|
Name |
Accession |
Description |
Interval |
E-value |
| 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: 1166.17 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 1 MARKqqfdYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRG 80
Cdd:TIGR01058 1 MASK----YNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 81 MPTGMHKLGK-PTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGGKPVTSLEK 159
Cdd:TIGR01058 77 IPTGIHQDGNiSTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKK 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 160 IGKTKKTGTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERNDQHEVFYYENGIEAFVAYLNEEKDVLS 239
Cdd:TIGR01058 157 IGTTKKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNKTTVFFYENGLVDFVDYINETKETLS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 240 EVVSFEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREG 319
Cdd:TIGR01058 237 QVTYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREG 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 320 LSAIISVRIPEELLQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARSGK 399
Cdd:TIGR01058 317 LSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 400 KRKKSEATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAI 479
Cdd:TIGR01058 397 KPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCI 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 480 GGGVGADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKGSGKKeiIEYAWSDEE 559
Cdd:TIGR01058 477 GTGIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKK--VKYAWSDLE 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 560 MGDVLKKVgKGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKNVAFGLDE 639
Cdd:TIGR01058 555 LESVKKKL-KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFSVEE 633
|
....
gi 504292842 640 ESNI 643
Cdd:TIGR01058 634 ELQI 637
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
8-635 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1159.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 8 DYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH- 86
Cdd:COG0187 5 NYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVDIHp 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 87 KLGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGgKPVTSLEKIGKTKKT 166
Cdd:COG0187 85 KEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGKTDRT 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 167 GTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERND--QHEVFYYENGIEAFVAYLNEEKDVL-SEVVS 243
Cdd:COG0187 164 GTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEepKEETFHYEGGIKDFVEYLNEDKEPLhPEVIY 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 244 FEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREGLSAI 323
Cdd:COG0187 244 FEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVREGLTAV 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 324 ISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARsgKKRKK 403
Cdd:COG0187 324 ISVKLPEP--QFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVR--RKSAL 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 404 SEATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGV 483
Cdd:COG0187 400 ESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTGI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 484 GADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKgsGKKEiiEYAWSDEEMGDV 563
Cdd:COG0187 480 GDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKK--GKKT--YYAYSDAELDEL 555
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 504292842 564 LKKV--GKGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKNVAF 635
Cdd:COG0187 556 LKELkgKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKF 629
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
8-638 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1077.42 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 8 DYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH- 86
Cdd:PRK05644 7 EYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIHp 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 87 KLGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGgKPVTSLEKIGKTKKT 166
Cdd:PRK05644 87 KTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG-VPVTPLEVIGETDET 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 167 GTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERND--QHEVFYYENGIEAFVAYLNEEKDVL-SEVVS 243
Cdd:PRK05644 166 GTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGeeKEETFHYEGGIKEYVEYLNRNKEPLhEEPIY 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 244 FEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREGLSAI 323
Cdd:PRK05644 246 FEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGLTAV 325
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 324 ISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARsgkkrKK 403
Cdd:PRK05644 326 ISVKHPEP--QFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTR-----RK 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 404 S---EATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIG 480
Cdd:PRK05644 399 SaleSSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 481 GGVGADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKGSgkkeiIEYAWSDEEM 560
Cdd:PRK05644 479 TGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGG-----KEYAYSDEEL 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 561 GDVLKKVG----KGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKN---V 633
Cdd:PRK05644 554 DEILAELKlkgnPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENakyV 633
|
....*
gi 504292842 634 AFgLD 638
Cdd:PRK05644 634 RN-LD 637
|
|
| 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: 916.56 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 38 GLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH-KLGKPTPEVILTVLHAGGKFGQGGYKTSGG 116
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHpKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 117 LHGVGASVVNALSEWLTVTIERDGFVYQQRFENGGKPVTSLEKIGKTKKTGTLTHFKPDPTMFSTTT-YNFETLSERLRE 195
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGMTTdDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 196 SAFLLKGLKIELIDERNDQHEVFYYENGIEAFVAYLNEEKDVLS-EVVSFEGEHHSIEVDFAFQFNDGYSENILSFVNNV 274
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSpEPTYIEGEKDNIRVEVAFQYTDGYSENIVSFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 275 RTKDGGTHESGAKTAMTRAFNEYARKVALLKEKdkNLEGTDIREGLSAIISVRIPEEllQFEGQTKGKLGTSEARSAVDA 354
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFISVKIPEP--QFEGQTKEKLGTSEVRFGVEK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 355 IVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARSGKKRKKSeatLSGKLTPAGSRNPAKNELYLVEGDSAG 434
Cdd:smart00433 317 IVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKKKLSSIS---LPGKLADASSAGPKKCELFLVEGDSAG 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 435 GSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVGADFSIDDINYDKIIIMTDADTDGAHIQVLL 514
Cdd:smart00433 394 GSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDIEKLRYGKIIIMTDADVDGSHIKGLL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 515 LTFFYRYMKPLIEHGKVFIALPPLYKVSKGSgKKEIIEYAWSDEEMGDVLKKVGK--GYTIQRYKGLGEMNADQLWETTM 592
Cdd:smart00433 474 LTFFYRYMPPLIEAGFVYIAIPPLYKVTKGK-KKYVYSFYSLDEYEKWLEKTEGNksKYEIQRYKGLGEMNADQLWETTM 552
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 504292842 593 NPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKNVA 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 |
8.39e-107 |
|
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: 320.64 E-value: 8.39e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 39 LHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH-KLGKPTPEVILTVLHAGGKFGQGGYKTSGGL 117
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHpKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 118 HGVGASVVNALSEWLTVTIERDGFVYQQRFENGGkPVTSLEKIGKTKKTGTLTHFKPDPTMFSTTTYNFETLSERLRESA 197
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGG-PLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELA 159
|
170 180
....*....|....*....|.
gi 504292842 198 FLLKGLKIELIDERNDQHEVF 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 |
2.43e-71 |
|
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: 228.27 E-value: 2.43e-71
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 223 GIEAFVAYLNEEKDVL-SEVVSFEGEHHS--IEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYAR 299
Cdd:pfam00204 1 GLKDFVEELNKDKKPLhKEIIYFEGESPDnrIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 300 KVALLKEKDKNLEGTDIREGLSAIISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAI 379
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDP--QFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....
gi 504292842 380 KASQAREAARKARE 393
Cdd:pfam00204 159 QAAKARLAARKARE 172
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| 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: 1166.17 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 1 MARKqqfdYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRG 80
Cdd:TIGR01058 1 MASK----YNADAIKILEGLDAVRKRPGMYIGSTDSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 81 MPTGMHKLGK-PTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGGKPVTSLEK 159
Cdd:TIGR01058 77 IPTGIHQDGNiSTVETVFTVLHAGGKFDQGGYKTAGGLHGVGASVVNALSSWLEVTVKRDGQIYQQRFENGGKIVQSLKK 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 160 IGKTKKTGTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERNDQHEVFYYENGIEAFVAYLNEEKDVLS 239
Cdd:TIGR01058 157 IGTTKKTGTLVHFHPDPTIFKTTQFNSNIIKERLKESAFLLKKLKLTFTDKRTNKTTVFFYENGLVDFVDYINETKETLS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 240 EVVSFEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREG 319
Cdd:TIGR01058 237 QVTYFEGEKNGIEVEVAFQFNDGDSENILSFANSVKTKEGGTHENGFKLAITDVINSYARKYNLLKEKDKNLEGSDIREG 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 320 LSAIISVRIPEELLQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARSGK 399
Cdd:TIGR01058 317 LSAIISVRIPEELIQFEGQTKSKLFSPEARNVVDEIVQDHLFFFLEENNNDAKLLIDKAIKARDAKEAAKKAREEKKSGK 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 400 KRKKSEATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAI 479
Cdd:TIGR01058 397 KPKKEKGILSGKLTPAQSKNPAKNELFLVEGDSAGGSAKQGRDRKFQAILPLRGKVLNVEKAKLADILKNEEINTIIFCI 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 480 GGGVGADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKGSGKKeiIEYAWSDEE 559
Cdd:TIGR01058 477 GTGIGADFSIKDLKYDKIIIMTDADTDGAHIQVLLLTFFYRYMRPLIELGHVYIALPPLYKLSKKDGKK--VKYAWSDLE 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 560 MGDVLKKVgKGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKNVAFGLDE 639
Cdd:TIGR01058 555 LESVKKKL-KNYTLQRYKGLGEMNADQLWETTMNPETRTLVRVKIDDLARAERQINTLMGDKVEPRKKWIEANINFSVEE 633
|
....
gi 504292842 640 ESNI 643
Cdd:TIGR01058 634 ELQI 637
|
|
| GyrB |
COG0187 |
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair]; |
8-635 |
0e+00 |
|
DNA gyrase/topoisomerase IV, subunit B [Replication, recombination and repair];
Pssm-ID: 439957 [Multi-domain] Cd Length: 635 Bit Score: 1159.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 8 DYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH- 86
Cdd:COG0187 5 NYDASSIQVLEGLEAVRKRPGMYIGSTDERGLHHLVWEIVDNSIDEALAGYCDRIEVTLHADGSVTVEDNGRGIPVDIHp 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 87 KLGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGgKPVTSLEKIGKTKKT 166
Cdd:COG0187 85 KEGKSALEVVLTVLHAGGKFDGGSYKVSGGLHGVGASVVNALSERLEVEVKRDGKIYRQRFERG-KPVGPLEKIGKTDRT 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 167 GTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERND--QHEVFYYENGIEAFVAYLNEEKDVL-SEVVS 243
Cdd:COG0187 164 GTTVRFKPDPEIFETTEFDYETLAERLRELAFLNKGLTITLTDEREEepKEETFHYEGGIKDFVEYLNEDKEPLhPEVIY 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 244 FEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREGLSAI 323
Cdd:COG0187 244 FEGEKDGIEVEVALQWNDGYSENIHSFVNNINTPEGGTHETGFRTALTRVINDYARKNGLLKEKDKNLTGDDVREGLTAV 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 324 ISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARsgKKRKK 403
Cdd:COG0187 324 ISVKLPEP--QFEGQTKTKLGNSEARGIVESVVSEKLEHYLEENPAEAKKILEKAILAARAREAARKARELVR--RKSAL 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 404 SEATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGV 483
Cdd:COG0187 400 ESSGLPGKLADCSSKDPEESELFIVEGDSAGGSAKQGRDREFQAILPLRGKILNVEKARLDKILKNEEIRDLITALGTGI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 484 GADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKgsGKKEiiEYAWSDEEMGDV 563
Cdd:COG0187 480 GDDFDLEKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGHVYIAQPPLYRIKK--GKKT--YYAYSDAELDEL 555
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 504292842 564 LKKV--GKGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKNVAF 635
Cdd:COG0187 556 LKELkgKKKVEIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSLLMGDKVEPRREFIEENAKF 629
|
|
| gyrB |
PRK05644 |
DNA gyrase subunit B; Validated |
8-638 |
0e+00 |
|
DNA gyrase subunit B; Validated
Pssm-ID: 235542 [Multi-domain] Cd Length: 638 Bit Score: 1077.42 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 8 DYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH- 86
Cdd:PRK05644 7 EYDASQIQVLEGLEAVRKRPGMYIGSTGERGLHHLVYEIVDNSIDEALAGYCDHIEVTINEDGSITVTDNGRGIPVDIHp 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 87 KLGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGgKPVTSLEKIGKTKKT 166
Cdd:PRK05644 87 KTGKPAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALSTWLEVEVKRDGKIYYQEYERG-VPVTPLEVIGETDET 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 167 GTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERND--QHEVFYYENGIEAFVAYLNEEKDVL-SEVVS 243
Cdd:PRK05644 166 GTTVTFKPDPEIFETTEFDYDTLATRLRELAFLNKGLKITLTDEREGeeKEETFHYEGGIKEYVEYLNRNKEPLhEEPIY 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 244 FEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREGLSAI 323
Cdd:PRK05644 246 FEGEKDGIEVEVAMQYNDGYSENILSFANNINTHEGGTHEEGFKTALTRVINDYARKNKLLKEKDDNLTGEDVREGLTAV 325
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 324 ISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARsgkkrKK 403
Cdd:PRK05644 326 ISVKHPEP--QFEGQTKTKLGNSEVRGIVDSVVSEALSEFLEENPNVAKKIVEKAILAARAREAARKARELTR-----RK 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 404 S---EATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIG 480
Cdd:PRK05644 399 SaleSSSLPGKLADCSSKDPEESELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALG 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 481 GGVGADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKGSgkkeiIEYAWSDEEM 560
Cdd:PRK05644 479 TGIGDDFDISKLRYHKIIIMTDADVDGAHIRTLLLTFFYRYMRPLIEAGYVYIAQPPLYKIKKGG-----KEYAYSDEEL 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 561 GDVLKKVG----KGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKN---V 633
Cdd:PRK05644 554 DEILAELKlkgnPKYGIQRYKGLGEMNPEQLWETTMDPETRTLLQVTIEDAAEADEIFSILMGDDVEPRREFIEENakyV 633
|
....*
gi 504292842 634 AFgLD 638
Cdd:PRK05644 634 RN-LD 637
|
|
| 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: 1052.39 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 4 KQQFDYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPT 83
Cdd:PRK05559 3 MMTNNYNADSIEVLEGLEPVRKRPGMYIGSTDTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 84 GMH-KLGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFEnGGKPVTSLEKIGK 162
Cdd:PRK05559 83 GIHpEEGKSGVEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSSRLEVEVKRDGKVYRQRFE-GGDPVGPLEVVGT 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 163 T--KKTGTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERNdqHEVFYYENGIEAFVAYLNEEKDVLSE 240
Cdd:PRK05559 162 AgkRKTGTRVRFWPDPKIFDSPKFSPERLKERLRSKAFLLPGLTITLNDERE--RQTFHYENGLKDYLAELNEGKETLPE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 241 --VVSFEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKeKDKNLEGTDIRE 318
Cdd:PRK05559 240 efVGSFEGEAEGEAVEWALQWTDEGGENIESYVNLIPTPQGGTHENGFREGLLKAVREFAEKRNLLP-KGKKLEGEDVRE 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 319 GLSAIISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKareeaRSG 398
Cdd:PRK05559 319 GLAAVLSVKIPEP--QFEGQTKEKLGSREARRFVSGVVKDAFDLWLNQNPELAEKLAEKAIKAAQARLRAAK-----KVK 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 399 KKRKKSEATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHA 478
Cdd:PRK05559 392 RKKKTSGPALPGKLADCTSQDPERTELFLVEGDSAGGSAKQARDREFQAILPLRGKILNTWEASLDDVLANEEIHDIIVA 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 479 IGGGVGADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKGSGKkeiiEYAWSDE 558
Cdd:PRK05559 472 IGIGPGDSFDLEDLRYGKIIIMTDADVDGAHIATLLLTFFYRHFPPLVEAGHVYIALPPLYRVDKGKKK----IYALDEE 547
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 559 EMGDVLKKV---GKGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKNVAF 635
Cdd:PRK05559 548 EKEELLKKLgkkGGKPEIQRFKGLGEMNPDQLWETTMDPETRRLVRVTIDDAEETEKLVDMLMGKKAEPRREWIEENGDF 627
|
....
gi 504292842 636 GLDE 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: 946.07 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 8 DYNEDAIQVLEGLEAVRKRPGMYIGST-DARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH 86
Cdd:PRK14939 6 SYGASSIKVLKGLDAVRKRPGMYIGDTdDGTGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTDIH 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 87 -KLGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGgKPVTSLEKIGKTKK 165
Cdd:PRK14939 86 pEEGVSAAEVIMTVLHAGGKFDQNSYKVSGGLHGVGVSVVNALSEWLELTIRRDGKIHEQEFEHG-VPVAPLKVVGETDK 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 166 TGTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERNDQHEVFYYENGIEAFVAYLNEEKDVL-SEVVSF 244
Cdd:PRK14939 165 TGTEVRFWPSPEIFENTEFDYDILAKRLRELAFLNSGVRIRLKDERDGKEEEFHYEGGIKAFVEYLNRNKTPLhPNIFYF 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 245 EGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREGLSAII 324
Cdd:PRK14939 245 SGEKDGIGVEVALQWNDSYQENVLCFTNNIPQRDGGTHLAGFRAALTRTINNYIEKEGLAKKAKVSLTGDDAREGLTAVL 324
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 325 SVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARsgKKRKKS 404
Cdd:PRK14939 325 SVKVPDP--KFSSQTKDKLVSSEVRPAVESLVNEKLSEFLEENPNEAKIIVGKIIDAARAREAARKARELTR--RKGALD 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 405 EATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVG 484
Cdd:PRK14939 401 IAGLPGKLADCQEKDPALSELYLVEGDSAGGSAKQGRDRKFQAILPLKGKILNVEKARFDKMLSSQEIGTLITALGCGIG 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 485 AD-FSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKgsGKKEIieYAWSDEEM--- 560
Cdd:PRK14939 481 RDeFNPDKLRYHKIIIMTDADVDGSHIRTLLLTFFYRQMPELIERGHLYIAQPPLYKVKK--GKQEQ--YLKDDEALddy 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 561 --------------------GDVLKKV----------------------------------------------------- 567
Cdd:PRK14939 557 lielalegatlhladgpaisGEALEKLvkeyravrkiidrlerrypravlealiyapaldlddladeaavaaldadflts 636
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 568 ----------------------------------------------GKGYTIQRYKGLGEMNADQLWETTMNPESRTLVR 601
Cdd:PRK14939 637 aeyrrlvelaeklrglieegaylergerkqpvssfeealdwllaeaRKGLSIQRYKGLGEMNPEQLWETTMDPENRRLLQ 716
|
730 740 750
....*....|....*....|....*....|.
gi 504292842 602 VKIDDAARVERRVTTLMGDKVEPRRKWIEKN 632
Cdd:PRK14939 717 VTIEDAIAADEIFTTLMGDEVEPRREFIEEN 747
|
|
| 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: 916.56 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 38 GLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH-KLGKPTPEVILTVLHAGGKFGQGGYKTSGG 116
Cdd:smart00433 1 GLHHLVDEIVDNAADEALAGYMDTIKVTIDKDNSISVEDNGRGIPVEIHpKEKKYAPEVIFTVLHAGGKFDDDAYKVSGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 117 LHGVGASVVNALSEWLTVTIERDGFVYQQRFENGGKPVTSLEKIGKTKKTGTLTHFKPDPTMFSTTT-YNFETLSERLRE 195
Cdd:smart00433 81 LHGVGASVVNALSTEFEVEVARDGKEYKQSFSNNGKPLSEPKIIGDTKKDGTKVTFKPDLEIFGMTTdDDFELLKRRLRE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 196 SAFLLKGLKIELIDERNDQHEVFYYENGIEAFVAYLNEEKDVLS-EVVSFEGEHHSIEVDFAFQFNDGYSENILSFVNNV 274
Cdd:smart00433 161 LAFLNKGVKITLNDERSDEEKTFLFEGGIKDYVELLNKNKELLSpEPTYIEGEKDNIRVEVAFQYTDGYSENIVSFVNNI 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 275 RTKDGGTHESGAKTAMTRAFNEYARKVALLKEKdkNLEGTDIREGLSAIISVRIPEEllQFEGQTKGKLGTSEARSAVDA 354
Cdd:smart00433 241 ATTEGGTHENGFKDALTRVINEYAKKKKKLKEK--NIKGEDVREGLTAFISVKIPEP--QFEGQTKEKLGTSEVRFGVEK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 355 IVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARSGKKRKKSeatLSGKLTPAGSRNPAKNELYLVEGDSAG 434
Cdd:smart00433 317 IVSECLLSFLEENPVEASKIVEKVLLAAKARAAAKKARELTRKKKLSSIS---LPGKLADASSAGPKKCELFLVEGDSAG 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 435 GSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVGADFSIDDINYDKIIIMTDADTDGAHIQVLL 514
Cdd:smart00433 394 GSAKSGRDRDFQAILPLRGKILNVEKASLDKILKNEEIQALITALGLGIGKDFDIEKLRYGKIIIMTDADVDGSHIKGLL 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 515 LTFFYRYMKPLIEHGKVFIALPPLYKVSKGSgKKEIIEYAWSDEEMGDVLKKVGK--GYTIQRYKGLGEMNADQLWETTM 592
Cdd:smart00433 474 LTFFYRYMPPLIEAGFVYIAIPPLYKVTKGK-KKYVYSFYSLDEYEKWLEKTEGNksKYEIQRYKGLGEMNADQLWETTM 552
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 504292842 593 NPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIEKNVA 634
Cdd:smart00433 553 DPERRTLLFVTLDDADEADLIFSALMGDKVEPRKEWIEENAP 594
|
|
| 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: 910.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 9 YNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH-K 87
Cdd:TIGR01059 1 YDASSIKVLEGLEAVRKRPGMYIGSTGETGLHHLVYEVVDNSIDEAMAGYCDTISVTINDDGSVTVEDNGRGIPVDIHpE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 88 LGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGgKPVTSLEKIGKTKKTG 167
Cdd:TIGR01059 81 EGISAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSEWLEVTVFRDGKIYRQEFERG-IPVGPLEVVGETKKTG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 168 TLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDER--NDQHEVFYYENGIEAFVAYLNEEKDVL-SEVVSF 244
Cdd:TIGR01059 160 TTVRFWPDPEIFETTEFDFDILAKRLRELAFLNSGVKISLEDERdgKGKKVTFHYEGGIKSFVKYLNRNKEPLhEEIIYI 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 245 EGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREGLSAII 324
Cdd:TIGR01059 240 KGEKEGIEVEVALQWNDGYSENILSFVNNINTREGGTHLEGFRSALTRVINSYAKNNKLLKESKPNLTGEDIREGLTAVI 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 325 SVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARsgKKRKKS 404
Cdd:TIGR01059 320 SVKVPDP--QFEGQTKTKLGNSEVRSIVESLVYEKLTEFFEENPQEAKAIVEKAILAAQAREAARKARELTR--RKSALD 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 405 EATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVG 484
Cdd:TIGR01059 396 SGGLPGKLADCSSKDPSKSELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILSNQEIGAIITALGCGIG 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 485 ADFSIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKgsGKKEI-------------- 550
Cdd:TIGR01059 476 KDFDLEKLRYHKIIIMTDADVDGSHIRTLLLTFFYRYMRPLIENGYVYIAQPPLYKVKK--GKKERyikddkekdlvgea 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 551 -----IEYAWSDEEMGDVLKKVG-----KGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGD 620
Cdd:TIGR01059 554 ledlkALYIYSDKEKEEAKTQIPvhlgrKGIEIQRYKGLGEMNADQLWETTMDPESRTLLKVTIEDAVEADRIFSTLMGD 633
|
650
....*....|..
gi 504292842 621 KVEPRRKWIEKN 632
Cdd:TIGR01059 634 EVEPRREFIEAN 645
|
|
| parE_Gneg |
TIGR01055 |
DNA topoisomerase IV, B subunit, proteobacterial; Operationally, topoisomerase IV is a type II ... |
8-631 |
5.26e-173 |
|
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: 507.15 E-value: 5.26e-173
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 8 DYNEDAIQVLEGLEAVRKRPGMYigsTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH- 86
Cdd:TIGR01055 3 NYSAKDIEVLDGLEPVRKRPGMY---TDTTRPNHLVQEVIDNSVDEALAGFASIIMVILHQDQSIEVFDNGRGMPVDIHp 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 87 KLGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIERDGFVYQQRFENGGKpVTSLEKIGKTKK- 165
Cdd:TIGR01055 80 KEGVSAVEVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKRVKIKVYRQGKLYSIAFENGAK-VTDLISAGTCGKr 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 166 -TGTLTHFKPDPTMFSTTTYNFETLSERLRESAFLLKGLKIELIDERNDQHEVFYYENGIEAFVA-YLNEEKDVLSEVVS 243
Cdd:TIGR01055 159 lTGTSVHFTPDPEIFDSLHFSVSRLYHILRAKAVLCRGVEIEFEDEVNNTKALWNYPDGLKDYLSeAVNGDNTLPPKPFS 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 244 FEGEHHSIEVDFAFQF-NDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARKVALLkEKDKNLEGTDIREGLSA 322
Cdd:TIGR01055 239 GNFEGDDEAVEWALLWlPEGGELFMESYVNLIPTPQGGTHVNGLRQGLLDALREFCEMRNNL-PRGVKLTAEDIWDRCSY 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 323 IISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQareaaRKAREEARSGKKRK 402
Cdd:TIGR01055 318 VLSIKMQDP--QFAGQTKERLSSRQVAKFVSGVIKDAFDLWLNQNVQLAEHLAEHAISSAQ-----RRKRAAKKVVRKKL 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 403 KSEATLSGKLTPAGSRNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGG 482
Cdd:TIGR01055 391 TSGPALPGKLADCTRQDLEGTELFLVEGDSAGGSAKQARDREYQAILPLWGKILNTWEVSLDKVLNSQEIHDIEVALGID 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 483 VGADFsIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVSKGsgkKEIIeYAWSDEEMGD 562
Cdd:TIGR01055 471 PDSND-LSQLRYGKICILADADSDGLHIATLLCALFFLHFPKLVEEGHVYVAKPPLYRIDLS---KEVY-YALDEEEKEK 545
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 504292842 563 VLKKVGKGY---TIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDA--ARVERRVTTLMGDKV-EPRRKWIEK 631
Cdd:TIGR01055 546 LLYKLKKKKgkpNVQRFKGLGEMNPAQLRETTMDPNTRRLVQLTLDDVqdQRVDKIMDMLLAKKRsEDRFNWLQE 620
|
|
| PTZ00109 |
PTZ00109 |
DNA gyrase subunit b; Provisional |
8-636 |
7.75e-173 |
|
DNA gyrase subunit b; Provisional
Pssm-ID: 240272 [Multi-domain] Cd Length: 903 Bit Score: 515.97 E-value: 7.75e-173
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 8 DYNEDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH- 86
Cdd:PTZ00109 99 EYDADDIVVLEGLEAVRKRPGMYIGNTDEKGLHQLLFEILDNSVDEYLAGECNKITVVLHKDGSVEISDNGRGIPCDVSe 178
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 87 KLGKPTPEVILTVLHAGGKFGQGG----------------------------------------YKTSGGLHGVGASVVN 126
Cdd:PTZ00109 179 KTGKSGLETVLTVLHSGGKFQDTFpknsrsdksedkndtksskkgksshvkgpkeakekessqmYEYSSGLHGVGLSVVN 258
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 127 ALSEWLTVTIERDGFVYQQRFENGG--KPVTSLEKigKTKKTGTLTHFKPD-PTMFSTTT--------------YNFETL 189
Cdd:PTZ00109 259 ALSSFLKVDVFKGGKIYSIELSKGKvtKPLSVFSC--PLKKRGTTIHFLPDyKHIFKTHHqhteteeeegckngFNLDLI 336
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 190 SERLRESAFLLKGLKIELIDERNDQ------HEVFYYENGIEAFVAYLNEEKDVL---SEVVSFEGEHHSIEVDFAFQFN 260
Cdd:PTZ00109 337 KNRIHELSYLNPGLTFYLVDERIANennfypYETIKHEGGTREFLEELIKDKTPLykdINIISIRGVIKNVNVEVSLSWS 416
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 261 DG-YSENILSFVNNVRTKdGGTHESGAKTAMTRAFNEYARKVALLKEKDKNLEGTDIREGLSAIISVRI--PEellqFEG 337
Cdd:PTZ00109 417 LEsYTALIKSFANNVSTT-AGTHIDGFKYAITRCVNGNIKKNGYFKGNFVNIPGEFIREGMTAIISVKLngAE----FDG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 338 QTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIKASQAREAARKAREEARSgKKRKKSEATLSGKLTPAGS 417
Cdd:PTZ00109 492 QTKTKLGNHLLKTILESIVFEQLSEILEFEPNLLLAIYNKSLAAKKAFEEAKAAKDLIRQ-KNNQYYSTILPGKLVDCIS 570
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 418 RNPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKL-ADIFKNEEINTIIHAIGGGV------------G 484
Cdd:PTZ00109 571 DDIERNELFIVEGESAAGNAKQARNREFQAVLPLKGKILNIEKIKNnKKVFENSEIKLLITSIGLSVnpvtwrqydlshG 650
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 485 ADFSIDD--------------------INYDKIIIMTDADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALPPLYKVS-- 542
Cdd:PTZ00109 651 TKASKDEsvqnnnstltkkknslfdtpLRYGKIILLTDADVDGEHLRILLLTLLYRFCPSLYEHGRVYVACPPLYRITnn 730
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 543 -------KGSGKKEIIeYAWSDEEM------------------------------------------------------- 560
Cdd:PTZ00109 731 rmkqfnvSTKNSKKYI-YTWSDEELnvlikllnkdysskettrsveekgnapdldneyedekldnknmrennvdevelkt 809
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 561 -----------------GDVLKKVGKGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVE 623
Cdd:PTZ00109 810 elgtnvadteqtdeldiNKAFFKFSKHYEIQRFKGLGEMMADQLWETTMDPKKRILIRITVSDAMRASELIFLLMGEDVQ 889
|
810
....*....|....
gi 504292842 624 PRRKWIEKNV-AFG 636
Cdd:PTZ00109 890 SRKQFIFENSpAFG 903
|
|
| HATPase_GyrB-like |
cd16928 |
Histidine kinase-like ATPase domain of the B subunit of DNA gyrase; This family includes ... |
39-218 |
8.39e-107 |
|
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: 320.64 E-value: 8.39e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 39 LHHLVYEIVDNSVDEVLAGHGDHIIVKIHKDNSISVQDRGRGMPTGMH-KLGKPTPEVILTVLHAGGKFGQGGYKTSGGL 117
Cdd:cd16928 1 LHHLVWEIVDNSIDEALAGYATEIEVTLHEDNSITVEDNGRGIPVDIHpKTGKSAVEVVLTVLHAGGKFDGGSYKVSGGL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 118 HGVGASVVNALSEWLTVTIERDGFVYQQRFENGGkPVTSLEKIGKTKKTGTLTHFKPDPTMFSTTTYNFETLSERLRESA 197
Cdd:cd16928 81 HGVGVSVVNALSERLEVEVKRDGKIYRQEFSRGG-PLTPLEVIGETKKTGTTVRFWPDPEIFEKTEFDFDTLKRRLRELA 159
|
170 180
....*....|....*....|.
gi 504292842 198 FLLKGLKIELIDERNDQHEVF 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 ... |
222-394 |
1.07e-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: 252.87 E-value: 1.07e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 222 NGIEAFVAYLNEEKD-VLSEVVSFEGEHHSIEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYARK 300
Cdd:cd00822 1 GGLKDFVEELNKDKEpLHEEPIYIEGEKDGVEVEVALQWTDSYSENILSFVNNIPTPEGGTHETGFRAALTRAINDYAKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 301 VALLKEKDKNLEGTDIREGLSAIISVRIPEelLQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAIK 380
Cdd:cd00822 81 NNLLKKKDVKLTGDDIREGLTAVISVKVPE--PQFEGQTKDKLGNSEVRSIVESAVREALEEWLEENPEEAKKILEKAIL 158
|
170
....*....|....
gi 504292842 381 ASQAREAARKAREE 394
Cdd:cd00822 159 AAKAREAARKAREL 172
|
|
| DNA_gyraseB |
pfam00204 |
DNA gyrase B; This family represents the second domain of DNA gyrase B which has a ribosomal ... |
223-393 |
2.43e-71 |
|
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: 228.27 E-value: 2.43e-71
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 223 GIEAFVAYLNEEKDVL-SEVVSFEGEHHS--IEVDFAFQFNDGYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNEYAR 299
Cdd:pfam00204 1 GLKDFVEELNKDKKPLhKEIIYFEGESPDnrIEVEVALQWTDSYSENILSFVNNIATPEGGTHVDGFKSALTRTINEYAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 300 KVALLKEKDKNLEGTDIREGLSAIISVRIPEEllQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENRDTATLLVKKAI 379
Cdd:pfam00204 81 KKGLLKKKDEKITGEDIREGLTAVVSVKIPDP--QFEGQTKEKLGNPEVKSAVEKIVSEKLEEFLEENPEIAKKILEKAL 158
|
170
....*....|....
gi 504292842 380 KASQAREAARKARE 393
Cdd:pfam00204 159 QAAKARLAARKARE 172
|
|
| TOPRIM_TopoIIA_GyrB |
cd03366 |
TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
424-536 |
3.27e-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: 212.52 E-value: 3.27e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 424 ELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVGADFSIDDINYDKIIIMTDA 503
Cdd:cd03366 2 ELYIVEGDSAGGSAKQGRDRRFQAILPLRGKILNVEKARLDKILKNEEIRALITALGTGIGEDFDLEKLRYHKIIIMTDA 81
|
90 100 110
....*....|....*....|....*....|...
gi 504292842 504 DTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALP 536
Cdd:cd03366 82 DVDGAHIRTLLLTFFFRYMRPLIENGHVYIAQP 114
|
|
| 39 |
PHA02569 |
DNA topoisomerase II large subunit; Provisional |
12-629 |
1.26e-60 |
|
DNA topoisomerase II large subunit; Provisional
Pssm-ID: 177398 [Multi-domain] Cd Length: 602 Bit Score: 213.08 E-value: 1.26e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 12 DAIQVLEGLEAVRKRPGMYIGSTDAR-----------------GLHHLVYEIVDNSVDEVLAG---HGDHIIVKIhKDNS 71
Cdd:PHA02569 2 DEFKVLSDREHILKRPGMYIGSVAYEaherflfgkftqveyvpGLVKIIDEIIDNSVDEAIRTnfkFANKIDVTI-KNNQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 72 ISVQDRGRGMPTGMHKL--GK--PTPEVILTVLHAGGKFGQGGYKTsGGLHGVGASVVNALSEWLT-VTIERDGFVyQQR 146
Cdd:PHA02569 81 VTVSDNGRGIPQAMVTTpeGEeiPGPVAAWTRTKAGSNFDDTNRVT-GGMNGVGSSLTNFFSVLFIgETCDGKNEV-TVN 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 147 FENGGKPVTSLEKIGKTKktGTLTHFKPDPTMFSTTTYNFETL---SERLRESAFLLKGLKieliderndqhevFYYeNG 223
Cdd:PHA02569 159 CSNGAENISWSTKPGKGK--GTSVTFIPDFSHFEVNGLDQQYLdiiLDRLQTLAVVFPDIK-------------FTF-NG 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 224 IEA---FVAYLNEEKDvlsEVVSFEGEHHSIEVDFAfqfNDGYSEniLSFVNNVRTKDGGTHESGAKTAMtrafneYARK 300
Cdd:PHA02569 223 KKVsgkFKKYAKQFGD---DTIVQENDNVSIALAPS---PDGFRQ--LSFVNGLHTKNGGHHVDCVMDDI------CEEL 288
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 301 VALLKEKDK-NLEGTDIREGLSAIISVRipeEL--LQFEGQTKGKLGTS--EARSAVDaIVSEQLAYFLEENRDTATLLV 375
Cdd:PHA02569 289 IPMIKKKHKiEVTKARVKECLTIVLFVR---NMsnPRFDSQTKERLTSPfgEIRNHID-LDYKKIAKQILKTEAIIMPII 364
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 376 KKAIKASQAREAA--RKAREEARSGKKRKKSEATLSGKltpagsrnPAKNELYLVEGDSAGGSAKQGRDRRFQAVLPLRG 453
Cdd:PHA02569 365 EAALARKLAAEKAaeTKAAKKAKKAKVAKHIKANLIGK--------DAETTLFLTEGDSAIGYLIEVRDEELHGGYPLRG 436
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 454 KVINTEKAKLADIFKNEEINTIIhAIGGGVGADFSiDDINYDKIIIMTDADTDG-AHIQVLLLTFFYRYMKpLIEHGKVF 532
Cdd:PHA02569 437 KVLNTWGMSYADILKNKELFDIC-AITGLVLGEKA-ENMNYKNIAIMTDADVDGkGSIYPLLLAFFSRWPE-LFEQGRIR 513
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 533 IALPPLYKVSKGSGKKeiieYAWSDEEMgDVLKKVGKGYTIQRYKGLGEMNADQLWETTMNPESRTlvrVKIDDaaRVER 612
Cdd:PHA02569 514 FVKTPVIIAQVGKETK----WFYSLDEF-EKAKDSLKKWSIRYIKGLGSLRKSEYRRVINNPVYDV---VVLPD--DWKE 583
|
650
....*....|....*..
gi 504292842 613 RVTTLMGDKVEPRRKWI 629
Cdd:PHA02569 584 LFEMLFGDDADLRKDWM 600
|
|
| TOPRIM_TopoIIA_like |
cd01030 |
TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain ... |
424-536 |
5.52e-57 |
|
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: 188.10 E-value: 5.52e-57
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 424 ELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVG-ADFSIDDINYDKIIIMTD 502
Cdd:cd01030 2 ELILVEGDSAGGSAKQGRDRVFQAVFPLRGKILNVEKASLKKILKNEEIQNIIKALGLGIGkDDFDLDKLRYGKIIIMTD 81
|
90 100 110
....*....|....*....|....*....|....
gi 504292842 503 ADTDGAHIQVLLLTFFYRYMKPLIEHGKVFIALP 536
Cdd:cd01030 82 ADVDGSHIRTLLLTFFYRFWPSLLENGFLYIAQT 115
|
|
| PLN03128 |
PLN03128 |
DNA topoisomerase 2; Provisional |
11-630 |
1.29e-47 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215593 [Multi-domain] Cd Length: 1135 Bit Score: 181.06 E-value: 1.29e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 11 EDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYE---IVDNSV----------DEVLAGHGD---------HIIVKIHK 68
Cdd:PLN03128 4 EETYQKKTQLEHILLRPDTYIGSTEKHTQTLWVYEggeMVNREVtyvpglykifDEILVNAADnkqrdpsmdSLKVDIDV 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 69 D-NSISVQDRGRGMPTGMHK-LGKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTIE--RDGFVYQ 144
Cdd:PLN03128 84 EqNTISVYNNGKGIPVEIHKeEGVYVPELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTEFTVETAdgNRGKKYK 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 145 QRFENGGKpVTSLEKIGKTKKTGTLTH--FKPDPTMFSTTTYNFET---LSERLRESA-FLLKGLKIELiderNDQH-EV 217
Cdd:PLN03128 164 QVFTNNMS-VKSEPKITSCKASENWTKitFKPDLAKFNMTRLDEDVvalMSKRVYDIAgCLGKKLKVEL----NGKKlPV 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 218 fyyeNGIEAFVA-YLNEEKDVLSEVVSFEGEHHSIEVdfAFQFNDGYSENIlSFVNNVRTKDGGTHESGAKTAMTRafne 296
Cdd:PLN03128 239 ----KSFQDYVGlYLGPNSREDPLPRIYEKVNDRWEV--CVSLSDGSFQQV-SFVNSIATIKGGTHVDYVADQIVK---- 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 297 yaRKVALLKEKDKN---LEGTDIREGLSAIISVRIpeELLQFEGQTKGKLGTSEARSAVDAIVSEQlayFLEEnrdtatl 373
Cdd:PLN03128 308 --HIQEKVKKKNKNathVKPFQIKNHLWVFVNCLI--ENPTFDSQTKETLTTRPSSFGSKCELSEE---FLKK------- 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 374 LVKKAIKASQAREAARKAREEARSGKKRKKSEATLSGKL---TPAGSRNPAKNELYLVEGDSAGGSAKQGRD---RRFQA 447
Cdd:PLN03128 374 VEKCGVVENILSWAQFKQQKELKKKDGAKRQRLTGIPKLddaNDAGGKKSKDCTLILTEGDSAKALAMSGLSvvgRDHYG 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 448 VLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVGADFSIDDIN---YDKIIIMTDADTDGAHIQVLLLTFFyRYMKP 524
Cdd:PLN03128 454 VFPLRGKLLNVREASHKQIMKNAEITNIKQILGLQFGKTYDEENTKslrYGHLMIMTDQDHDGSHIKGLIINFF-HSFWP 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 525 --------LIEhgkvFIAlpPLYKVSKGsGKKEII----EY-AWSDEEMGDvlkkvGKGYTIQRYKGLGEMNADQ----- 586
Cdd:PLN03128 533 sllkipgfLVE----FIT--PIVKATKG-GKSLSFytmpEYeAWKESLEGE-----TKGWTIKYYKGLGTSTSEEakeyf 600
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|....
gi 504292842 587 ----------LWETTMNPESrtlvrvkIDDAARverrvttlmGDKVEPRRKWIE 630
Cdd:PLN03128 601 snldihkkefLWQSDEDGDL-------IDMAFS---------KKRVEDRKIWLN 638
|
|
| PTZ00108 |
PTZ00108 |
DNA topoisomerase 2-like protein; Provisional |
11-643 |
7.56e-41 |
|
DNA topoisomerase 2-like protein; Provisional
Pssm-ID: 240271 [Multi-domain] Cd Length: 1388 Bit Score: 160.60 E-value: 7.56e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 11 EDAIQVLEGLEAVRKRPGMYIGSTDAR-----------------------GLHHLVYEI----VDNSVDEVLAGHGDHII 63
Cdd:PTZ00108 7 EERYQKKTQIEHILLRPDTYIGSIETQtedmwvydeeknrmvyktityvpGLYKIFDEIlvnaADNKARDKGGHRMTYIK 86
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 64 VKIHKD-NSISVQDRGRGMPTGMHKLGKP-TPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLTVTI--ERD 139
Cdd:PTZ00108 87 VTIDEEnGEISVYNDGEGIPVQIHKEHKIyVPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTKFTVECvdSKS 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 140 GFVYQQRFENGGKPVTSlEKIG--KTKKTGTLTHFKPDPTMFSTTTYNFETLS---ERLRESAFLLKGLKIELIDERNdq 214
Cdd:PTZ00108 167 GKKFKMTWTDNMSKKSE-PRITsyDGKKDYTKVTFYPDYAKFGMTEFDDDMLRllkKRVYDLAGCFGKLKVYLNGERI-- 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 215 hevfyyenGIEAFVAYLN-EEKDVLSEVVSFEGEHHSIEVDFaFQFNDGYSE---NILSFVNNVRTKDGGTHESGAKTAM 290
Cdd:PTZ00108 244 --------AIKSFKDYVDlYLPDGEEGKKPPYPFVYTSVNGR-WEVVVSLSDgqfQQVSFVNSICTTKGGTHVNYILDQL 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 291 TRAFNEYARKvalLKEKDKNLEGTDIREGLSAIISVRI--PeellQFEGQTKGKLGTSEARSAVDAIVSEQLAYFLEENR 368
Cdd:PTZ00108 315 ISKLQEKAKK---KKKKGKEIKPNQIKNHLWVFVNCLIvnP----SFDSQTKETLTTKPSKFGSTCELSEKLIKYVLKSP 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 369 DTATLLvkkaikaSQAReaARKAREEARSGKKRKKSEATLSGKL---TPAGSRNPAKNELYLVEGDSAGGSAKQG---RD 442
Cdd:PTZ00108 388 ILENIV-------EWAQ--AKLAAELNKKMKAGKKSRILGIPKLddaNDAGGKNSEECTLILTEGDSAKALALAGlsvVG 458
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 443 RRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVGADF-SIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRY 521
Cdd:PTZ00108 459 RDYYGVFPLRGKLLNVRDASLKQLMNNKEIQNLFKILGLDIGKKYeDPKGLRYGSLMIMTDQDHDGSHIKGLLINMIHHF 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 522 MKPLIEHG---KVFIAlpPLYKVSKgSGKKEIIEYawSDEEMGDVLKKVG-KGYTIQRYKGLGEMNADQLWETTMNPESR 597
Cdd:PTZ00108 539 WPSLLKNPgflKEFIT--PIVKATK-KGNQVISFF--TIPDFEKWKQTVGlKGWKIKYYKGLGTSTDKEGKEYFSNIDKH 613
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 504292842 598 TLvRVKIDDAARVERRVTTLMGDKVEPRRKWIEKnvafgLDEESNI 643
Cdd:PTZ00108 614 RI-RFVYVDDSDDDSIDLAFSKKRVEDRKEWITN-----YKGGTYV 653
|
|
| DNA_gyraseB_C |
pfam00986 |
DNA gyrase B subunit, carboxyl terminus; The amino terminus of eukaryotic and prokaryotic DNA ... |
568-630 |
6.92e-40 |
|
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: 139.82 E-value: 6.92e-40
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 504292842 568 GKGYTIQRYKGLGEMNADQLWETTMNPESRTLVRVKIDDAARVERRVTTLMGDKVEPRRKWIE 630
Cdd:pfam00986 1 KKKVEIQRYKGLGEMNPEQLWETTMDPETRRLLQVTIEDAAEADEIFSTLMGDKVEPRREFIE 63
|
|
| PLN03237 |
PLN03237 |
DNA topoisomerase 2; Provisional |
11-580 |
1.18e-33 |
|
DNA topoisomerase 2; Provisional
Pssm-ID: 215641 [Multi-domain] Cd Length: 1465 Bit Score: 138.46 E-value: 1.18e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 11 EDAIQVLEGLEAVRKRPGMYIGSTDARGLHHLVYE---IVDNSV----------DEVLAGHGDH-------IIVKIHKD- 69
Cdd:PLN03237 29 EEMYQKKSQLEHILLRPDTYIGSIEKHTQTLWVYEtdkMVQRSVtyvpglykifDEILVNAADNkqrdpkmDSLRVVIDv 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 70 --NSISVQDRGRGMPTGMHKL-GKPTPEVILTVLHAGGKFGQGGYKTSGGLHGVGASVVNALS-EWLTVTIE-RDGFVYQ 144
Cdd:PLN03237 109 eqNLISVYNNGDGVPVEIHQEeGVYVPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFStEFVIETADgKRQKKYK 188
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 145 QRFENG-GK---PVtslekIGKTKKTGTLTH--FKPDPTMFSTTTYNFET---LSERLRESAFLL-KGLKIELIDERNDQ 214
Cdd:PLN03237 189 QVFSNNmGKksePV-----ITKCKKSENWTKvtFKPDLAKFNMTHLEDDVvalMKKRVVDIAGCLgKTVKVELNGKRIPV 263
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 215 HEVFYYENgieafvAYLNEEKDVLSEVVSFEGEHHSIEVDFAFQFNDGYSENIlSFVNNVRTKDGGTHESGAKTAMTRAF 294
Cdd:PLN03237 264 KSFSDYVD------LYLESANKSRPENLPRIYEKVNDRWEVCVSLSEGQFQQV-SFVNSIATIKGGTHVDYVTNQIANHV 336
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 295 NEYARKvallKEKDKNLEGTDIREGLSAIISVRIpeELLQFEGQTKGKLGTSEARSAVDAIVSEQlayfleenrdtatlL 374
Cdd:PLN03237 337 MEAVNK----KNKNANIKAHNVKNHLWVFVNALI--DNPAFDSQTKETLTLRQSSFGSKCELSED--------------F 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 375 VKKAIKASQAREAARKAreEARSGKKRKKSEATLSGKLTP---------AGSRNPAKNELYLVEGDSAGGSAKQGR---D 442
Cdd:PLN03237 397 LKKVMKSGIVENLLSWA--DFKQSKELKKTDGAKTTRVTGipkledaneAGGKNSEKCTLILTEGDSAKALAVAGLsvvG 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 443 RRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVGADF-SIDDINYDKIIIMTDADTDGAHIQVLLLTFFYRY 521
Cdd:PLN03237 475 RNYYGVFPLRGKLLNVREASHKQIMNNAEIENIKQILGLQHGKQYeSVKSLRYGHLMIMTDQDHDGSHIKGLLINFIHSF 554
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 504292842 522 MKPLIehgKV------FIAlpPLYKVSKgSGKKEIIEYAWSD-EEMGDVLKKVGKGYTIQRYKGLG 580
Cdd:PLN03237 555 WPSLL---KVpsflveFIT--PIVKATR-RGKKVLSFYSMPEyEEWKESLGGNATGWSIKYYKGLG 614
|
|
| TOPRIM_TopoIIA |
cd03365 |
TOPRIM_TopoIIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
425-528 |
4.67e-20 |
|
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: 86.20 E-value: 4.67e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 425 LYLVEGDSAGGSAKQGR---DRRFQAVLPLRGKVINTEKAKLADIFKNEEINTIIHAIGGGVGADF--SIDDINYDKIII 499
Cdd:cd03365 3 LILTEGDSAKALAVAGLsvvGRDYYGVFPLRGKLLNVREASHKQIMENAEIQNIKKILGLQHGKSDyeSTKSLRYGRLMI 82
|
90 100
....*....|....*....|....*....
gi 504292842 500 MTDADTDGAHIQVLLLTFFYRYMKPLIEH 528
Cdd:cd03365 83 MTDQDHDGSHIKGLLINFIHSFWPSLLKI 111
|
|
| TopoII_MutL_Trans |
cd00329 |
MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the ... |
224-344 |
6.64e-19 |
|
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: 82.31 E-value: 6.64e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 224 IEAFVAYLNEEKdVLSEVVSFEGEHHSIEVDFAFQFND---GYSENILSFVNNVRTKDGGTHESGAKTAMTRAFNeyark 300
Cdd:cd00329 1 LKDRLAEILGDK-VADKLIYVEGESDGFRVEGAISYPDsgrSSKDRQFSFVNGRPVREGGTHVKAVREAYTRALN----- 74
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 504292842 301 vallkekdknleGTDIREGLSAIISVRIPEELLQFE-GQTKGKLG 344
Cdd:cd00329 75 ------------GDDVRRYPVAVLSLKIPPSLVDVNvHPTKEEVR 107
|
|
| HATPase_c |
smart00387 |
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases. |
34-140 |
9.64e-16 |
|
Histidine kinase-like ATPases; Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Pssm-ID: 214643 [Multi-domain] Cd Length: 111 Bit Score: 73.45 E-value: 9.64e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 34 TDARGLHHLVYEIVDNSVDEvlAGHGDHIIVKIHKDN---SISVQDRGRGMPtgmhklgkptPEVILTVLHAGGKFGQGG 110
Cdd:smart00387 1 GDPDRLRQVLSNLLDNAIKY--TPEGGRITVTLERDGdhvEITVEDNGPGIP----------PEDLEKIFEPFFRTDKRS 68
|
90 100 110
....*....|....*....|....*....|
gi 504292842 111 YKTSGglHGVGASVVNALSEWLTVTIERDG 140
Cdd:smart00387 69 RKIGG--TGLGLSIVKKLVELHGGEISVES 96
|
|
| HATPase_c |
pfam02518 |
Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; This family represents the ... |
34-139 |
3.10e-15 |
|
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: 72.02 E-value: 3.10e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 34 TDARGLHHLVYEIVDNSVDEvlAGHGDHIIVKIHKDN--SISVQDRGRGMPTGMHKlgkptpeviltvlHAGGKFGQGGy 111
Cdd:pfam02518 1 GDELRLRQVLSNLLDNALKH--AAKAGEITVTLSEGGelTLTVEDNGIGIPPEDLP-------------RIFEPFSTAD- 64
|
90 100
....*....|....*....|....*...
gi 504292842 112 KTSGGLHGVGASVVNALSEWLTVTIERD 139
Cdd:pfam02518 65 KRGGGGTGLGLSIVRKLVELLGGTITVE 92
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
424-532 |
1.38e-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: 66.61 E-value: 1.38e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 424 ELYLVEGDSAGGSAKQGRDRRFQAVLPLRGKVINTEKAKLADIFKneEINTIIHaigggvgadfsiddiNYDKIIIMTDA 503
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQAVVAVLGHLLSLEKGPKKKALK--ALKELAL---------------KAKEVILATDP 63
|
90 100
....*....|....*....|....*....
gi 504292842 504 DTDGAHIQVLLLTfFYRYMKPLIEHGKVF 532
Cdd:pfam01751 64 DREGEAIALKLLE-LKELLENAGGRVEFS 91
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
423-526 |
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 504292842 423 NELYLVEGDSAGGSAKQGRDRRfQAVLPLRGKVINTEKAKLADIFKNeeintiihaigggvgadfsiddinYDKIIIMTD 502
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGGYG-GAVVALGGHALNKTRELLKRLLGE------------------------AKEVIIATD 55
|
90 100
....*....|....*....|....
gi 504292842 503 ADTDGAHIQVLLLTFFYRYMKPLI 526
Cdd:cd00188 56 ADREGEAIALRLLELLKSLGKKVR 79
|
|
| HATPase_TopII-like |
cd16930 |
Histidine kinase-like ATPase domain of eukaryotic topoisomerase II; This family includes the ... |
38-175 |
1.30e-05 |
|
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: 45.41 E-value: 1.30e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 38 GLHHLVYEIVDNSVD-EVLAGHGDHIIVKIHKD-NSISVQDRGRGMPTGMHKLGKP-TPEVILTVLHAGGKFGQGGYKTS 114
Cdd:cd16930 4 GLYKIFDEILVNAADnKQRDKSMTCIKVTIDPEnNEISVWNNGKGIPVVIHKEEKIyVPEMIFGHLLTSSNYDDDEKKVT 83
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 504292842 115 GGLHGVGASVVNALSEWLTV-TIERD-GFVYQQRFENG----GKP-VTSLEKigktKKTGTLTHFKPD 175
Cdd:cd16930 84 GGRNGYGAKLCNIFSTEFTVeTADSEsKKKFKQTWTNNmgkaSEPkITPYEK----GKDYTKVTFKPD 147
|
|
| HATPase_TopVIB-like |
cd16933 |
Histidine kinase-like ATPase domain of type IIB topoisomerase, Topo VI, subunit B; This family ... |
36-221 |
2.29e-03 |
|
Histidine kinase-like ATPase domain of type IIB topoisomerase, Topo VI, subunit B; This family includes the histidine kinase-like ATPase (HATPase) domain of the B subunit of topoisomerase VI (Topo VIB). Topo VI is a heterotetrameric complex composed of two TopVIA and two TopVIB subunits and is categorized as a type II B DNA topoisomerase. It is found in archaea and also in plants. Type II enzymes cleave both strands of a DNA duplex and pass a second duplex through the resulting break in an ATP-dependent mechanism. DNA cleavage by Topo VI generates two-nucleotide 5'-protruding ends.
Pssm-ID: 340410 [Multi-domain] Cd Length: 203 Bit Score: 39.64 E-value: 2.29e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 36 ARGLHHLVYEIVDNSVD--EVlAGHGDHIIVKIHKDN----SISVQDRGRGMPtgmhklGKPTPEVILTVLhAGGKFGQg 109
Cdd:cd16933 17 IRSLYTTVRELVENSLDatEE-AGILPDIKVEIEEIGkdhyKVIVEDNGPGIP------EEQIPKVFGKVL-YGSKYHN- 87
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90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 504292842 110 gyKTSGGLHGVGASVVNALSEWLTvtierdgfvyqqrfengGKPVtslEKIGKTKKTGTLTHFKpdpTMFSTTTYNFETL 189
Cdd:cd16933 88 --KQSRGQQGLGISAAVLYSQMTT-----------------GKPV---EIISSTKDSNYAYVVK---LMIDTDKNEPEIL 142
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170 180 190
....*....|....*....|....*....|....*.
gi 504292842 190 SERLRESAFLLKGLKIELIDERND----QHEVFYYE 221
Cdd:cd16933 143 EKEEVENRYKWHGTRVELELEGNWvaarSQILEYYK 178
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