSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDIEKLRYGKIIIMTDADVDGSHIKGLL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 515 LTFFYRYMKPLVEAGKVFIALPPLYKVSKGSgKKEVVEYSWSDEEL--QGAIDKVGRGYMIQRYKGLGEMNADQLWETTM 592
Cdd:smart00433 474 LTFFYRYMPPLIEAGFVYIAIPPLYKVTKGK-KKYVYSFYSLDEYEkwLEKTEGNKSKYEIQRYKGLGEMNADQLWETTM 552
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 1264924593 593 NPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESNVA 634
Cdd:smart00433 553 DPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
39-218 |
1.23e-105 |
|
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.
Pssm-ID: 340405 [Multi-domain] Cd Length: 180 Bit Score: 317.56 E-value: 1.23e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 39 LHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH-KLGKPTPEVILTILHAGGKFGQGGYKTSGGL 117
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHpKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 118 HGVGASVVNALSEWLTVTIHRDGFIYEQRFENGGkPVTTLEKIGKTKKTGTTIHFKPDATIFSTTVYNYDTLCERLRESA 197
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGG-PLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELA 159
|
170 180
....*....|....*....|.
gi 1264924593 198 FLLKGFKIELIDKRHDRHDIF 218
Cdd:cd16928 160 FLNKGLKIVLEDERTGKEEVF 180
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
223-393 |
1.95e-70 |
|
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold. This family is structurally related to PF01119.
Pssm-ID: 425522 [Multi-domain] Cd Length: 173 Bit Score: 225.96 E-value: 1.95e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 223 GIQAFVSYLNEEKDSLHP-VVFFEGIHHN--IEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYAR 299
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKeIIYFEGESPDnrIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 300 KVSLLKEKDKNLEGTDIREGLGAIVSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAI 379
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDP--QFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....
gi 1264924593 380 KAAQAREAARKARE 393
Cdd:pfam00204 159 QAAKARLAARKARE 172
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
8-640 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1159.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 8 NYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH- 86
Cdd:COG0187 5 NYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVDIHp 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 87 KLGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGgKPVTTLEKIGKTKKT 166
Cdd:COG0187 85 KEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGKTDRT 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 167 GTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHD--RHDIFHYETGIQAFVSYLNEEKDSLHP-VVF 243
Cdd:COG0187 164 GTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEepKEETFHYEGGIKDFVEYLNEDKEPLHPeVIY 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 244 FEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREGLGAI 323
Cdd:COG0187 244 FEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVREGLTAV 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 324 VSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARngKKRKR 403
Cdd:COG0187 324 ISVKLPEP--QFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVR--RKSAL 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 404 QETVLSGKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGV 483
Cdd:COG0187 400 ESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTGI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 484 GADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKgsGKKEvvEYSWSDEELQGA 563
Cdd:COG0187 480 GDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKK--GKKT--YYAYSDAELDEL 555
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1264924593 564 IDKV--GRGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESNVAFGLEED 640
Cdd:COG0187 556 LKELkgKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKFVRNLD 634
|
|
| parE_Gpos |
TIGR01058 |
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II ... |
1-643 |
0e+00 |
|
DNA topoisomerase IV, B subunit, Gram-positive; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation step of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130130 [Multi-domain] Cd Length: 637 Bit Score: 1096.45 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 1 MARKqqfnYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRG 80
Cdd:TIGR01058 1 MASK----YNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 81 MPTGMHKLGK-PTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGGKPVTTLEK 159
Cdd:TIGR01058 77 IPTGIHQDGNiSTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKK 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 160 IGKTKKTGTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHDRHDIFHYETGIQAFVSYLNEEKDSLH 239
Cdd:TIGR01058 157 IGTTKKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNKTTVFFYENGLVDFVDYINETKETLS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 240 PVVFFEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREG 319
Cdd:TIGR01058 237 QVTYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREG 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 320 LGAIVSVRIPEELLQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARNGK 399
Cdd:TIGR01058 317 LSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 400 KRKRQETVLSGKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAI 479
Cdd:TIGR01058 397 KPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCI 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 480 GGGVGADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKGSGKKevVEYSWSDEE 559
Cdd:TIGR01058 477 GTGIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKK--VKYAWSDLE 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 560 LQGAIDKVgRGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESNVAFGLEE 639
Cdd:TIGR01058 555 LESVKKKL-KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFSVEE 633
|
....
gi 1264924593 640 DPNI 643
Cdd:TIGR01058 634 ELQI 637
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
8-632 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1073.18 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 8 NYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH- 86
Cdd:PRK05644 7 EYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIHp 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 87 KLGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGgKPVTTLEKIGKTKKT 166
Cdd:PRK05644 87 KTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG-VPVTPLEVIGETDET 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 167 GTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKR--HDRHDIFHYETGIQAFVSYLNEEKDSLHP-VVF 243
Cdd:PRK05644 166 GTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDERegEEKEETFHYEGGIKEYVEYLNRNKEPLHEePIY 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 244 FEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREGLGAI 323
Cdd:PRK05644 246 FEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGLTAV 325
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 324 VSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARngkkRKr 403
Cdd:PRK05644 326 ISVKHPEP--QFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTR----RK- 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 404 qeTVLS-----GKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHA 478
Cdd:PRK05644 399 --SALEssslpGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITA 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 479 IGGGVGADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKGSgkkevVEYSWSDE 558
Cdd:PRK05644 477 LGTGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGG-----KEYAYSDE 551
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1264924593 559 ELQGAIDKVGRG----YMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESN 632
Cdd:PRK05644 552 ELDEILAELKLKgnpkYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEEN 629
|
|
| PRK05559 |
PRK05559 |
DNA topoisomerase IV subunit B; Reviewed |
4-639 |
0e+00 |
|
DNA topoisomerase IV subunit B; Reviewed
Pssm-ID: 235501 [Multi-domain] Cd Length: 631 Bit Score: 1057.78 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 4 KQQFNYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPT 83
Cdd:PRK05559 3 MMTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 84 GMH-KLGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFEnGGKPVTTLEKIGK 162
Cdd:PRK05559 83 GIHpEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFE-GGDPVGPLEVVGT 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 163 T--KKTGTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHdrHDIFHYETGIQAFVSYLNEEKDSLHP 240
Cdd:PRK05559 162 AgkRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERE--RQTFHYENGLKDYLAELNEGKETLPE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 241 --VVFFEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKeKDKNLEGTDIRE 318
Cdd:PRK05559 240 efVGSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKKLEGEDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 319 GLGAIVSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKaredaRNG 398
Cdd:PRK05559 319 GLAAVLSVKIPEP--QFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAK-----KVK 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 399 KKRKRQETVLSGKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHA 478
Cdd:PRK05559 392 RKKKTSGPALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVA 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 479 IGGGVGADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKGSGKkevvEYSWSDE 558
Cdd:PRK05559 472 IGIGPGDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKK----IYALDEE 547
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 559 ELQGAIDKV---GRGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESNVAF 635
Cdd:PRK05559 548 EKEELLKKLgkkGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENGDF 627
|
....
gi 1264924593 636 GLEE 639
Cdd:PRK05559 628 AEEE 631
|
|
| gyrB |
PRK14939 |
DNA gyrase subunit B; Provisional |
8-632 |
0e+00 |
|
DNA gyrase subunit B; Provisional
Pssm-ID: 237860 [Multi-domain] Cd Length: 756 Bit Score: 958.01 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 8 NYNEDAIQVLEGLDAVRKRPGMYIGSTDT-RGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH 86
Cdd:PRK14939 6 SYGASSIKVLKGLDAVRKRPGMYIGDTDDgTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDIH 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 87 -KLGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGgKPVTTLEKIGKTKK 165
Cdd:PRK14939 86 pEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHG-VPVAPLKVVGETDK 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 166 TGTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHDRHDIFHYETGIQAFVSYLNEEKDSLHPVVF-F 244
Cdd:PRK14939 165 TGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGGIKAFVEYLNRNKTPLHPNIFyF 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 245 EGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREGLGAIV 324
Cdd:PRK14939 245 SGEKDGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREGLTAVL 324
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 325 SVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARngkkRKrq 404
Cdd:PRK14939 325 SVKVPDP--KFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTR----RK-- 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 405 eTVLS-----GKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAI 479
Cdd:PRK14939 397 -GALDiaglpGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITAL 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 480 GGGVGAD-FTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKG-------------- 544
Cdd:PRK14939 476 GCGIGRDeFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKKGkqeqylkddealdd 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 545 --------------------SGK------------------------KEVVEY----------SWSDEE----------- 559
Cdd:PRK14939 556 ylielalegatlhladgpaiSGEaleklvkeyravrkiidrlerrypRAVLEAliyapaldldDLADEAavaaldadflt 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 560 ------------------LQGAIDKVG---------------------RGYMIQRYKGLGEMNADQLWETTMNPETRTLI 600
Cdd:PRK14939 636 saeyrrlvelaeklrgliEEGAYLERGerkqpvssfeealdwllaearKGLSIQRYKGLGEMNPEQLWETTMDPENRRLL 715
|
730 740 750
....*....|....*....|....*....|..
gi 1264924593 601 RVRIDDAARADRRVTTLMGDKVEPRRKWIESN 632
Cdd:PRK14939 716 QVTIEDAIAADEIFTTLMGDEVEPRREFIEEN 747
|
|
| gyrB |
TIGR01059 |
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). ... |
9-632 |
0e+00 |
|
DNA gyrase, B subunit; This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273421 [Multi-domain] Cd Length: 654 Bit Score: 923.68 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 9 YNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH-K 87
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHpE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 88 LGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGgKPVTTLEKIGKTKKTG 167
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERG-IPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 168 TTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHD--RHDIFHYETGIQAFVSYLNEEKDSLHP-VVFF 244
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERDGkgKKVTFHYEGGIKSFVKYLNRNKEPLHEeIIYI 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 245 EGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREGLGAIV 324
Cdd:TIGR01059 240 KGEKEGIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTAVI 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 325 SVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARngKKRKRQ 404
Cdd:TIGR01059 320 SVKVPDP--QFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTR--RKSALD 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 405 ETVLSGKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVG 484
Cdd:TIGR01059 396 SGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 485 ADFTIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKG-----------------SGK 547
Cdd:TIGR01059 476 KDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKKGkkeryikddkekdlvgeALE 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 548 KEVVEYSWSDEELQGAIDKVG-----RGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKV 622
Cdd:TIGR01059 556 DLKALYIYSDKEKEEAKTQIPvhlgrKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGDEV 635
|
650
....*....|
gi 1264924593 623 EPRRKWIESN 632
Cdd:TIGR01059 636 EPRREFIEAN 645
|
|
| TOP2c |
smart00433 |
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE |
38-634 |
0e+00 |
|
TopoisomeraseII; Eukaryotic DNA topoisomerase II, GyrB, ParE
Pssm-ID: 214659 [Multi-domain] Cd Length: 594 Bit Score: 901.54 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 38 GLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH-KLGKPTPEVILTILHAGGKFGQGGYKTSGG 116
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHpKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 117 LHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGGKPVTTLEKIGKTKKTGTTIHFKPDATIFS-TTVYNYDTLCERLRE 195
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGmTTDDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 196 SAFLLKGFKIELIDKRHDRHDIFHYETGIQAFVSYLNEEKDSLHPVVFFEGIHH-NIEVEFAFQFNDGYSETILSFVNNV 274
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSPEPTYIEGEKdNIRVEVAFQYTDGYSENIVSFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 275 RTKDGGTHESGAKSAMTRAFNEYARKVSLLKEKdkNLEGTDIREGLGAIVSVRIPEEllQFEGQTKGKLGTSEARSSVDA 354
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFISVKIPEP--QFEGQTKEKLGTSEVRFGVEK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 355 VISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARNGKKRKRqetVLSGKLTPAQSRNPQRNELYLVEGDSAG 434
Cdd:smart00433 317 IVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKKKLSSI---SLPGKLADASSAGPKKCELFLVEGDSAG 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 435 GSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVGADFTIDDINYDKIVIMTDADTDGAHIQVLL 514
Cdd:smart00433 394 GSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDIEKLRYGKIIIMTDADVDGSHIKGLL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 515 LTFFYRYMKPLVEAGKVFIALPPLYKVSKGSgKKEVVEYSWSDEEL--QGAIDKVGRGYMIQRYKGLGEMNADQLWETTM 592
Cdd:smart00433 474 LTFFYRYMPPLIEAGFVYIAIPPLYKVTKGK-KKYVYSFYSLDEYEkwLEKTEGNKSKYEIQRYKGLGEMNADQLWETTM 552
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 1264924593 593 NPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIESNVA 634
Cdd:smart00433 553 DPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
8-636 |
1.05e-172 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 515.97 E-value: 1.05e-172
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 8 NYNEDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH- 86
Cdd:PTZ00109 99 EYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVSe 178
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 87 KLGKPTPEVILTILHAGGKFGQGG----------------------------------------YKTSGGLHGVGASVVN 126
Cdd:PTZ00109 179 KTGKSGLETVLTVLHSGGKFQDTFpknsrsdksedkndtksskkgksshvkgpkeakekessqmYEYSSGLHGVGLSVVN 258
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 127 ALSEWLTVTIHRDGFIYEQRFENGG--KPVTTLEKigKTKKTGTTIHFKPDA-TIFSTTV--------------YNYDTL 189
Cdd:PTZ00109 259 ALSSFLKVDVFKGGKIYSIELSKGKvtKPLSVFSC--PLKKRGTTIHFLPDYkHIFKTHHqhteteeeegckngFNLDLI 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 190 CERLRESAFLLKGFKIELIDKR-HDRHDIFHYET-----GIQAFVSYLNEEKDSLHP---VVFFEGIHHNIEVEFAFQFN 260
Cdd:PTZ00109 337 KNRIHELSYLNPGLTFYLVDERiANENNFYPYETikhegGTREFLEELIKDKTPLYKdinIISIRGVIKNVNVEVSLSWS 416
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 261 DG-YSETILSFVNNVRTKdGGTHESGAKSAMTRAFNEYARKVSLLKEKDKNLEGTDIREGLGAIVSVRI--PEellqFEG 337
Cdd:PTZ00109 417 LEsYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLngAE----FDG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 338 QTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREAARKAREDARNgKKRKRQETVLSGKLTPAQS 417
Cdd:PTZ00109 492 QTKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQ-KNNQYYSTILPGKLVDCIS 570
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 418 RNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKL-QDIFKNEEISTIIHAIGGGV------------G 484
Cdd:PTZ00109 571 DDIERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNnKKVFENSEIKLLITSIGLSVnpvtwrqydlshG 650
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 485 ADFTIDD--------------------INYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKG 544
Cdd:PTZ00109 651 TKASKDEsvqnnnstltkkknslfdtpLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITNN 730
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 545 SGKKEVVE--------YSWSDEELQGAID--------------------------------------------------- 565
Cdd:PTZ00109 731 RMKQFNVStknskkyiYTWSDEELNVLIKllnkdysskettrsveekgnapdldneyedekldnknmrennvdevelkte 810
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 566 ---------------------KVGRGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEP 624
Cdd:PTZ00109 811 lgtnvadteqtdeldinkaffKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQS 890
|
810
....*....|...
gi 1264924593 625 RRKWIESNV-AFG 636
Cdd:PTZ00109 891 RKQFIFENSpAFG 903
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
8-630 |
5.62e-171 |
|
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason. This protein is active as an alpha(2)beta(2) heterotetramer. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 130127 [Multi-domain] Cd Length: 625 Bit Score: 502.14 E-value: 5.62e-171
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 8 NYNEDAIQVLEGLDAVRKRPGMYigsTDTRGLHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH- 86
Cdd:TIGR01055 3 NYSAKDIEVLDGLEPVRKRPGMY---TDTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHp 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 87 KLGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIHRDGFIYEQRFENGGKpVTTLEKIGKTKK- 165
Cdd:TIGR01055 80 KEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAK-VTDLISAGTCGKr 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 166 -TGTTIHFKPDATIFSTTVYNYDTLCERLRESAFLLKGFKIELIDKRHDRHDIFHYETGIQAFVSYLNEEKDSLHPVVF- 243
Cdd:TIGR01055 159 lTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDGLKDYLSEAVNGDNTLPPKPFs 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 244 --FEGihHNIEVEFAFQF-NDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKVSLLkEKDKNLEGTDIREGL 320
Cdd:TIGR01055 239 gnFEG--DDEAVEWALLWlPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNL-PRGVKLTAEDIWDRC 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 321 GAIVSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKAAQAREaaRKAREDARngkK 400
Cdd:TIGR01055 316 SYVLSIKMQDP--QFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQRRK--RAAKKVVR---K 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 401 RKRQETVLSGKLTPAQSRNPQRNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIG 480
Cdd:TIGR01055 389 KLTSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALG 468
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 481 GGVGADFtIDDINYDKIVIMTDADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALPPLYKVSKGsgkKEVVeYSWSDEEL 560
Cdd:TIGR01055 469 IDPDSND-LSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLS---KEVY-YALDEEEK 543
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1264924593 561 QGAIDKVGRGYM---IQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDA--ARADRRVTTLMGDKV-EPRRKWIE 630
Cdd:TIGR01055 544 EKLLYKLKKKKGkpnVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVqdQRVDKIMDMLLAKKRsEDRFNWLQ 619
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
39-218 |
1.23e-105 |
|
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes histidine kinase-like ATPase domain of the B subunit of DNA gyrase. Bacterial DNA gyrase is a type II topoisomerase (type II as it transiently cleaves both strands of DNA) which catalyzes the introduction of negative supercoils into DNA, possibly by a mechanism in which one segment of the double-stranded DNA substrate is passed through a transient break in a second segment. It consists of GyrA and GyrB subunits in an A2B2 stoichiometry; GyrA subunits catalyze strand-breakage and reunion reactions, and GyrB subunits hydrolyze ATP. DNA gyrase is found in bacteria, plants and archaea, but as it is absent in humans it is a possible drug target for the treatment of bacterial and parasite infections.
Pssm-ID: 340405 [Multi-domain] Cd Length: 180 Bit Score: 317.56 E-value: 1.23e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 39 LHHLVYEIVDNSVDEALAGYGEEIIVTIHKDNSISVQDKGRGMPTGMH-KLGKPTPEVILTILHAGGKFGQGGYKTSGGL 117
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHpKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 118 HGVGASVVNALSEWLTVTIHRDGFIYEQRFENGGkPVTTLEKIGKTKKTGTTIHFKPDATIFSTTVYNYDTLCERLRESA 197
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGG-PLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELA 159
|
170 180
....*....|....*....|.
gi 1264924593 198 FLLKGFKIELIDKRHDRHDIF 218
Cdd:cd16928 160 FLNKGLKIVLEDERTGKEEVF 180
|
|
| TopoII_Trans_DNA_gyrase |
cd00822 |
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the ... |
223-393 |
3.97e-80 |
|
TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are heterodimers composed of two subunits. The type IIA enzymes are the predominant form of topoisomerase and are found in some bacteriophages, viruses and archaea, and in all bacteria and eukaryotes. All type IIA topoisomerases are related to each other at amino acid sequence level, though their oligomeric organization sometimes differs. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. TopoIIA enzymes also catenate/ decatenate duplex rings. E.coli DNA gyrase is a heterodimer composed of two subunits. E. coli DNA gyrase B subunit is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes.
Pssm-ID: 238419 [Multi-domain] Cd Length: 172 Bit Score: 251.33 E-value: 3.97e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 223 GIQAFVSYLNEEKDSLHPVVF-FEGIHHNIEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYARKV 301
Cdd:cd00822 2 GLKDFVEELNKDKEPLHEEPIyIEGEKDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAKKN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 302 SLLKEKDKNLEGTDIREGLGAIVSVRIPEelLQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAIKA 381
Cdd:cd00822 82 NLLKKKDVKLTGDDIREGLTAVISVKVPE--PQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAILA 159
|
170
....*....|..
gi 1264924593 382 AQAREAARKARE 393
Cdd:cd00822 160 AKAREAARKARE 171
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
223-393 |
1.95e-70 |
|
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal S5 domain 2-like fold. This family is structurally related to PF01119.
Pssm-ID: 425522 [Multi-domain] Cd Length: 173 Bit Score: 225.96 E-value: 1.95e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 223 GIQAFVSYLNEEKDSLHP-VVFFEGIHHN--IEVEFAFQFNDGYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNEYAR 299
Cdd:pfam00204 1 GLKDFVEELNKDKKPLHKeIIYFEGESPDnrIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 300 KVSLLKEKDKNLEGTDIREGLGAIVSVRIPEEllQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENPDVSSLLVKKAI 379
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDP--QFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....
gi 1264924593 380 KAAQAREAARKARE 393
Cdd:pfam00204 159 QAAKARLAARKARE 172
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
424-536 |
7.99e-66 |
|
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. DNA gyrase is more effective at relaxing supercoils than decatentating DNA. DNA gyrase in addition inserts negative supercoils in the presence of ATP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173786 [Multi-domain] Cd Length: 114 Bit Score: 211.74 E-value: 7.99e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 424 ELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVGADFTIDDINYDKIVIMTDA 503
Cdd:cd03366 2 ELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIGEDFDLEKLRYHKIIIMTDA 81
|
90 100 110
....*....|....*....|....*....|...
gi 1264924593 504 DTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALP 536
Cdd:cd03366 82 DVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
12-631 |
4.92e-60 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 211.54 E-value: 4.92e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 12 DAIQVLEGLDAVRKRPGMYIGSTDTR-----------------GLHHLVYEIVDNSVDEALAG---YGEEIIVTIhKDNS 71
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEaherflfgkftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTI-KNNQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 72 ISVQDKGRGMPTGMHKL--GK--PTPEVILTILHAGGKFGQGGYKTsGGLHGVGASVVNALSEWLT---------VTIhr 138
Cdd:PHA02569 81 VTVSDNGRGIPQAMVTTpeGEeiPGPVAAWTRTKAGSNFDDTNRVT-GGMNGVGSSLTNFFSVLFIgetcdgkneVTV-- 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 139 dgfiyeqRFENGGKPVTTLEKIGKTKktGTTIHFKPDATIFSTTVYNYDTL---CERLRESAFLLKGFKIELIDKRHDRH 215
Cdd:PHA02569 158 -------NCSNGAENISWSTKPGKGK--GTSVTFIPDFSHFEVNGLDQQYLdiiLDRLQTLAVVFPDIKFTFNGKKVSGK 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 216 difhyetgiqaFVSYLNEEKDslHPVvffegIHHNIEVEFAF-QFNDGYSEtiLSFVNNVRTKDGGTHESGAKSAMtraf 294
Cdd:PHA02569 229 -----------FKKYAKQFGD--DTI-----VQENDNVSIALaPSPDGFRQ--LSFVNGLHTKNGGHHVDCVMDDI---- 284
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 295 neYARKVSLLKEKDK-NLEGTDIREGLGAIVSVRipeEL--LQFEGQTKGKLGTS--EARSSVDaVISEKLAYFLEENPD 369
Cdd:PHA02569 285 --CEELIPMIKKKHKiEVTKARVKECLTIVLFVR---NMsnPRFDSQTKERLTSPfgEIRNHID-LDYKKIAKQILKTEA 358
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 370 VSSLLVKKAIKAAQAREAA--RKAREDARNGKKRKRQETVLSGKltpaqsrnPQRNELYLVEGDSAGGSAKQGRDRRFQA 447
Cdd:PHA02569 359 IIMPIIEAALARKLAAEKAaeTKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHG 430
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 448 VLPLRGKVINTEKAKLQDIFKNEEISTIIhAIGGGVGADfTIDDINYDKIVIMTDADTDG-AHIQVLLLTFFYRYMKpLV 526
Cdd:PHA02569 431 GYPLRGKVLNTWGMSYADILKNKELFDIC-AITGLVLGE-KAENMNYKNIAIMTDADVDGkGSIYPLLLAFFSRWPE-LF 507
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 527 EAGKVFIALPPLYKVSKGSGKKevveYSWSDEELQGAIDKVGrGYMIQRYKGLGEMNADQLWETTMNPETRTlirVRIDD 606
Cdd:PHA02569 508 EQGRIRFVKTPVIIAQVGKETK----WFYSLDEFEKAKDSLK-KWSIRYIKGLGSLRKSEYRRVINNPVYDV---VVLPD 579
|
650 660
....*....|....*....|....*
gi 1264924593 607 AARadRRVTTLMGDKVEPRRKWIES 631
Cdd:PHA02569 580 DWK--ELFEMLFGDDADLRKDWMSQ 602
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
424-536 |
7.55e-55 |
|
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173780 [Multi-domain] Cd Length: 115 Bit Score: 182.71 E-value: 7.55e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 424 ELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVG-ADFTIDDINYDKIVIMTD 502
Cdd:cd01030 2 ELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGkDDFDLDKLRYGKIIIMTD 81
|
90 100 110
....*....|....*....|....*....|....
gi 1264924593 503 ADTDGAHIQVLLLTFFYRYMKPLVEAGKVFIALP 536
Cdd:cd01030 82 ADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
26-630 |
3.88e-47 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 179.52 E-value: 3.88e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 26 RPGMYIGSTD---------------------TRGLHHLVYEIVDNSVDEALAGYG-EEIIVTIHKD-NSISVQDKGRGMP 82
Cdd:PLN03128 19 RPDTYIGSTEkhtqtlwvyeggemvnrevtyVPGLYKIFDEILVNAADNKQRDPSmDSLKVDIDVEqNTISVYNNGKGIP 98
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 83 TGMHK-LGKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIH--RDGFIYEQRFENG----GKP-V 154
Cdd:PLN03128 99 VEIHKeEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVETAdgNRGKKYKQVFTNNmsvkSEPkI 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 155 TTLEKigktKKTGTTIHFKPDATIFSTTVYNYDT---LCERLRESA-FLLKGFKIELIDKRHDrhdifhyETGIQAFVS- 229
Cdd:PLN03128 179 TSCKA----SENWTKITFKPDLAKFNMTRLDEDVvalMSKRVYDIAgCLGKKLKVELNGKKLP-------VKSFQDYVGl 247
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 230 YLNEEKDSLHPVVFFEGIHHNIEVefAFQFNDGYSETIlSFVNNVRTKDGGTHesgaksamtraFNEYARKVS-----LL 304
Cdd:PLN03128 248 YLGPNSREDPLPRIYEKVNDRWEV--CVSLSDGSFQQV-SFVNSIATIKGGTH-----------VDYVADQIVkhiqeKV 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 305 KEKDKN---LEGTDIREGLGAIVSVRIpeELLQFEGQTKGKLGTSEARSSVDAVISEKlayFLEEnpDVSSLLVKKAIKA 381
Cdd:PLN03128 314 KKKNKNathVKPFQIKNHLWVFVNCLI--ENPTFDSQTKETLTTRPSSFGSKCELSEE---FLKK--VEKCGVVENILSW 386
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 382 AQAREAArkarEDARNGKKRKRQETVLSgKLTPAQ---SRNPQRNELYLVEGDSAGGSAKQGRD---RRFQAVLPLRGKV 455
Cdd:PLN03128 387 AQFKQQK----ELKKKDGAKRQRLTGIP-KLDDANdagGKKSKDCTLILTEGDSAKALAMSGLSvvgRDHYGVFPLRGKL 461
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 456 INTEKAKLQDIFKNEEISTIIHAIGGGVGADFTIDDIN---YDKIVIMTDADTDGAHIQVLLLTFFyRYMKP-------- 524
Cdd:PLN03128 462 LNVREASHKQIMKNAEITNIKQILGLQFGKTYDEENTKslrYGHLMIMTDQDHDGSHIKGLIINFF-HSFWPsllkipgf 540
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 525 LVEagkvFIAlpPLYKVSKGsGKKEVV----EYswsdEELQGAIDKVGRGYMIQRYKGLGEMNADQ-------------- 586
Cdd:PLN03128 541 LVE----FIT--PIVKATKG-GKSLSFytmpEY----EAWKESLEGETKGWTIKYYKGLGTSTSEEakeyfsnldihkke 609
|
650 660 670 680
....*....|....*....|....*....|....*....|....*
gi 1264924593 587 -LWETTMNPEtrtlirvRIDDAARadrrvttlmGDKVEPRRKWIE 630
Cdd:PLN03128 610 fLWQSDEDGD-------LIDMAFS---------KKRVEDRKIWLN 638
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
11-631 |
2.64e-45 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 174.08 E-value: 2.64e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 11 EDAIQVLEGLDAVRKRPGMYIGSTDTR-----------------------GLHHLVYEI----VDNSVDEALAGYGEEII 63
Cdd:PTZ00108 7 EERYQKKTQIEHILLRPDTYIGSIETQtedmwvydeeknrmvyktityvpGLYKIFDEIlvnaADNKARDKGGHRMTYIK 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 64 VTIHKD-NSISVQDKGRGMPTGMHKLGKP-TPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTI--HRD 139
Cdd:PTZ00108 87 VTIDEEnGEISVYNDGEGIPVQIHKEHKIyVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECvdSKS 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 140 GFIYEQRFENGGKPVTTlEKIG--KTKKTGTTIHFKPDATIFSTTVYNYDT---LCERLRESAFLLKGFKIELIDKRhdr 214
Cdd:PTZ00108 167 GKKFKMTWTDNMSKKSE-PRITsyDGKKDYTKVTFYPDYAKFGMTEFDDDMlrlLKKRVYDLAGCFGKLKVYLNGER--- 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 215 hdifhyeTGIQAFVSYLN----EEKDSLHPVVFFEGIHHNIEVEFAFQFNDGySETILSFVNNVRTKDGGTHESGAKSAM 290
Cdd:PTZ00108 243 -------IAIKSFKDYVDlylpDGEEGKKPPYPFVYTSVNGRWEVVVSLSDG-QFQQVSFVNSICTTKGGTHVNYILDQL 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 291 TRAFNEYARKvslLKEKDKNLEGTDIREGLGAIVSVRI--PeellQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEENP 368
Cdd:PTZ00108 315 ISKLQEKAKK---KKKKGKEIKPNQIKNHLWVFVNCLIvnP----SFDSQTKETLTTKPSKFGSTCELSEKLIKYVLKSP 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 369 DVSSLLvkKAIKAAQAREAARKARedarnGKKRKRqetvLSG--KL---TPAQSRNPQRNELYLVEGDSAGGSAKQG--- 440
Cdd:PTZ00108 388 ILENIV--EWAQAKLAAELNKKMK-----AGKKSR----ILGipKLddaNDAGGKNSEECTLILTEGDSAKALALAGlsv 456
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 441 RDRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVGADFT-IDDINYDKIVIMTDADTDGAHIQVLLLTFFY 519
Cdd:PTZ00108 457 VGRDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYEdPKGLRYGSLMIMTDQDHDGSHIKGLLINMIH 536
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 520 RYMKPLVEAG---KVFIAlpPLYKVSKgSGKKEVVEYSWSD-EELQGAIDKVgrGYMIQRYKGLGEMNADQLWETTMNPE 595
Cdd:PTZ00108 537 HFWPSLLKNPgflKEFIT--PIVKATK-KGNQVISFFTIPDfEKWKQTVGLK--GWKIKYYKGLGTSTDKEGKEYFSNID 611
|
650 660 670
....*....|....*....|....*....|....*.
gi 1264924593 596 TRTlIRVRIDDAARADRRVTTLMGDKVEPRRKWIES 631
Cdd:PTZ00108 612 KHR-IRFVYVDDSDDDSIDLAFSKKRVEDRKEWITN 646
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
568-630 |
4.16e-41 |
|
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA topoisomerase II are similar, but they have a different carboxyl terminus. The amino-terminal portion of the DNA gyrase B protein is thought to catalyze the ATP-dependent super-coiling of DNA. See pfam00204. The carboxyl-terminal end supports the complexation with the DNA gyrase A protein and the ATP-independent relaxation. This family also contains Topoisomerase IV. This is a bacterial enzyme that is closely related to DNA gyrase,.
Pssm-ID: 460016 [Multi-domain] Cd Length: 63 Bit Score: 143.29 E-value: 4.16e-41
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1264924593 568 GRGYMIQRYKGLGEMNADQLWETTMNPETRTLIRVRIDDAARADRRVTTLMGDKVEPRRKWIE 630
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
11-580 |
4.41e-35 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 142.69 E-value: 4.41e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 11 EDAIQVLEGLDAVRKRPGMYIGSTDTRGLHHLVYE---IVDNSV----------DEALAGYGEE---------IIVTIHK 68
Cdd:PLN03237 29 EEMYQKKSQLEHILLRPDTYIGSIEKHTQTLWVYEtdkMVQRSVtyvpglykifDEILVNAADNkqrdpkmdsLRVVIDV 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 69 D-NSISVQDKGRGMPTGMHKL-GKPTPEVILTILHAGGKFGQGGYKTSGGLHGVGASVVNALS-EWLTVTIhrDGF---I 142
Cdd:PLN03237 109 EqNLISVYNNGDGVPVEIHQEeGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFStEFVIETA--DGKrqkK 186
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 143 YEQRFENG-GK---PVTTlekigKTKKTG--TTIHFKPDATIFSTTVYNYDT---LCERLRESAFLL-KGFKIELIDKRh 212
Cdd:PLN03237 187 YKQVFSNNmGKksePVIT-----KCKKSEnwTKVTFKPDLAKFNMTHLEDDVvalMKKRVVDIAGCLgKTVKVELNGKR- 260
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 213 drhdifhyeTGIQAFVSYLN------EEKDSLHPVVFFEGIHHNIEVefAFQFNDGYSETIlSFVNNVRTKDGGTHESGA 286
Cdd:PLN03237 261 ---------IPVKSFSDYVDlylesaNKSRPENLPRIYEKVNDRWEV--CVSLSEGQFQQV-SFVNSIATIKGGTHVDYV 328
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 287 KSAMTRAFNEYARKvsllKEKDKNLEGTDIREGLGAIVSVRIpeELLQFEGQTKGKLGTSEARSSVDAVISEKLAYFLEE 366
Cdd:PLN03237 329 TNQIANHVMEAVNK----KNKNANIKAHNVKNHLWVFVNALI--DNPAFDSQTKETLTLRQSSFGSKCELSEDFLKKVMK 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 367 NPDVSSLLVKKAIKaaQAREAARKaredarNGKKRKRQETVlsGKLTPAQS---RNPQRNELYLVEGDSAGGSAKQGR-- 441
Cdd:PLN03237 403 SGIVENLLSWADFK--QSKELKKT------DGAKTTRVTGI--PKLEDANEaggKNSEKCTLILTEGDSAKALAVAGLsv 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 442 -DRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVGADF-TIDDINYDKIVIMTDADTDGAHIQVLLLTFFY 519
Cdd:PLN03237 473 vGRNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYeSVKSLRYGHLMIMTDQDHDGSHIKGLLINFIH 552
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1264924593 520 RYMKPLVEAGKVFIA-LPPLYKVSKgSGKKEVVEYSWSD-EELQGAIDKVGRGYMIQRYKGLG 580
Cdd:PLN03237 553 SFWPSLLKVPSFLVEfITPIVKATR-RGKKVLSFYSMPEyEEWKESLGGNATGWSIKYYKGLG 614
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
425-521 |
1.82e-18 |
|
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands of the duplex DNA to remove (relax) both positive and negative supercoils in DNA. These enzymes covalently attach to the 5' ends of the cut DNA, separate the free ends of the cleaved strands, pass another region of the duplex through this gap, then rejoin the ends. These proteins also catenate/ decatenate duplex rings. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in strand joining and as a general acid in strand cleavage by topisomerases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173785 [Multi-domain] Cd Length: 120 Bit Score: 81.58 E-value: 1.82e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 425 LYLVEGDSAGGSAKQGR---DRRFQAVLPLRGKVINTEKAKLQDIFKNEEISTIIHAIGGGVGADF--TIDDINYDKIVI 499
Cdd:cd03365 3 LILTEGDSAKALAVAGLsvvGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDyeSTKSLRYGRLMI 82
|
90 100
....*....|....*....|..
gi 1264924593 500 MTDADTDGAHIQVLLLTFFYRY 521
Cdd:cd03365 83 MTDQDHDGSHIKGLLINFIHSF 104
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
224-344 |
4.00e-17 |
|
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is known to be important in nucleotide hydrolysis and the transduction of structural signals from ATP-binding site to the DNA breakage/reunion regions of the enzymes. The GyrB dimerizes in response to ATP binding, and is homologous to the N-terminal half of eukaryotic Topo II and the ATPase fragment of MutL. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. Included in this group are proteins similar to human MLH1 and PMS2. MLH1 forms a heterodimer with PMS2 which functions in meiosis and in DNA mismatch repair (MMR). Cells lacking either hMLH1 or hPMS2 have a strong mutator phenotype and display microsatellite instability (MSI). Mutation in hMLH1 accounts for a large fraction of Lynch syndrome (HNPCC) families.
Pssm-ID: 238202 [Multi-domain] Cd Length: 107 Bit Score: 77.30 E-value: 4.00e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 224 IQAFVSYLNEEKDsLHPVVFFEGIHHNIEVEFAFQFND---GYSETILSFVNNVRTKDGGTHESGAKSAMTRAFNeyark 300
Cdd:cd00329 1 LKDRLAEILGDKV-ADKLIYVEGESDGFRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN----- 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 1264924593 301 vsllkekdknleGTDIREGLGAIVSVRIPEELLQFE-GQTKGKLG 344
Cdd:cd00329 75 ------------GDDVRRYPVAVLSLKIPPSLVDVNvHPTKEEVR 107
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
34-177 |
7.31e-16 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 73.84 E-value: 7.31e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 34 TDTRGLHHLVYEIVDNSVDEALAgyGEEIIVTIHKDN---SISVQDKGRGMPtgmhklgkptPEVILTILHAGGKFGQGG 110
Cdd:smart00387 1 GDPDRLRQVLSNLLDNAIKYTPE--GGRITVTLERDGdhvEITVEDNGPGIP----------PEDLEKIFEPFFRTDKRS 68
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1264924593 111 YKTSGglHGVGASVVNALSEWLTVTIHRDGfiyeqrfenggkpvttlekigkTKKTGTTIHFKPDAT 177
Cdd:smart00387 69 RKIGG--TGLGLSIVKKLVELHGGEISVES----------------------EPGGGTTFTITLPLE 111
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
34-178 |
1.56e-14 |
|
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the structurally related ATPase domains of histidine kinase, DNA gyrase B and HSP90.
Pssm-ID: 460579 [Multi-domain] Cd Length: 109 Bit Score: 70.09 E-value: 1.56e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 34 TDTRGLHHLVYEIVDNSVDEAlaGYGEEIIVTIHKDN--SISVQDKGRGMPTGMHKlgkptpeviltilHAGGKFGQGGy 111
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKHA--AKAGEITVTLSEGGelTLTVEDNGIGIPPEDLP-------------RIFEPFSTAD- 64
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1264924593 112 KTSGGLHGVGASVVNALSEWLTVTIHrdgfiyeqrfenggkpvttlekIGKTKKTGTTIHFKPDATI 178
Cdd:pfam02518 65 KRGGGGTGLGLSIVRKLVELLGGTIT----------------------VESEPGGGTTVTLTLPLAQ 109
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
424-534 |
8.74e-13 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 64.30 E-value: 8.74e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 424 ELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLQDIFKneEISTIIHaigggvgadftiddiNYDKIVIMTDA 503
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKALK--ALKELAL---------------KAKEVILATDP 63
|
90 100 110
....*....|....*....|....*....|.
gi 1264924593 504 DTDGAHIQVLLLTfFYRYMKPLVeaGKVFIA 534
Cdd:pfam01751 64 DREGEAIALKLLE-LKELLENAG--GRVEFS 91
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
38-175 |
5.55e-07 |
|
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the histidine kinase-like ATPase (HATpase) domains of human topoisomerase IIA (TopIIA) and TopIIB, Saccharomyces cerevisae TOP2p, and related proteins. These proteins catalyze the passage of DNA double strands through a transient double-strand break in the presence of ATP.
Pssm-ID: 340407 [Multi-domain] Cd Length: 147 Bit Score: 49.64 E-value: 5.55e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 38 GLHHLVYEIVDNSVD-EALAGYGEEIIVTIHKD-NSISVQDKGRGMPTGMHKLGKP-TPEVILTILHAGGKFGQGGYKTS 114
Cdd:cd16930 4 GLYKIFDEILVNAADnKQRDKSMTCIKVTIDPEnNEISVWNNGKGIPVVIHKEEKIyVPEMIFGHLLTSSNYDDDEKKVT 83
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1264924593 115 GGLHGVGASVVNALSEWLTV-TIHRD-GFIYEQRFENG----GKPVTTleKIgKTKKTGTTIHFKPD 175
Cdd:cd16930 84 GGRNGYGAKLCNIFSTEFTVeTADSEsKKKFKQTWTNNmgkaSEPKIT--PY-EKGKDYTKVTFKPD 147
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
423-529 |
1.11e-06 |
|
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173773 [Multi-domain] Cd Length: 83 Bit Score: 46.65 E-value: 1.11e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1264924593 423 NELYLVEGDSAGGSAKQGRDRRfQAVLPLRGKVINTEKAKLQDIFKNeeistiihaigggvgadftiddinYDKIVIMTD 502
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGGYG-GAVVALGGHALNKTRELLKRLLGE------------------------AKEVIIATD 55
|
90 100
....*....|....*....|....*..
gi 1264924593 503 ADTDGAHIQVLLLTFFYRYMKPLVEAG 529
Cdd:cd00188 56 ADREGEAIALRLLELLKSLGKKVRRLL 82
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| HATPase_LytS-like |
cd16957 |
Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to ... |
46-92 |
5.42e-03 |
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Histidine kinase-like ATPase domain of two-component sensor histidine kinases similar to Bacillus subtilis LytS and Staphylococcus aureus LytS; This family includes the histidine kinase-like ATPase (HATPase) domains of various two-component sensor histidine kinase (HKs) such as Bacillus subtilis LytS, a HK of the two-component system (TCS) LytS-LytR needed for growth on pyruvate, and Staphylococcus aureus LytS-LytR TCS involved in the adaptation of S. aureus to cationic antimicrobial peptides. Proteins having this HATPase domain also contain a histidine kinase domain (His-kinase), and a GAF sensor domain; most contain a DUF3816 domain.
Pssm-ID: 340433 [Multi-domain] Cd Length: 106 Bit Score: 37.02 E-value: 5.42e-03
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....*....|....*....|....*....|....*....|....*....|...
gi 1264924593 46 IVDNSVDEALAG--YGEEIIVTIHKDNS---ISVQDKGRGMP-TGMHKLGKPT 92
Cdd:cd16957 9 LVENAIRHAFPKrkENNEVRVVVKKDQHkvhVSVSDNGQGIPeERLDLLGKTT 61
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