|
Name |
Accession |
Description |
Interval |
E-value |
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-561 |
2.41e-172 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 501.55 E-value: 2.41e-172
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLPvhgqDPQMlTVGVGQDFKPHYQILSGKEKTVARLKELRQ 80
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLGK-----DYVVTASVGHLRDLP----KPEL-DVDVENDFEPKYEVIPGKKKQVKELKKLAK 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 81 KAVEIYVASDPDREGESIGWHILQAAG-IKNYKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPE 159
Cdd:COG0550 71 KADEVILATDPDREGEAIAWHLLELLGdKKPVKRVVFNEITKKAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPL 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 160 LRRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVspSDGRTWKAEWDPVptfASEEFPyvqDRQLAE-L 238
Cdd:COG0550 151 LWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFK--TGGGEFTAKLVKI---DGKKIL---DEEEAEaI 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 239 VGAIRN--VIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDNPNISKDSMPDIRA 316
Cdd:COG0550 223 LAALKGktFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEVGLITYMRTDSVRLSEDAVAAARE 302
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 317 VAKAL-GLKCVEQQ-RMFKADQDAQEGHPAITPTDWTAATAGETADEQALYQLIRVRALASQIEAAVYAVRTITlLGVGP 394
Cdd:COG0550 303 YIEALyGKEYLPEKpRVYKTSKNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLIWKRFLASQMPPAEYETTTVT-IEVGG 381
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 395 DkkplRFGAKGKLLNVPGWRKLLQGDDAEEQKNETpsnpIPIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKR 474
Cdd:COG0550 382 E----EFRASGKVIKFPGFLKVYGEGKDDEEEEEE----KRLPPLKEGEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEE 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 475 RGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLSLDFTRNLEVALDRIANSEDTYMNVVQQFY 553
Cdd:COG0550 454 LGIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLEEHFPdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFY 533
|
....*...
gi 490477597 554 QLLQTELQ 561
Cdd:COG0550 534 KPFKELVE 541
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
1-617 |
5.78e-152 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 460.03 E-value: 5.78e-152
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLP---------VHGQDPQMLTVGVGQDFKPHYQILSGKEKT 71
Cdd:PRK07561 2 KSLVIVESPAKAKTINKYLGS-----DYVVKASVGHIRDLPtsassvpakEKGALWARMGVDPDHDFEALYEVLPGKEKV 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 72 VARLKELRQKAVEIYVASDPDREGESIGWHILQAAGIKN--YKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVID 149
Cdd:PRK07561 77 VSELKKAAKDADELYLATDPDREGEAIAWHLLEVLGGDDvpVKRVVFNEITKNAIQEAFENPRELDINLVNAQQARRFLD 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 150 RLVGYLVTPEL-RRVMGRpTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSPsDGRTWKAEwdpVPTFASEEF- 227
Cdd:PRK07561 157 RLVGYMVSPLLwKKIARG-LSAGRVQSVAVRLIVEREREIEAFVPEEYWDIHADLTTP-RGDAFEAR---LTHLDGKKFa 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 228 -PYVQDRQLAE-LVGAIRNV--IVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDN 303
Cdd:PRK07561 232 pVDLLNEAQAEaAVAALEGArySVASVEDKPTTRKPSAPFTTSTLQQEASRKLGFSVKKTMRIAQRLYEAGYITYMRTDS 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 304 PNISKDSMPDIRAVAKAL-GLKCV-EQQRMFKA-DQDAQEGHPAITPTDwTAATAGE----TADEQALYQLIRVRALASQ 376
Cdd:PRK07561 312 TNLSQEAINAARGYIGDNyGKKYLpEKPRQYSSkAKNAQEAHEAIRPSD-VFRTPDQlkglEGDAQRLYELIWKRFVASQ 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 377 IEAAVYAVRTITLLGvgpdkKPLRFGAKGKLLNVPGWRKLLQ--GDDAEEQKNETpsnpipIPALEPRQILKVYSGEVLE 454
Cdd:PRK07561 391 MAPARYDSTTVTIAA-----GDAELRATGRVLRFDGFLKVYVegRDDALDDEDRR------LPALKVGDALTLEKLDPTQ 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 455 KKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFSFL-SLDFTRNLEV 533
Cdd:PRK07561 460 HFTKPPARYSEASLVKELEKLGIGRPSTYASIISTIQDRGYVRLENRRFYPEKMGRIVTDRLEEFFPRLvDYDFTARMEE 539
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 534 ALDRIANSEDTYMNVVQQFYQLLQTelqtlrALPSAQDEPRASSTASISSAPTsDFLCGKCGLPLVhrKKAGKGGfDFWG 613
Cdd:PRK07561 540 ELDDIANGEADWKPVLDDFYKDFSQ------QLEKAEELREEGGMRPNQMVIT-DRDCPTCGRGMG--IRTGKTG-VFLG 609
|
....
gi 490477597 614 CSGY 617
Cdd:PRK07561 610 CSGY 613
|
|
| topA_bact |
TIGR01051 |
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ... |
3-629 |
1.08e-149 |
|
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of bacteria. DNA topoisomerase I transiently cleaves one DNA strand and thus relaxes negatively supercoiled DNA during replication, transcription and recombination events. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273416 [Multi-domain] Cd Length: 610 Bit Score: 446.44 E-value: 1.08e-149
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 3 LVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLPvhgqdPQMLTVGVGQDFKPHYQILSGKEKTVARLKELRQKA 82
Cdd:TIGR01051 1 LVIVESPAKAKTIKKYLGD-----EYEVEASMGHIRDLP-----KSRLGVDIEKDFEPEYVVSKGKKKVVKELKTLAKKA 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 83 VEIYVASDPDREGESIGWHILQAAGIKN--YKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPEL 160
Cdd:TIGR01051 71 DEVYLATDPDREGEAIAWHLAEVLKPKDpvYKRIVFNEITKKAIRAALKNPREIDMNLVNAQQARRILDRLVGYTLSPLL 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 161 RRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFvsPSDGRTWKAEwdpVPTFASEEFPYVQDRQLAElVG 240
Cdd:TIGR01051 151 WKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEEYWTIDATF--QKGEETFEAL---LTEVNGKKLKAGSDLDEAE-AT 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 241 AIRNVI------VETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYE--------QGLITYHRTDNPNI 306
Cdd:TIGR01051 225 ALKEQLkgeelvVEEIEKKPKKSRPPPPFTTSTLQQEASRKLGFSAKKTMMIAQRLYEgvstgdgtIGLITYMRTDSTRL 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 307 SKDSMPDIRA-VAKALGLKCV-EQQRMFKAD-QDAQEGHPAITPTDWT----AATAGETADEQALYQLIRVRALASQIEA 379
Cdd:TIGR01051 305 SNQAVNEARNlIDKNYGKEYLgPKPKRYKSKeKNAQEAHEAIRPTSVFrtpeELKDYLKRDEFRLYELIWKRFVASQMAD 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 380 AVYavRTITLLgVGPDKKPLRFGAKGKLLNVPGWRKLLQgddaEEQKNETPSNPIPIPALEPRQILKVYSGEVLEKKTTP 459
Cdd:TIGR01051 385 ARY--DSTSVR-LTNEDGEYVFKATGRKLIFDGYYKVYV----EGSDDPLEEKDRILPPLKEGDAVKLVEVKPNQHFTQP 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 460 PKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLSLDFTRNLEVALDRI 538
Cdd:TIGR01051 458 PARYTEASLVKELEELGIGRPSTYASIISTIQDRGYVKKENKRLYPTELGFAVTDLLEKHFGdVVDYDFTAKMEKDLDEI 537
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 539 ANSEDTYMNVVQQFYqllqtelqtlraLPSAQDEPRASSTASISSAPTSDFlCGKCGLPLVhrKKAGKGGFdFWGCSGYR 618
Cdd:TIGR01051 538 AEGKAEWKPVLKNFY------------TGFSSKVKKLRNMRIIVDFKTSQD-CPLCGRPMV--VKLGKYGP-FLACSNFP 601
|
650
....*....|.
gi 490477597 619 TtgCKVSYPTK 629
Cdd:TIGR01051 602 E--CKYTKSIV 610
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
137-557 |
2.23e-104 |
|
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA and then rejoin the broken phosphodiester backbone. Proposed catalytic mechanism of single stranded DNA cleavage is by phosphoryl transfer through a tyrosine nucleophile using acid/base catalysis. Tyr is activated by a nearby group (not yet identified) acting as a general base for nucleophilic attack on the 5' phosphate of the scissile bond. Arg and Lys stabilize the pentavalent transition state. Glu then acts as a proton donor for the leaving 3'-oxygen, upon cleavage of the scissile strand.
Pssm-ID: 238110 [Multi-domain] Cd Length: 381 Bit Score: 321.48 E-value: 2.23e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 137 PKVASQECRRVIDRLVGYLVTPELRRVMGRPTT--AGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVspsdgrtwka 214
Cdd:cd00186 2 NLVNAQLARRILDRLVGFNLSRLLTKKLRRKGVlsAGRVQSPTLGLIVEREREIKAFVPEDYWEIKEAVV---------- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 215 ewdpvptfaseefpyvqdrqlaelvgairnVIVETcidGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQG 294
Cdd:cd00186 72 ------------------------------VSVEK---KEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAG 118
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 295 LITYHRTDNPNISKDSMPDIRAVAKA------LGLKCVEQQRMFKADQDAQEGHPAITPTD---WTAATAGETADEQALY 365
Cdd:cd00186 119 LITYPRTDSTRLSEEAILEAREYIQAiygkeyLYPAPLLGRRNPKRGKKEQGAHEAIRPTKvapTPELEANLSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 366 QLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGAKGKLLNVPGWRKLLQgddaEEQKNEtpsnPIPIPALEPRQIL 445
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTL-----EIGGEKFKASGKVLLEDGWLEVYP----EEKDDE----EEEPPPLKEGDEL 265
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 446 KVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLS 524
Cdd:cd00186 266 KLEEVELEEKETQPPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAVIELLEKHFPeLVD 345
|
410 420 430
....*....|....*....|....*....|...
gi 490477597 525 LDFTRNLEVALDRIANSEDTYMNVVQQFYQLLQ 557
Cdd:cd00186 346 PEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFK 378
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
133-550 |
1.93e-103 |
|
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes preferentially relax negatively supercoiled DNA, from a 5' phospho- tyrosine linkage in the enzyme-DNA covalent intermediate and has high affinity for single stranded DNA.
Pssm-ID: 426069 [Multi-domain] Cd Length: 410 Bit Score: 320.34 E-value: 1.93e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 133 RLDLPKVASQECRRVIDRLVGYLVTPEL-RRVMGRPT-TAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSpSDGR 210
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLtLKLKGNKLlSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKD-GGGV 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 211 TWKAEWDPVPTFaseefpyvqDRQLAE-LVGAIRN--VIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIA 287
Cdd:pfam01131 80 FANAKWKRGRIF---------DKEEAEaILEKLKKgtAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 288 QRLYEQ-GLITYHRTDNPNISKDS-MPDIR-AVAKALGLKCVEQQRMFKAD------QDAQEG-HPAITPTDWTAATAGE 357
Cdd:pfam01131 151 QKLYEKhGLITYPRTDSTYLSDDAtLKAILeYLTKNYGKYLPYAPRLLKKTkgkltvGNAKVTaHEAIRPTGDIPVLPEL 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 358 TADEQALYQLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGAKGKLLNVPGWRKLLQGDDAEEQKnetpsnpiPIP 437
Cdd:pfam01131 231 SDDERKLYELIVRRFLASQMPPAVYETTTVVL-----EVGGEEFRASGKVILEDGWLKVYPYEKKEDEE--------ELP 297
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 438 ALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLE 517
Cdd:pfam01131 298 ELKEGEELKVTQVEVEEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYVERKKKSLVPTELGKALVEALE 377
|
410 420 430
....*....|....*....|....*....|...
gi 490477597 518 HNFSFLSLDFTRNLEVALDRIANSEDTYMNVVQ 550
Cdd:pfam01131 378 KFPDLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
254-511 |
1.30e-73 |
|
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase alpha subunit
Pssm-ID: 214663 [Multi-domain] Cd Length: 259 Bit Score: 237.14 E-value: 1.30e-73
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 254 EETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDNPNISKDSMPDIRA-VAKALGLKCVEQQRMF 332
Cdd:smart00437 4 EKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNyIQKLYGKEYLDLAVVL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 333 KADQ------DAQEGHPAITPTDWTAATAGE---TADEQALYQLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGA 403
Cdd:smart00437 84 LKPRkprkgkKAQGAHEAIRPTKPIFTPELEkelSEDEFKLYELIWRRFLASQMPDAKYEETKVTI-----KIGGEKFKA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 404 KGKLLNVPGWRKLLQgddaEEQKNETpsnpIPIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSY 483
Cdd:smart00437 159 KGKTLLFDGWLKVYP----EEKKEEE----IELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTY 230
|
250 260
....*....|....*....|....*...
gi 490477597 484 ASIVKNIIDKGQVQMKGRSLIPGELGEA 511
Cdd:smart00437 231 ASIIETLLDRGYVTKKKKKLIPTELGIA 258
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-561 |
2.41e-172 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 501.55 E-value: 2.41e-172
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLPvhgqDPQMlTVGVGQDFKPHYQILSGKEKTVARLKELRQ 80
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLGK-----DYVVTASVGHLRDLP----KPEL-DVDVENDFEPKYEVIPGKKKQVKELKKLAK 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 81 KAVEIYVASDPDREGESIGWHILQAAG-IKNYKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPE 159
Cdd:COG0550 71 KADEVILATDPDREGEAIAWHLLELLGdKKPVKRVVFNEITKKAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPL 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 160 LRRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVspSDGRTWKAEWDPVptfASEEFPyvqDRQLAE-L 238
Cdd:COG0550 151 LWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFK--TGGGEFTAKLVKI---DGKKIL---DEEEAEaI 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 239 VGAIRN--VIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDNPNISKDSMPDIRA 316
Cdd:COG0550 223 LAALKGktFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEVGLITYMRTDSVRLSEDAVAAARE 302
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 317 VAKAL-GLKCVEQQ-RMFKADQDAQEGHPAITPTDWTAATAGETADEQALYQLIRVRALASQIEAAVYAVRTITlLGVGP 394
Cdd:COG0550 303 YIEALyGKEYLPEKpRVYKTSKNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLIWKRFLASQMPPAEYETTTVT-IEVGG 381
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 395 DkkplRFGAKGKLLNVPGWRKLLQGDDAEEQKNETpsnpIPIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKR 474
Cdd:COG0550 382 E----EFRASGKVIKFPGFLKVYGEGKDDEEEEEE----KRLPPLKEGEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEE 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 475 RGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLSLDFTRNLEVALDRIANSEDTYMNVVQQFY 553
Cdd:COG0550 454 LGIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLEEHFPdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFY 533
|
....*...
gi 490477597 554 QLLQTELQ 561
Cdd:COG0550 534 KPFKELVE 541
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
1-617 |
5.78e-152 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 460.03 E-value: 5.78e-152
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLP---------VHGQDPQMLTVGVGQDFKPHYQILSGKEKT 71
Cdd:PRK07561 2 KSLVIVESPAKAKTINKYLGS-----DYVVKASVGHIRDLPtsassvpakEKGALWARMGVDPDHDFEALYEVLPGKEKV 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 72 VARLKELRQKAVEIYVASDPDREGESIGWHILQAAGIKN--YKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVID 149
Cdd:PRK07561 77 VSELKKAAKDADELYLATDPDREGEAIAWHLLEVLGGDDvpVKRVVFNEITKNAIQEAFENPRELDINLVNAQQARRFLD 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 150 RLVGYLVTPEL-RRVMGRpTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSPsDGRTWKAEwdpVPTFASEEF- 227
Cdd:PRK07561 157 RLVGYMVSPLLwKKIARG-LSAGRVQSVAVRLIVEREREIEAFVPEEYWDIHADLTTP-RGDAFEAR---LTHLDGKKFa 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 228 -PYVQDRQLAE-LVGAIRNV--IVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDN 303
Cdd:PRK07561 232 pVDLLNEAQAEaAVAALEGArySVASVEDKPTTRKPSAPFTTSTLQQEASRKLGFSVKKTMRIAQRLYEAGYITYMRTDS 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 304 PNISKDSMPDIRAVAKAL-GLKCV-EQQRMFKA-DQDAQEGHPAITPTDwTAATAGE----TADEQALYQLIRVRALASQ 376
Cdd:PRK07561 312 TNLSQEAINAARGYIGDNyGKKYLpEKPRQYSSkAKNAQEAHEAIRPSD-VFRTPDQlkglEGDAQRLYELIWKRFVASQ 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 377 IEAAVYAVRTITLLGvgpdkKPLRFGAKGKLLNVPGWRKLLQ--GDDAEEQKNETpsnpipIPALEPRQILKVYSGEVLE 454
Cdd:PRK07561 391 MAPARYDSTTVTIAA-----GDAELRATGRVLRFDGFLKVYVegRDDALDDEDRR------LPALKVGDALTLEKLDPTQ 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 455 KKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFSFL-SLDFTRNLEV 533
Cdd:PRK07561 460 HFTKPPARYSEASLVKELEKLGIGRPSTYASIISTIQDRGYVRLENRRFYPEKMGRIVTDRLEEFFPRLvDYDFTARMEE 539
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 534 ALDRIANSEDTYMNVVQQFYQLLQTelqtlrALPSAQDEPRASSTASISSAPTsDFLCGKCGLPLVhrKKAGKGGfDFWG 613
Cdd:PRK07561 540 ELDDIANGEADWKPVLDDFYKDFSQ------QLEKAEELREEGGMRPNQMVIT-DRDCPTCGRGMG--IRTGKTG-VFLG 609
|
....
gi 490477597 614 CSGY 617
Cdd:PRK07561 610 CSGY 613
|
|
| topA_bact |
TIGR01051 |
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ... |
3-629 |
1.08e-149 |
|
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of bacteria. DNA topoisomerase I transiently cleaves one DNA strand and thus relaxes negatively supercoiled DNA during replication, transcription and recombination events. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273416 [Multi-domain] Cd Length: 610 Bit Score: 446.44 E-value: 1.08e-149
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 3 LVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLPvhgqdPQMLTVGVGQDFKPHYQILSGKEKTVARLKELRQKA 82
Cdd:TIGR01051 1 LVIVESPAKAKTIKKYLGD-----EYEVEASMGHIRDLP-----KSRLGVDIEKDFEPEYVVSKGKKKVVKELKTLAKKA 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 83 VEIYVASDPDREGESIGWHILQAAGIKN--YKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPEL 160
Cdd:TIGR01051 71 DEVYLATDPDREGEAIAWHLAEVLKPKDpvYKRIVFNEITKKAIRAALKNPREIDMNLVNAQQARRILDRLVGYTLSPLL 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 161 RRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFvsPSDGRTWKAEwdpVPTFASEEFPYVQDRQLAElVG 240
Cdd:TIGR01051 151 WKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEEYWTIDATF--QKGEETFEAL---LTEVNGKKLKAGSDLDEAE-AT 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 241 AIRNVI------VETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYE--------QGLITYHRTDNPNI 306
Cdd:TIGR01051 225 ALKEQLkgeelvVEEIEKKPKKSRPPPPFTTSTLQQEASRKLGFSAKKTMMIAQRLYEgvstgdgtIGLITYMRTDSTRL 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 307 SKDSMPDIRA-VAKALGLKCV-EQQRMFKAD-QDAQEGHPAITPTDWT----AATAGETADEQALYQLIRVRALASQIEA 379
Cdd:TIGR01051 305 SNQAVNEARNlIDKNYGKEYLgPKPKRYKSKeKNAQEAHEAIRPTSVFrtpeELKDYLKRDEFRLYELIWKRFVASQMAD 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 380 AVYavRTITLLgVGPDKKPLRFGAKGKLLNVPGWRKLLQgddaEEQKNETPSNPIPIPALEPRQILKVYSGEVLEKKTTP 459
Cdd:TIGR01051 385 ARY--DSTSVR-LTNEDGEYVFKATGRKLIFDGYYKVYV----EGSDDPLEEKDRILPPLKEGDAVKLVEVKPNQHFTQP 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 460 PKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLSLDFTRNLEVALDRI 538
Cdd:TIGR01051 458 PARYTEASLVKELEELGIGRPSTYASIISTIQDRGYVKKENKRLYPTELGFAVTDLLEKHFGdVVDYDFTAKMEKDLDEI 537
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 539 ANSEDTYMNVVQQFYqllqtelqtlraLPSAQDEPRASSTASISSAPTSDFlCGKCGLPLVhrKKAGKGGFdFWGCSGYR 618
Cdd:TIGR01051 538 AEGKAEWKPVLKNFY------------TGFSSKVKKLRNMRIIVDFKTSQD-CPLCGRPMV--VKLGKYGP-FLACSNFP 601
|
650
....*....|.
gi 490477597 619 TtgCKVSYPTK 629
Cdd:TIGR01051 602 E--CKYTKSIV 610
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
1-617 |
5.08e-141 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 426.20 E-value: 5.08e-141
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLPvhgqdPQMLTVGVGQDFKPHYQILSGKEKTVARLKELRQ 80
Cdd:PRK06599 3 KKLVIVESPAKAKTIKKYLGK-----DYKVLASFGHVRDLP-----KKKGGVDPDNDFAPKYEIIEGKEKVVDALKKAAK 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 81 KAVEIYVASDPDREGESIGWHILQAAGI-----KNYKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYL 155
Cdd:PRK06599 73 KADAVYLATDPDREGEAIAWHIAEVLKEaklkdKNVKRVVFNEITKKAVQEAIENPRDIDMDLVDAQQARRALDYLVGFK 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 156 VTPELRRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSPSD----GRTWKAEWDPVptfasEEFPYVQ 231
Cdd:PRK06599 153 LSPLLWKKVRRGLSAGRVQSVALRLICEREDEIEAFIPQEYWTIEADLATSNGepftAKLVEVNGKKL-----EKFSITN 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 232 DRQLAELVGAIRNV--IVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYE--------QGLITYHRT 301
Cdd:PRK06599 228 EEQAKALVKALEGQayTVDKIEKKERKRNPPPPFITSTLQQEASRKLGFSAKKTMRIAQKLYEgidlgegtVGLITYMRT 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 302 DNPNISKDSMPDIRAV-AKALGLK-CVEQQRMFKAD-QDAQEGHPAITPTD--WTAATAGE--TADEQALYQLIRVRALA 374
Cdd:PRK06599 308 DSVRLSNEALDEARKYiTKKYGKEyLPAKPRVYKKKsKNAQEAHEAIRPTSinRTPESLKPylTPDQFKLYELIWKRTVA 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 375 SQIEAAVYAVRTITLlgvGPDKKPLRFGAKGKLLNVPGWRKLL--QGDDAEEQKNETPsnpipiPALEPRQILKVysGEV 452
Cdd:PRK06599 388 SQMAPAILDQTSVDI---ASENGKYVFRATGSVILFPGFLKVYgeSKDDEEEDDEKLL------PPLKEGEKLKL--DEL 456
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 453 LEKK--TTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLSLDFTR 529
Cdd:PRK06599 457 LPEQhfTEPPPRYSEASLVKKLEEYGIGRPSTYASIISTLQDREYVELEKKRFIPTDLGRIVNDFLVEHFPkYVDYDFTA 536
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 530 NLEVALDRIANSEDTYMNVVQQFYQLLQTELQTLRALPSAQDEPRAsstasissapTSDFLCGKC-GLPLVhrKKAGKGG 608
Cdd:PRK06599 537 GLEDELDEIAEGKKDWKPVLREFWEPFISNLEKVEEDVRTEKVTQE----------ETDETCPKCgGGPLV--LKLGKNG 604
|
....*....
gi 490477597 609 fDFWGCSGY 617
Cdd:PRK06599 605 -KFLGCSGY 612
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
137-557 |
2.23e-104 |
|
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA and then rejoin the broken phosphodiester backbone. Proposed catalytic mechanism of single stranded DNA cleavage is by phosphoryl transfer through a tyrosine nucleophile using acid/base catalysis. Tyr is activated by a nearby group (not yet identified) acting as a general base for nucleophilic attack on the 5' phosphate of the scissile bond. Arg and Lys stabilize the pentavalent transition state. Glu then acts as a proton donor for the leaving 3'-oxygen, upon cleavage of the scissile strand.
Pssm-ID: 238110 [Multi-domain] Cd Length: 381 Bit Score: 321.48 E-value: 2.23e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 137 PKVASQECRRVIDRLVGYLVTPELRRVMGRPTT--AGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVspsdgrtwka 214
Cdd:cd00186 2 NLVNAQLARRILDRLVGFNLSRLLTKKLRRKGVlsAGRVQSPTLGLIVEREREIKAFVPEDYWEIKEAVV---------- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 215 ewdpvptfaseefpyvqdrqlaelvgairnVIVETcidGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQG 294
Cdd:cd00186 72 ------------------------------VSVEK---KEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAG 118
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 295 LITYHRTDNPNISKDSMPDIRAVAKA------LGLKCVEQQRMFKADQDAQEGHPAITPTD---WTAATAGETADEQALY 365
Cdd:cd00186 119 LITYPRTDSTRLSEEAILEAREYIQAiygkeyLYPAPLLGRRNPKRGKKEQGAHEAIRPTKvapTPELEANLSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 366 QLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGAKGKLLNVPGWRKLLQgddaEEQKNEtpsnPIPIPALEPRQIL 445
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTL-----EIGGEKFKASGKVLLEDGWLEVYP----EEKDDE----EEEPPPLKEGDEL 265
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 446 KVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLS 524
Cdd:cd00186 266 KLEEVELEEKETQPPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAVIELLEKHFPeLVD 345
|
410 420 430
....*....|....*....|....*....|...
gi 490477597 525 LDFTRNLEVALDRIANSEDTYMNVVQQFYQLLQ 557
Cdd:cd00186 346 PEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFK 378
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
133-550 |
1.93e-103 |
|
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes preferentially relax negatively supercoiled DNA, from a 5' phospho- tyrosine linkage in the enzyme-DNA covalent intermediate and has high affinity for single stranded DNA.
Pssm-ID: 426069 [Multi-domain] Cd Length: 410 Bit Score: 320.34 E-value: 1.93e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 133 RLDLPKVASQECRRVIDRLVGYLVTPEL-RRVMGRPT-TAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSpSDGR 210
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLtLKLKGNKLlSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKD-GGGV 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 211 TWKAEWDPVPTFaseefpyvqDRQLAE-LVGAIRN--VIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIA 287
Cdd:pfam01131 80 FANAKWKRGRIF---------DKEEAEaILEKLKKgtAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 288 QRLYEQ-GLITYHRTDNPNISKDS-MPDIR-AVAKALGLKCVEQQRMFKAD------QDAQEG-HPAITPTDWTAATAGE 357
Cdd:pfam01131 151 QKLYEKhGLITYPRTDSTYLSDDAtLKAILeYLTKNYGKYLPYAPRLLKKTkgkltvGNAKVTaHEAIRPTGDIPVLPEL 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 358 TADEQALYQLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGAKGKLLNVPGWRKLLQGDDAEEQKnetpsnpiPIP 437
Cdd:pfam01131 231 SDDERKLYELIVRRFLASQMPPAVYETTTVVL-----EVGGEEFRASGKVILEDGWLKVYPYEKKEDEE--------ELP 297
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 438 ALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLE 517
Cdd:pfam01131 298 ELKEGEELKVTQVEVEEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYVERKKKSLVPTELGKALVEALE 377
|
410 420 430
....*....|....*....|....*....|...
gi 490477597 518 HNFSFLSLDFTRNLEVALDRIANSEDTYMNVVQ 550
Cdd:pfam01131 378 KFPDLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
3-625 |
4.12e-101 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 327.55 E-value: 4.12e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 3 LVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLPVHGqdpqmLTVGVGQDFKPHYQILSGKEKTVARLKELRQKA 82
Cdd:PRK06319 5 LIIVESPAKIKTLQKLLGE-----GFIFASSLGHIVDLPAKE-----FGIDIENDFEPDYQILPDKEEVINKICKLAKKC 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 83 VEIYVASDPDREGESIGWHIL-QAAGIKNYKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPELR 161
Cdd:PRK06319 75 DVVYLSPDPDREGEAIAWHIAnQLPKNTKIQRISFNAITKGAVTEALKHPREIDMALVNAQQARRLLDRIVGYKISPILS 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 162 RVMGRPT--TAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSPSDGRTWKA----------EWDPVPTFASEEFPY 229
Cdd:PRK06319 155 RKLQRRSgvSAGRVQSVALKLVVDREKAIEAFVPVEYWNIRVHLKDPKTQKTFWAhlysvdgkkwEKEIPEGKTEDEVLL 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 230 VQDRQLAELVGAI---RNVIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYE---------QGLIT 297
Cdd:PRK06319 235 INSKEKADHIVELlesATYTVTRVESKEKRRNAYPPFITSTLQQEASRHFRFSSSRTMNIAQTLYEgvdldsegaTGLIT 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 298 YHRTDNPNISKDSMPDIRA-VAKALGLKCV-EQQRMFKADQDAQEGHPAITPTDWTAA---TAGETADEQ-ALYQLIRVR 371
Cdd:PRK06319 315 YMRTDSVRTDPEALKQVRKyIEGTFGKEFLpSSPNVYTTKKMAQDAHEAIRPTDITLTpekLRSKLTEDQyKLYSLIWKR 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 372 ALASQIEAAVYAVRTITLL-GVGPDkkpLRfgAKGKLLNVPGWRKLL---QGDDAEEQKNetpsnpIPIPALEPRQILKV 447
Cdd:PRK06319 395 FVASQMIPAIYDTLAIRITtNKGID---LR--ATGSLLKFKGFLAVYeekRDDEGDEEEN------IHLPKLHEQDVLTK 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 448 YSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNF-SFLSLD 526
Cdd:PRK06319 464 EELSAEQAFTKPLPRFTEASLVKELEKSGIGRPSTYATIMNKIQSREYTLKENQRLRPTELGKIISQFLETNFpRIMDIG 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 527 FTRNLEVALDRIANSEDTYMNVVQQFYQllqtelQTLRALPSAQDE---PRAsstasissapTSDFLCGKCglplvHRKK 603
Cdd:PRK06319 544 FTALMEDELELIADNKKPWKLLLQEFWE------LFLPVVVTAEKEafiPRI----------VTEIDCPKC-----HKGK 602
|
650 660
....*....|....*....|....*
gi 490477597 604 AGKGGFD---FWGCSGYRTTGCKVS 625
Cdd:PRK06319 603 LVKIWAKnryFYGCSEYPECDYKTS 627
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
2-554 |
6.24e-87 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 287.81 E-value: 6.24e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 2 HLVIIEAPGKLKKLRSLLPsirPDvtWQVEATAGHIRDL-PVHGQ-DPQmltvgvgQDFKPHYQILSGKEKTVARLKELR 79
Cdd:PRK08780 4 HLVIVESPAKAKTINKYLG---KD--FTVLASYGHVRDLvPKEGAvDPE-------NGFAMRYDLIDKNEKHVEAIAKAA 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 80 QKAVEIYVASDPDREGESIGWH---ILQAAGI---KNYKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVG 153
Cdd:PRK08780 72 KSADDLYLATDPDREGEAISWHlaeILKERGLlkdKPMQRVVFTEITPRAIKEAMAKPRDIASDLVDAQQARRALDYLVG 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 154 YLVTPELRRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSPS----------DGRTWKAEwdpvpTFA 223
Cdd:PRK08780 152 FNLSPLLWRKIQRGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAHPSqpfnakliklDGQKFEQF-----TIT 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 224 SEEFPYVQDRQLAELV-GAIRNVIVETcidGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQ--------- 293
Cdd:PRK08780 227 DGDTAEAARLRIQQAAqGTLHVTDVES---KERKRNPAPPFTTSTLQQEASRKLGFTTRRTMQVAQKLYEGvdlgdegsv 303
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 294 GLITYHRTDNPNISKDSMPDIRAV-AKALGLKCV-EQQRMFKA-DQDAQEGHPAITPTD---WTAATAGETADEQA-LYQ 366
Cdd:PRK08780 304 GLITYMRTDSVNLSQDALAEIRDViARDYGTASLpDQPNTYKTkSKNAQEAHEAVRPTSalrTPAQVARFLSDDQRrLYE 383
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 367 LIRVRALASQIEAAVYAVRTITlLGVGPDKKplrFGAKGKLLNVPGWRKLLQgDDAEEQKNETPSNPIPIPALEPRQILK 446
Cdd:PRK08780 384 LIWKRAVACQMIPATLNTVSVD-LAAGSEHV---FRATGSTVVVPGFLAVYE-EGKDDKSAEDEDEGRKLPPMKEGDNVP 458
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 447 VYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFS-FLSL 525
Cdd:PRK08780 459 LERIRAEQHFTEPPPRYTEASLVKALEEYGIGRPSTYASIISTLQFRKYVEMEGRRFRPTDVGRAVNKFLTGHFTrYVDY 538
|
570 580
....*....|....*....|....*....
gi 490477597 526 DFTRNLEVALDRIANSEDTYMNVVQQFYQ 554
Cdd:PRK08780 539 DFTARLEDDLDAVSRGEKEWIPLMEKFWG 567
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
254-511 |
1.30e-73 |
|
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase alpha subunit
Pssm-ID: 214663 [Multi-domain] Cd Length: 259 Bit Score: 237.14 E-value: 1.30e-73
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 254 EETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDNPNISKDSMPDIRA-VAKALGLKCVEQQRMF 332
Cdd:smart00437 4 EKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNyIQKLYGKEYLDLAVVL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 333 KADQ------DAQEGHPAITPTDWTAATAGE---TADEQALYQLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGA 403
Cdd:smart00437 84 LKPRkprkgkKAQGAHEAIRPTKPIFTPELEkelSEDEFKLYELIWRRFLASQMPDAKYEETKVTI-----KIGGEKFKA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 404 KGKLLNVPGWRKLLQgddaEEQKNETpsnpIPIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSY 483
Cdd:smart00437 159 KGKTLLFDGWLKVYP----EEKKEEE----IELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTY 230
|
250 260
....*....|....*....|....*...
gi 490477597 484 ASIVKNIIDKGQVQMKGRSLIPGELGEA 511
Cdd:smart00437 231 ASIIETLLDRGYVTKKKKKLIPTELGIA 258
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
68-637 |
2.65e-68 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 237.98 E-value: 2.65e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 68 KEKTVARLKELRQKAVEIYVASDPDREGESIG---WHILQAAGIKNYKRVAFKEITKSCISAELSSPRRLDLPKVASQEC 144
Cdd:PRK07219 84 KQNYINALKKLAKDADEIIIATDYDREGELIGkeaYHILREVCQVPVKRARFSSLTKKEIRKAFENPDEIDFNLADAGEA 163
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 145 RRVIDRLVGYLVTPELR---RVMGRPTT--AGRVQSVAVYLVVLREREIRAFTAIKH------FGVELAFVSPSDGRTWK 213
Cdd:PRK07219 164 RQIIDLYWGAALTRFLSlsvRQLGRWDFlsVGRVQTPTLAFIVDREREIRAFDPEDYwkiealLDKEAQYFYRDLIGGHE 243
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 214 AE--WDPvpTFASEEFPYVQDRQLAELVgairNVIVEtcidgEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLY 291
Cdd:PRK07219 244 AEkfWDE--EEAEEIYEKLKGAKEATVS----SVKKR-----ERTISPPAPFNTTEFLREASKIFGISPKRAMEIAEKLY 312
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 292 EQGLITYHRTDNPNISKDSmpDIRAVAKALglkcvEQQRMFK----------------ADQDAQEgHPAITPTDwtAATA 355
Cdd:PRK07219 313 TAGYISYPRTDNTVYPDDL--DPKELLKKL-----SKKKEYGpyaesileqenikpteGKKETTD-HPPIHPVD--VPKR 382
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 356 GE-TADEQALYQLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGAKGKLLNVPGWRKLLQGDDAEEQKnetpsnpi 434
Cdd:PRK07219 383 EElSDDEWKVYELIVRRFLATLADPAEWEYLKVEL-----DVNGEIFKASGSRLVEEGWHEVYPYEKFDEKE-------- 449
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 435 pIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVqMKGRSLIPGELGEATI- 513
Cdd:PRK07219 450 -LPDLEEGEKLKVNKIEIEAKETQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGYV-IEGDPPRPTDLGIAVIe 527
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 514 ALLEHNFSFLSLDFTRNLEVALDRIANSEDTYMNVVQQFYQLLQTELQTLRAlpSAQDEPRASSTASISSAPTSDFL--C 591
Cdd:PRK07219 528 ALEKYAPEIVSEEMTAQLEADMQAIEDGKKKKEDVTEESREMLKEILSELKE--KRKEIGDHLAGSLKAENRSLKTIgkC 605
|
570 580 590 600
....*....|....*....|....*....|....*....|....*..
gi 490477597 592 GKCGLPLVHRKKagKGGFDFWGCSGYrtTGCKVSYPTKS-GRPDFDN 637
Cdd:PRK07219 606 PECGGDLIIIRT--DKGSRFVGCSGY--PDCRNTFPLPStGRIKVLD 648
|
|
| rgy |
TIGR01054 |
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial ... |
3-553 |
4.42e-68 |
|
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial thermophiles. This enzyme, a fusion of a type I topoisomerase domain and a helicase domain, introduces positive supercoiling to increase the melting temperature of DNA double strands. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273418 [Multi-domain] Cd Length: 1171 Bit Score: 241.27 E-value: 4.42e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 3 LVIIEAPGKLKKLRSLL--PSIR------------PDVTWQVEATAGHIRDLPV----HGQD-------PQMLTVGVGQD 57
Cdd:TIGR01054 604 LLVVESPNKARTIARFFgkPSVRkiggsvvyevpvGDLILMITASGGHVFDLVTdkgfHGVLvengryvPVYTSIKRCRD 683
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 58 fkPHYQILS--------------GKEKTVARLKELRQKAVEIYVASDPDREGESIGWHILQAAG--IKNYKRVAFKEITK 121
Cdd:TIGR01054 684 --CGYQFTEdrescpkcgsenieDSKSIIEILRELAHEVDEVFIGTDPDTEGEKIGWDLALLLSpyNPNVKRAEFHEVTR 761
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 122 SCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPELRRVMGRP-TTAGRVQSVAVYLVVLREREIRaftaIKHfGVE 200
Cdd:TIGR01054 762 RAILEALESPRSVDENLVKAQVVRRIEDRWIGFTLSQKLWEAFNKRwLSAGRVQTPVLGWIIDRYRESR----EKR-GYL 836
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 201 LAFVSPSDGRTwKAEWDPVpTFASEEFpyvQDRQLAElvgairnviVETCIDGEETDTPPPPFISSSLQMAAGNALKWSP 280
Cdd:TIGR01054 837 LIFALESDFRL-GLEHDNR-LEAKEFE---KDLTWLD---------VEDIAEREEERNPLPPYTTDTMLEDANRKLGLSV 902
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 281 DKTMKIAQRLYEQGLITYHRTDNPNISKDSMpdirAVAKALgLKCVEQQRMFKADQDAQEG-HPAITPT----------- 348
Cdd:TIGR01054 903 KETMQIAQELFENGLITYHRTDSTRVSDVGM----RVAKEY-LASRLGGEYFYPREWGEGGaHECIRPTrpldvddlqrl 977
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 349 --DWTAATAGETADEQALYQLIRVRALASQIEAAVYAVRTITLLGVGPDKKpLRFGAKGKllnVPGWRKLlqgdDAEEQK 426
Cdd:TIGR01054 978 ilEGVIELEGLTREHLRLYDLIFRRFMASQMRPAKVDTKEITLKADGKEAE-EEGIVEIV---ERGFELV----YPLWRK 1049
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 427 NETP-SNPIPIPALEPRQILKVYSgevlekkttppkrFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIP 505
Cdd:TIGR01054 1050 NELEkGSTFIVKDKELRSVPKVYP-------------YTQGEIVQEMKERGIGRPSTYATIVEKLLRRGYVVESKGFLIP 1116
|
570 580 590 600
....*....|....*....|....*....|....*....|....*....
gi 490477597 506 GELGEATIALLEHNF-SFLSLDFTRNLEVALDRIANSEDTYMNVVQQFY 553
Cdd:TIGR01054 1117 TKLGIEVYNYLTNRYpKLVSEDRTRELEEAMDKIERGELDYLEVLESVY 1165
|
|
| TopG2 |
COG1110 |
Reverse gyrase [Replication, recombination and repair]; |
68-553 |
5.19e-62 |
|
Reverse gyrase [Replication, recombination and repair];
Pssm-ID: 440727 [Multi-domain] Cd Length: 1219 Bit Score: 223.70 E-value: 5.19e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 68 KEKTVARLKELRQKAVEIYVASDPDREGESIGWHI--LQAAGIKNYKRVAFKEITKSCISAELSSPRRLDLPKVASQECR 145
Cdd:COG1110 737 SLEIVEALRELATEVDEVLIGTDPDTEGEKIGWDVynLLRPYAKNIKRIEFHEVTRKAILEALKNPREIDENLVEAQIVR 816
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 146 RVIDRLVGYLVTPELRRVMGRPT-TAGRVQSVAVYLVVLR----EREIRAFTAIKHFGVELafvspsdgrtwkaewdpvp 220
Cdd:COG1110 817 RIEDRWIGFTLSQKLWKVFGNRNlSAGRVQTPVLGWIIERyeesRKSKKYLIILTLENGRL------------------- 877
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 221 tfaseEFPYVQDRQLAELVGAIR---NVIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQGLIT 297
Cdd:COG1110 878 -----ELSIEDLKEAEEVRKALEkevKVKVKKVEEEEEELNPLPPYTTDTLLRDASRRLGLSAEETMRLAQDLFESGLIT 952
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 298 YHRTDNPNISKDSMpdirAVAKA-LGLKCVEQqrMFKADQDAQEG-HPAITPT-------------DWTAATAGE-TADE 361
Cdd:COG1110 953 YHRTDSTRVSDAGI----AVAKEyISERFGEE--YFKPRRWGEGGaHEAIRPTrpldaedlrrlieEGVIELPIPlTRRH 1026
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 362 QALYQLIRVRALASQIEAAV--YAVRTITLLGVGPDKKplrfgaKGKLLNV--PGWRKLLqgddaeeqknetpSNPIPIP 437
Cdd:COG1110 1027 LRLYDLIFRRFMASQMRPAKveKVKLRVSLELPGGEIE------EERIVEIieDGFLLIY-------------PPIKVEP 1087
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 438 ALEPRQIlKVYSGEVLEKKTTPPkrFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQV--QMKGRSLIPGELGEATIAL 515
Cdd:COG1110 1088 ELKEGEY-KVTEVKIRKVPKVPL--YTQGDLVREMKERGIGRPSTYAKIVETLLRRGYVveSKKGKKLVPTKLGIEVYNY 1164
|
490 500 510
....*....|....*....|....*....|....*....
gi 490477597 516 LEHNFSFL-SLDFTRNLEVALDRIANSEDTYMNVVQQFY 553
Cdd:COG1110 1165 LSENFPDLvSEERTRELEEKMDEIEEGEADYQDVLEELY 1203
|
|
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
75-633 |
4.33e-61 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 215.41 E-value: 4.33e-61
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 75 LKELRQKAVEIYVASDPDREGESIGWHILQAAGI-KNYKRVAFKEITKSCISAELSSPR--RLDLPKVASQECRRVIDRL 151
Cdd:PRK07726 86 VKKLLKQATEIVIATDADREGELIAREILDYCGVrKPIKRLWISSLTDKAIKRAFANLKpgKETIPLYYSALARSRADWL 165
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 152 VGYLVTpelrR---VMGRPT------TAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVspsDGRTWKAEWDPVPTF 222
Cdd:PRK07726 166 VGINMT----RaytLLGRKAgyngvlSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHLT---PGERFTAKWQPSEPY 238
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 223 ASEEFpYVQDRQLAE-LVGAIRN--VIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQ-GLITY 298
Cdd:PRK07726 239 QDEEG-RLLDRPLAEqVVARIQGqpAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYEThKLITY 317
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 299 HRTDNPNISKDSMPDIRAVAKALGLKCVE----------QQRMfKADQDAQ-EGHPAITPTDWTAATAGETADEQALYQL 367
Cdd:PRK07726 318 PRTDSRYLPEDMVATLPEVLNAISKVDPYlllappvldpSIRS-RAWNDKKvTAHHAIIPTEQPPNLSKLSEDERKVYDL 396
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 368 IRVRALASQIEAAVYAVRTITLLgVGPDKkplrFGAKGKLLNVPGWRKLLQGDDAEEQknetpsNPIPIPALEPRQILKV 447
Cdd:PRK07726 397 IARRYLAQFLPPAEYDKTTIELE-IAGGT----FIAKGKQVVEAGWKALLGKKEEDEE------KEQPLPVLAKGDELKV 465
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 448 YSGEVLEKKTTPPKRFTDASLVGEMKR-----------------RGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGE 510
Cdd:PRK07726 466 EKGEVKEGQTQPPKRFTEGTLLSAMENiarfvqdkelkktlketDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGK 545
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 511 ATIALLEHnfSFLSLDFTRNLEVALDRIANSEDTYmnvvQQFYQLLQTELQTLRALPSAQDEPRASSTASISSaptsdfl 590
Cdd:PRK07726 546 QLIDALPE--ELTSPDMTAKWEQALDQISEGQLSY----QDFMQPLKQWLKQLVEQAKQSSEKYKFDNLTGPK------- 612
|
570 580 590 600
....*....|....*....|....*....|....*....|....
gi 490477597 591 CGKCGLPLvhRKKAGKGGfDFWGCSGYR-TTGCKVSYPTKSGRP 633
Cdd:PRK07726 613 CPDCGKPM--LKVKGKNG-KMLVCQDREcGKRKNVSKKTNARCP 653
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
79-617 |
1.20e-56 |
|
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase III from bacteria and its equivalents encoded on plasmids. The gene is designated topB if found in the bacterial chromosome, traE on conjugative plasmid RP4, etc. These enzymes are involved in the control of DNA topology. DNA topoisomerase III belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273419 [Multi-domain] Cd Length: 660 Bit Score: 203.15 E-value: 1.20e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 79 RQKAVEIYVASDPDREGESIGWHIL---QAAGIKNYKRVAFKEITKSCISAELSS--PRRLDLPKVASQECRRVIDRLVG 153
Cdd:TIGR01056 93 ENKVDEVVIATDPDREGELIAREILdylKVTDKVTIKRLWISSLVDSSIRKAFKNlrPKSETEGLYKSGVARARADWLVG 172
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 154 YLVTpELRRVMGRPT------TAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSPsdGRTWKAEWDPvptFASEEF 227
Cdd:TIGR01056 173 INLT-RAFTKLGREAgndgvlSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSATINKD--EQEFTTEWQP---YKDEEE 246
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 228 PYVQDRQLAELVGAIRN--VIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQG-LITYHRTDNP 304
Cdd:TIGR01056 247 RELHEFLAENVVTDLTQkpALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHkLITYPRTDSR 326
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 305 NISKDSMPDIRAVAKALGLKCVEQQRMFKADQDAQEG---------HPAITPTDWTAATAGETADEQALYQLIRVRALAS 375
Cdd:TIGR01056 327 YLPEDEKEMLLEVLDALKVITPALLPIKKRDELTNNRlwndkkiedHHAIIPTGNDFNLSDLSEEERNVYKLIAQNYLMQ 406
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 376 QIEAAVYAVRTITLlgvgpDKKPLRFGAKGKLLNVPGWRKLLQGDDAEEQKNETpsnpiPIPALEPRQILKVYSGEVLEK 455
Cdd:TIGR01056 407 FMPKEEYETTTIEI-----AIGKLMFEAKGKILQDNGWKALLGKQEEDEETEDT-----TLPAFQKGDELDVETLELLEK 476
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 456 KTTPPKRFTDASLVGEM-----------------KRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEH 518
Cdd:TIGR01056 477 QTKPPARYTEGTLLSAMtnpaafvqdkglkktlkETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGKLLCLLLPE 556
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 519 NFSflSLDFTRNLEVALDRIANSE---DTYMN-VVQQFYQLLQTEL---QTLRALPSAqdeprasstasissaPTSdflC 591
Cdd:TIGR01056 557 LLT--KPDLTAQWEQYLNGISAGEkddDDFINtINEMIKQTINEEKknpETIQKVAKE---------------PVS---C 616
|
570 580
....*....|....*....|....*.
gi 490477597 592 GkcGLPLVHRKKAGKggfdFWGCSGY 617
Cdd:TIGR01056 617 G--GIAKCPAKDNGR----LIDCKKF 636
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
1-631 |
4.31e-52 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 191.51 E-value: 4.31e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIE------------APGKLKKLR-SLLPSIRpdVTWQVEATA-----GHIrdlpvhgqdpqmltvgVGQDFKPHY 62
Cdd:PRK07220 1 MHLIITEkniaarriaqilAPKKPKKTRvSGVDVYR--YEDNGDDTVvvglsGHI----------------VNIDFPKEY 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 63 ---QILSGKE-------------KTVARLKELRQKAVEIYVASDPDREGESIG---WHILQAAG--IKnYKRVAFKEITK 121
Cdd:PRK07220 63 nnwQKVDARDlidaeiittptqkKIVTALKKLGKEADRVTIATDYDREGELIGveaLNIIKKVNpdIK-FDRVRYSAITK 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 122 SCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPELRRVMGRPTTA----GRVQSVAVYLVVLREREIRAFTAIKHF 197
Cdd:PRK07220 142 KEIERAFSNPVEVDFNLADAGHSRQVIDLVWGAALTRYISLAAGRLGKMflsvGRVQSPTLALIVDREKEREAFVPTPYW 221
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 198 GVELAF--------VSPSDGRTW-KAEWDPVPTFASEEfpyvqdrqlAELVGairnviVETcidGEETDTPPPPFISSSL 268
Cdd:PRK07220 222 EIYATLenngetfvAQHSTRRFWeKEEADRVFEKLGKT---------AEVTE------VEK---GTKTDKPPTPFNTTEF 283
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 269 QMAAgNALKWSPDKTMKIAQRLYEQGLITYHRTDNpNISKDSMpDIRAV-------------AKALGLKCVEQQRMFKAD 335
Cdd:PRK07220 284 ISAA-NSIGFSAANAMRIAESLYTNGYISYPRTDN-TVYPESL-DLREQieifaegpfgeyaQKLLEKGELVPTRGKKET 360
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 336 QDaqegHPAITPTDwTAATAGETADEQALYQLIRVRALASQIEAAVYAVRTITLlgvgpDKKPLRFGAKGKLLNVPGWRK 415
Cdd:PRK07220 361 TD----HPPIYPAS-LAKKSELKEDEWKVYELVVRRFFATFAGPAEWETMKLRF-----DIGGEEFRANGSRLTEPGWRW 430
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 416 LLQGDDAEEQKnetpsnpipIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQ 495
Cdd:PRK07220 431 YYPYNAPEDRL---------LPELSEGEELKVKKKEMLDKETQPPGRYGQGRLIKLMEDLGLGTKATRHEIISKLYSRAY 501
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 496 VQmkGRSLIPGELGEATIALLE-HNFSFLSLDFTRNLEVALDRIANSEDTYMNVVQQFYQLLQTELQTLralpsaqDEPR 574
Cdd:PRK07220 502 IH--GNPIQPTNTAFAVVDALEkYAPTITKPDMTSRLEEDMDKIAEGKIKEDAVLEESREMLEQVFDEL-------DKNR 572
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 490477597 575 ASSTASISSAPTSDFLCGK---CGLPLVHRKkaGKGGFDFWGCSGYrtTGCKVSYP-TKSG 631
Cdd:PRK07220 573 EKIRESLREGLREDKIIGKcplCGSDLMVRR--SKRGSRFIGCEGY--PECTFSLPlPKSG 629
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
1-131 |
7.74e-52 |
|
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173783 [Multi-domain] Cd Length: 123 Bit Score: 174.67 E-value: 7.74e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIEAPGKLKKLRSLLPSirpdvTWQVEATAGHIRDLPVHGQDPQMLTVGvgqdFKPHYQILSGKEKTVARLKELRQ 80
Cdd:cd03363 1 KKLVIVESPAKAKTIKKYLGK-----EYEVLASVGHIRDLPKKGLGVDGEDDG----FEPKYVVIPGKKKVVKELKKLAK 71
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|..
gi 490477597 81 KAVEIYVASDPDREGESIGWHILQAAGI-KNYKRVAFKEITKSCISAELSSP 131
Cdd:cd03363 72 KADEIYLATDPDREGEAIAWHLAEVLKLkKNVKRVVFNEITKEAIKEALKNP 123
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
57-538 |
6.18e-49 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 181.73 E-value: 6.18e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 57 DFKPHYQILSGKEKT---VARLKELRQKAVEIYVASDPDREGESIGWHILQAAG-IKNYKRVAFKEITKSCISAELSSPR 132
Cdd:PRK05776 69 EWKPLYEIDKGSKYTkkyYELLSSLSKYADEFINACDYDIEGSVIGYLIIKYLGdPKKAKRMKFSALTKSDIRRAFRNLE 148
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 133 RLDLPKVASQECRRVIDRLVGYLVTPEL----RRVMGRPTT--AGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSp 206
Cdd:PRK05776 149 TLDYEMINAGIARHELDWLWGINVSRALmssvRDASGKRVIlsAGRVQSPTLKYVVEREIERNLFVPLPYFSVSIIIEK- 227
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 207 sDGRTWKAEWDPVPtFASEEfpyvQDRQLAELVGAIRNVIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKI 286
Cdd:PRK05776 228 -NGYEFTLKYENKK-FETKE----EAKEILEEIKKTGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGFSPYKTQSI 301
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 287 AQRLYEQGLITYHRTDNPNISKD-----------SMPDIRAVAKALglkCVEQQRMFKADQDAQE--GHPAITPTdwtaa 353
Cdd:PRK05776 302 AEDLYLDGLISYPRTNSQKLPPTlnirnilkglsRSPQYRPLVNLL---LKETKGVLKPVQGPKDdpAHPAIYPT----- 373
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 354 taGE-----TADEQALYQLIRVRALASQIEAAVYAVRTITLLGVGpdkKPLRFGAKGKLLNVPGWRKLLQGDDAEEQKne 428
Cdd:PRK05776 374 --GEppknlSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPG---FPLVFSASGQRIEERGWLKYYPFHKFDEEE-- 446
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 429 tpsnpipIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGEL 508
Cdd:PRK05776 447 -------LPLLKKGERVKIVDVKVRKSYTKPPSRYSKASLLKWMESVGIGTEATRARIIETLFKRGYLTSNGKYIEVTPL 519
|
490 500 510
....*....|....*....|....*....|.
gi 490477597 509 GEATIALLEHNF-SFLSLDFTRNLEVALDRI 538
Cdd:PRK05776 520 GFGVAEVLEKYFpDIVSVELTRDFEEKLEMI 550
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
70-627 |
3.15e-40 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 158.09 E-value: 3.15e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 70 KTVARLKELRQKAVEIYVASDPDREGESIG---WHILQAAGIK-NYKRVAFKEITKSCISAELSSPRRLDLPKVASQECR 145
Cdd:PRK14973 85 KIVGLIQKLAKKADRVTIATDFDTEGELIGkeaYELVRAVNPKvPIDRARFSAITKEEIVTAFAEPTDLDFALAAAGEAR 164
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 146 RVIDRLVGYLVTPEL----RRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAfvspsdgrtwkAEWDPVPT 221
Cdd:PRK14973 165 QIIDLIWGASLTRFIslaaHRGGDNILSVGRVQSPTLAMIVDREKEIEAFVPEKYWMLSLA-----------TEKDGEGI 233
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 222 FASEEFPYVQDRQLAELV--GAIRNVIVETCIDGEETDTPPPPFISSSLQMAAGNaLKWSPDKTMKIAQRLYEQGLITYH 299
Cdd:PRK14973 234 EARHTHGRFTDSAAAEAAydATKEPLVVTEVKEGHKVDRAPTPFDTTTFIVAASR-LGFSAANAMRIAEDLYMNGYISYP 312
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 300 RTDNpNISKDSMpDIRAVAKAL-------GLKCVEQQRMFKADQDAQEG--HPAITPTdwTAATAGETADEQ-ALYQLIR 369
Cdd:PRK14973 313 RTDN-TIYPKSL-DLNGVLATLakgafskDVAWVKDNRRPVPTRGKKSStdHPPIHPT--GVATREELGDDRwKLYELVV 388
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 370 VRALASQIEAAVYAVRTITLLGVGPDkkplrFGAKGKLLNVPGWRKLLQGDDAEEQknetpsnpiPIPALEPRQILKVYS 449
Cdd:PRK14973 389 RRFLATLSPDAEWATMKVNFDAGGEP-----YTATGGRLLEAGWRTVYPYSEAKEN---------ILPAFALGEKLPILA 454
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 450 GEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQmkGRSLIPGELGEATIALLEHNFSFLSL-DFT 528
Cdd:PRK14973 455 VNLEEKETQPPARYSQSRLIQRMEELGLGTKSTRHEVIGKLVSRKYIE--GNPLRPTLVGRAVTESLEEHAGTITEpDMT 532
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 529 RNLEVALDRIANSEDTYMNVVQQFYQLLQTELQTLRALPSA-QDEPRASSTASISSAPtsdflCGKCGLPL-VHRkkagK 606
Cdd:PRK14973 533 QTLEEHMQQIKERKRTRDDVVTESRKMLHRAFDELEANEAViGRDIMERTAEELTIGP-----CPVCGKDLrIKH----I 603
|
570 580
....*....|....*....|.
gi 490477597 607 GGFDFWGCSGYRTTGCKVSYP 627
Cdd:PRK14973 604 GSSQFIGCSGYPDCTFNIGLP 624
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
3-539 |
2.20e-36 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 145.85 E-value: 2.20e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 3 LVIIEAPGKLKKLRSLL--PSIRPDVTWQVE---------------ATAGHIRDLPVHGQDPQMLT----VGVGQDFKP- 60
Cdd:PTZ00407 12 LVIVESPNKVIKVEGLLsdPKVIPDWSFKQShlrrigtgaekavamATTGHFMALKEITWSPQASSpasvVGAGDEPFPs 91
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 61 ---------HYQILSGK--EKTVAR-LKELRQKAVEIYVASDPDREGESIGWHILQAagIKN--------YKRVAFKEIT 120
Cdd:PTZ00407 92 ngtlaeytlEWELLPGRriQETLERyIEEKADNVTEIILATDPDREGELIAVHALQT--IKRlypklkvpFSRAYMHSIT 169
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 121 KSCISAELS--SPRRLDLPKVASQECRRVIDRLVGYLVTPELRRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAiKH-- 196
Cdd:PTZ00407 170 EDGIRKAMRerHVEACDYDLANAAETRHAMDRIFGFLGSSVVRAANSQMRSIGRVQTPALILINEREDKIKAFLE-SNks 248
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 197 -FGVELA--FVSPSdGRTWKAEWDPVPTF---ASEEFPYVQDRQLAE---LVGAIRNVIVETCIDgEETDTPPP-PFISS 266
Cdd:PTZ00407 249 tFEVQAMcqFPSPH-GTTFSQVVTITPDRkggASHWATEAEARRCLEqwkLNNCTGFSVPLEPKP-QPSVVPPPqPFTMA 326
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 267 SLQMAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDNPNISKDSMPDI-RAVAKALG---LKCVEQQRMFKADQD----- 337
Cdd:PTZ00407 327 TAIAKANRQLKYSSEMVSGCLQDLFQLGHITYPRTDSTRIDESALPDIyAAVKKEFGkefLYRLEDRTVSAQEGKgskkt 406
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 338 ------------------AQEGHPAITPT--DWTAATAGETADEQALYQLIRVRALASQIEAAVYAVRTITLLGVGPDKK 397
Cdd:PTZ00407 407 gkkrstkqkkgadtpvgnVEDAHEAIRPTniDTTGESLSLSPPTRAVYDLVRRNTLAVFMIPMKTEKIVATVKFTSGSGE 486
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 398 PLRFGAKGKLLNVPGWRKLLQGDD---------AEEQKNETPSNPIPIPAL---EPRQILKVY---------------SG 450
Cdd:PTZ00407 487 KLEFELQGKRVVEPGWTRAFHKGDkgttgpaeeTDEDITAVEEGAPVVPSLsqeEFKAIMNLRsqlgsgvqkgffelrSP 566
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 451 EVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKG--QVQMKGR-SLIPgeLGEATIALLEHNF-SFLSLD 526
Cdd:PTZ00407 567 QVRENRPVPPLPHSEGTLIEELKNNGVGRPSTYPMIVKTLLARGyiAVNPKGRcETTP--VGRMLVETAKSTFpSIVDIG 644
|
650
....*....|...
gi 490477597 527 FTRNLEVALDRIA 539
Cdd:PTZ00407 645 FTAAFEKKLDRIA 657
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
1-131 |
1.75e-32 |
|
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli topisomerases I and III, eukaryotic topoisomerase III and, ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA. These enzymes cleave one strand of the DNA duplex, covalently link to the 5' phosphoryl end of the DNA break and allow the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173778 [Multi-domain] Cd Length: 142 Bit Score: 121.95 E-value: 1.75e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 1 MHLVIIEAPGKLKKLRSLLPSIRP-------DVTWQVEATAGHIRDLPVHGQDPQMLTVGVGQ--DFKPHYQILSGKEKT 71
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKkkgfygeGGGYVVTASVGHLLELPFPEEYVDWDKDWPLElfPFEPKYVVIPDKKKQ 80
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 490477597 72 VARLKELRQKAVEIYVASDPDREGESIGWHILQAAG--IKNYKRVAFKEITKSCISAELSSP 131
Cdd:cd01028 81 LKALKKLAKKADEIVLATDPDREGELIAWEILEVLKcdNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
60-505 |
1.72e-31 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 130.94 E-value: 1.72e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 60 PHYQiLSGKEKTVARLKEL----RQKAV-EIYVASDPDREGESIGWHILQAAGIKN-YKRVAFKEITKSCIS---AELSS 130
Cdd:PRK08173 71 PHFD-LNPIAKTESRLKVLtkliKRKDVtRLINACDAGREGELIFRLIAQHAKAKKpVKRLWLQSMTPQAIRdgfANLRS 149
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 131 PRRLdLPKVASQECRRVIDRLVGYLVTpelrRVMG---------RPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVEL 201
Cdd:PRK08173 150 DEDM-QPLADAARCRSEADWLVGINGT----RAMTafnskgggfFLTTVGRVQTPTLSIVVEREEKIRRFVPRDYWEVRA 224
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 202 AFVSPSDGrtWKAEW-DPvpTFASEEF-PYVQDRQLAELVGAirNVIVETCID-----GEE----TDTPPPPFISSSLQM 270
Cdd:PRK08173 225 EFVAAAGF--YEGRWfDP--KFKKDEFdPEKRASRLWSEAAA--EAIVAACRGkpgtvTEEskpsTQLSPLLFDLTSLQR 298
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 271 AAGNALKWSPDKTMKIAQRLYEQ-GLITYHRTDNPNISKDSMPDIRAV--------------AKALGLKCVE-QQRMFka 334
Cdd:PRK08173 299 EANGRFGFSAKNTLGLAQALYEKhKVLTYPRTDSRALPEDYLGTVKQTlemlkesnnylphaKQILDKGWVKpNKRIF-- 376
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 335 DQDAQEGHPAITPTdwTAATAGETADEQALYQLIRVRALASQIEAAVYAVRT-ITLLGvgpdkkPLRFGAKGKLLNVPGW 413
Cdd:PRK08173 377 DNSKISDHFAIIPT--LQAPKSLSEPEQKLYDLVVKRFLAVFFPAAEFLVTTrITEVA------GHHFKTEGKVLVNPGW 448
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 414 R----KLLQGDDAeeqknetpsNPIPIPALEPRQILKVysgEVLEKKTTPPKRFTDASLVG----------------EMK 473
Cdd:PRK08173 449 LavygKEAQGADA---------NLVPVQKGEKVKTDKI---EAVALTTKPPARYNEATLLSamegagklveddelreAMA 516
|
490 500 510
....*....|....*....|....*....|..
gi 490477597 474 RRGIGRPSSYASIVKNIIDKGQVQMKGRSLIP 505
Cdd:PRK08173 517 EKGLGTPATRAAIIEGLLGEKYLVREGRELIP 548
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
28-505 |
2.66e-30 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 127.38 E-value: 2.66e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 28 WQVEATAGHIrdlpVHGQDPQMLTVGVGQ-DFK-----PHYQILSGKEKTVARL----KELRQKAV-EIYVASDPDREGE 96
Cdd:PRK14724 39 YVVTSAVGHL----VEIQAPEEFDVKRGKwSFAnlpviPPYFDLKPVDKTKTRLnavvKLAKRKDVtELVNACDAGREGE 114
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 97 SIGWHILQAAG------IKNYKRVAFKEITKSCIS---AELSSPRRLdLPKVASQECRRVIDRLVGYLVTPELRRVMGRP 167
Cdd:PRK14724 115 LIFRLIEQYAGgakgglGKPVKRLWLQSMTPQAIRdgfDNLRSDAQM-QGLASAARSRSEADWLVGINGTRAMTAFNSRD 193
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 168 -----TTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELAFVSPSD---GRTWKAEWDPVPTFASEEFPYV-QDRQLAEL 238
Cdd:PRK14724 194 ggfflTTVGRVQTPTLSLVVEREEKIRKFVSRDYWEIHAGFHAEAGeylGKWFDPQWKKASDDPEARADRVwSEREARAI 273
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 239 VGAIRNvivETCIDGEE----TDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYEQ-GLITYHRTDNPNISKDSMPD 313
Cdd:PRK14724 274 ADAVRG---KAATVTEEskptTQASPLLFDLTSLQREANGKFGFSAKTTLALAQSLYERhKALTYPRTDSRALPEDYLPV 350
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 314 IRAVAKALG------LKCVEQQ-----------RMFkaDQDAQEGHPAITPTdwTAATAGETADEQALYQLIRVRALASQ 376
Cdd:PRK14724 351 AKQTFEMLAtsgmrhLAPFAQQaldgnyvrpskRIF--DNSKVSDHFAIIPT--TQAPSGLSEAEQKLYDLVVRRFMAVF 426
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 377 IEAAVYAVRTITLLGVGPDkkplrFGAKGKLLNVPGWRKLL---QGDDAEEQKNETPSNpiPIPALEPRQILKVYSGEVL 453
Cdd:PRK14724 427 FPSAEYQVTTRISQVVGHS-----FKTEGKVLVKPGWLAIYgkeAANEVEDAKDGDKGQ--PLVPVKPGEMVRTEFAEAK 499
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 490477597 454 EKKTTPPKRFTDASLVG----------------EMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIP 505
Cdd:PRK14724 500 GLKTKPPARYSEATLLGamesagkqidddelreAMQEKGLGTPATRAAIIEGLLTEKYMLREGRELIP 567
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
111-191 |
1.56e-22 |
|
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA topoisomeraes I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase beta subunit
Pssm-ID: 214662 [Multi-domain] Cd Length: 89 Bit Score: 91.88 E-value: 1.56e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 111 YKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPELRRVMGRPT-TAGRVQSVAVYLVVLREREIR 189
Cdd:smart00436 1 IKRIEFSEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRNGVlSAGRVQTPTLGLIVEREREIK 80
|
..
gi 490477597 190 AF 191
Cdd:smart00436 81 NF 82
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
35-627 |
2.33e-22 |
|
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination and repair];
Pssm-ID: 440317 [Multi-domain] Cd Length: 695 Bit Score: 101.87 E-value: 2.33e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 35 GHIRDLPVHGQDPQMLTVGVGQDFKPHYQILSGKEKTVARLKELRQKAVEIYVASDPDREGESIGWHI-----LQAAGIK 109
Cdd:COG0551 36 GALGLKKKLVDLLLKEKLKKLVENEKLIAELDIKDLKKLKKDKKKKAKALAAALAAADDDAIEAAAAAdeeeaLKAAEAL 115
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 110 NYKRVAFKEITKSCISAELSSPRRLDLPKVASQECRRVIDRLVGYLVTPELRRVMGRPTTAGRVQSVAVYLVVLREREIR 189
Cdd:COG0551 116 EAIRKAVVEEVKSRARKRAARAPADVAAAAAAAALARLLLLAAASRALRLLLLLAAGRLRLLSAVAAGLLELEELLKEFE 195
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 190 AFTAIKHFGVELAFVSPSDGRTWKAEWDPVPTFASEEFPYVQDRQLAELVGAIRNVIVETcidGEETDTPPPPFISSSLQ 269
Cdd:COG0551 196 EEEEEEAAEEEEEEEEAKKKKEEDKKKKKKKKKKDKEEETKAIKKKKKAAEAVLAAKKAA---KEAKAKKELPTTTTDAL 272
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 270 MAAGNALKWSPDKTMKIAQRLYEQGLITYHRTDNPNISKDSMPDIRAVAKALGLKCVEQ-----------QRMFKADQDA 338
Cdd:COG0551 273 PEALATTSLTAAAAASALAAALLEEEGELLYTGGYIRYTRTPKSSEADALAALEALKKIaeeppderakkKKKKAKKKKA 352
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 339 QEGHPAITPTDWTAATAGETADEQALYQLIRVRALASQIEAAVYAVRTITLLGVGPDKKPLRFGAKGKLLNVPGWRKLLQ 418
Cdd:COG0551 353 SEAKETTDHPPIPPTTAAALLELLEDRKLLLELLVRRRFAAAADLAKVEELTKVEEADEEELVEAEGGLLEVLGEEEEDD 432
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 419 GDDAEEqknetpsnpIPIPALEPRQILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDK-GQVQ 497
Cdd:COG0551 433 EDEEEE---------LLLPPLEEGEPLLLEELLLEKQTTTPPPRYTTELLLKKLEEEGGGGRGTTATIIILILKRrYVVL 503
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 498 MKGRSLIPGELGEATIALLEHNFSFLSLDFTRNLEVALDRIANSEDTYMNVVQQFYqlLQTELQTLRALPSAQDEPRASS 577
Cdd:COG0551 504 EEKKTTPTELLVEVVLLLLLPFPKLEDTTETAEEEEALLDKEEGKEDKVVEIREEE--YPFFKKLLEIAEEEGEEELSEE 581
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|
gi 490477597 578 TASissaptSDFLCGKCGLPLVHRKkaGKGGFdFWGCSGYRTtgCKVSYP 627
Cdd:COG0551 582 DEV------LGEKCPKCGKPLVIKK--GRYGK-FLGCSNYPE--CKYTKP 620
|
|
| COG1754 |
COG1754 |
Uncharacterized C-terminal domain of topoisomerase IA [Function unknown]; |
57-556 |
1.22e-19 |
|
Uncharacterized C-terminal domain of topoisomerase IA [Function unknown];
Pssm-ID: 441360 [Multi-domain] Cd Length: 892 Bit Score: 93.73 E-value: 1.22e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 57 DFKPHYQILSGKEKTVARLKELRQKAVEIYVASDPDREGESIGWHILQAAGIKNYKRVAFKEITKSCISAELSSPRRLDL 136
Cdd:COG1754 65 KKKKLLKAAAKKKKALALALAADDEDEELLAADDELEEEKVIKLLLLELAVERVARAAAVRAAAAEAARLAALLRRRLVL 144
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 137 PKVASQECRRVIDRLVGYLVTPEL-RRVMGRPTTAGRVQSVAVYLVVLREREIRAFTAIKHFGVELA---FVSPSDGRTW 212
Cdd:COG1754 145 RRLVRRLLVRLLLLRLVLLLLRLLvARRAARRRRRRRRRRARRRELERRRERARAAEAEEAAAAAAAaadAGRAAAARDG 224
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 213 KAEWDPVPTFASEEFPYVQDRQLAELVGAIRNVIVETCIDGEETDTPPPPFISSSLQMAAGNALKWSPDKTMKIAQRLYE 292
Cdd:COG1754 225 KGGGKLAAGGAAAAAAAAAAAAAAAAALAEAAAAAAVREPPTPTTTTTAQAATTTTTRAAAARTTRSAQQAARRTRLGGE 304
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 293 QGLITYHRTDNPNISKDSMPDIRAVAKALGL----KCVEQQRMFKADQDAQEGHPAITPTDWTAATA-----GETADEQA 363
Cdd:COG1754 305 GTYTTTTTTTTTTSAAAAAAAAAAAALAAAAaaayAPPPPYYYKKKAAAAAAAAAAAAAAAARRPPAaraalLSDDRLLL 384
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 364 LYQLIRVRALASQIEAAVYAVRTITLLGVGPDKKPLRFGAKGKLLnVPGWRKLLQGDDAEEQKNETPSnpipiPALEPRQ 443
Cdd:COG1754 385 ELLLLRRTAAAAAAAAAATATTTAAAAAAGAGAVGTAAAGAVFFF-GGFLLFAEEEDDDEEDDDDDDL-----PALEEGL 458
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 444 ILKVYSGEVLEKKTTPPKRFTDASLVGEMKRRGIGRPSSYASIVKNIIDKGQVQMKGRSLIPGELGEATIALLEHNFSFL 523
Cdd:COG1754 459 PLLKEGVLADQHFTQPPPRYTEAPLVKRMEELGIGRPSTYASILSTLADRIYVRLDKRRLIPEDKGRLVTAFLFSFFRRY 538
|
490 500 510
....*....|....*....|....*....|....
gi 490477597 524 SL-DFTRNLEVALDRIANSEDTYMNVVQQFYQLL 556
Cdd:COG1754 539 VEyDFTADLEEFLDDVSDGELDWKAVLRRFWRDF 572
|
|
| TOPRIM_TopoIA_RevGyr |
cd03361 |
TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA ... |
3-131 |
1.24e-12 |
|
TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173781 [Multi-domain] Cd Length: 170 Bit Score: 66.18 E-value: 1.24e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 3 LVIIEAPGKLKKLRSLL--PSIR------------PDVTWQVEATAGHIRDLPVHGQdpqmlTVGVGQD---FKP----- 60
Cdd:cd03361 3 LMIVESPNKARTIANFFgrPSVRrlgglvvyevstGDGVLMITASGGHVYDLVTKEG-----GHGVVEDdgrYVPvydsi 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 61 ------HYQILSGKEK--------------TVARLKELRQKAVEIYVASDPDREGESIGWHILQAAG--IKNYKRVAFKE 118
Cdd:cd03361 78 krcrdcGYQFTEDSDKcprcgseniddkleTLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRpyNKNIKRAEFHE 157
|
170
....*....|...
gi 490477597 119 ITKSCISAELSSP 131
Cdd:cd03361 158 VTRRAILEALRNP 170
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
26-131 |
2.43e-11 |
|
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173782 [Multi-domain] Cd Length: 151 Bit Score: 62.25 E-value: 2.43e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 26 VTWqveaTAGHIRDL-PVHGQDPQMLTVGVGQDFKP---HYQILSGKEKTVARLKELRQKAVEIYVASDPDREGESIGWH 101
Cdd:cd03362 43 VTW----ASGHLLELdFPEEYDPWDKVWPLEDPLFPapfKLKVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGRE 118
|
90 100 110
....*....|....*....|....*....|...
gi 490477597 102 ILQAAGI---KNYKRVAFKEITKSCISAELSSP 131
Cdd:cd03362 119 ILEYAKCvkrKPVKRAWFSSLTPKAIRRAFKNL 151
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
3-119 |
9.06e-11 |
|
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: 58.52 E-value: 9.06e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 490477597 3 LVIIEAPGKLKKLRSLLPSirpdVTWQVEATAGHIRDLPVHGqdpqmltvgvgqdfkphyqilsgKEKTVARLKELRQKA 82
Cdd:pfam01751 2 LIIVEGPSDAIALEKALGG----GFQAVVAVLGHLLSLEKGP-----------------------KKKALKALKELALKA 54
|
90 100 110
....*....|....*....|....*....|....*....
gi 490477597 83 VEIYVASDPDREGESIGWHILQAAGI--KNYKRVAFKEI 119
Cdd:pfam01751 55 KEVILATDPDREGEAIALKLLELKELleNAGGRVEFSEL 93
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
65-110 |
2.77e-07 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 48.03 E-value: 2.77e-07
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 490477597 65 LSGKEKTVARLKELRQKAvEIYVASDPDREGESIGWHILQAAGIKN 110
Cdd:smart00493 31 HLLSKEQIKLLKKLAKKA-EVILATDPDREGEAIAWELAELLKPAG 75
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
69-116 |
9.04e-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: 44.34 E-value: 9.04e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 490477597 69 EKTVARLKELRQKAVEIYVASDPDREGESIGWHILQAAGI--KNYKRVAF 116
Cdd:cd00188 34 NKTRELLKRLLGEAKEVIIATDADREGEAIALRLLELLKSlgKKVRRLLL 83
|
|
| |
