|
Name |
Accession |
Description |
Interval |
E-value |
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
202-617 |
4.67e-160 |
|
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: 474.79 E-value: 4.67e-160
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 202 DAVDVRQELDLRIGAAFTRFQTLRLQRifpevlaEQLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKvthdhkdgtv 281
Cdd:cd00186 5 NAQLARRILDRLVGFNLSRLLTKKLRR-------KGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK---------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 282 efnwkryrlfnhtaclvlyqlcmedpMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAEKLYTQGYIS 361
Cdd:cd00186 68 --------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGLIT 121
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 362 YPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERggPTPRNGSKSDQAHPPIHPTKYT------SGLQGDDRRLYE 435
Cdd:cd00186 122 YPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGR--RNPKRGKKEQGAHEAIRPTKVAptpeleANLSEDEFKLYE 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 436 FIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKL-LPVYEQGSHFQPSTVEMVDGETSP 514
Cdd:cd00186 200 LIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPEEKDDEEEePPPLKEGDELKLEEVELEEKETQP 279
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 515 PQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSdKRFLPGHLGMGLVEGYDSMGYEMSKPDLRAELEADLKL 594
Cdd:cd00186 280 PPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVEKEK-KKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLDE 358
|
410 420
....*....|....*....|...
gi 74186931 595 ICEGKKDKFQVLRQQVQKYKQVF 617
Cdd:cd00186 359 IAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
36-749 |
4.81e-155 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 477.57 E-value: 4.81e-155
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 36 VLCVAEKNDAAKGIADLLSNGRMRRK--EGLSkfnkIYEFDyhlyGQNVTMIMTSVSGHLLAHDFQMQFRKWQSCNPLVL 113
Cdd:PRK07219 2 ELIIAEKNNAARRIADILSGGKAKKKrvNGVP----YYEFE----RKGEKWIVIGLSGHIVTVDFPEEYGDWRDVDPAEL 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 114 FEAEIEKYCP-ENFIDIKKTLEREThhcQALVIWTDCDREGENIGFEIIHVCKAVKpNLRVLRARFSEITPHAVRTACEN 192
Cdd:PRK07219 74 IDADPVKKITkQNYINALKKLAKDA---DEIIIATDYDREGELIGKEAYHILREVC-QVPVKRARFSSLTKKEIRKAFEN 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 193 LTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevLAEQ-LISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIK 271
Cdd:PRK07219 150 PDEIDFNLADAGEARQIIDLYWGAALTRFLSLSVRQ-----LGRWdFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIE 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 272 VTHD----HKDGTVEFNWKRYRLFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKET 347
Cdd:PRK07219 225 ALLDkeaqYFYRDLIGGHEAEKFWDEEEAEEIYEKLKGAKEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRA 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 348 MRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERGGPTPRNGSKSDQAHPPIHPTKYTSG-- 425
Cdd:PRK07219 305 MEIAEKLYTAGYISYPRTDNTVYPDDLDPKELLKKLSKKKEYGPYAESILEQENIKPTEGKKETTDHPPIHPVDVPKRee 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 426 LQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGSHFQPSTV 505
Cdd:PRK07219 385 LSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDLEEGEKLKVNKI 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 506 EMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVglTSDKRFLPGHLGMGLVEGYDSMGYEMSKPDLR 585
Cdd:PRK07219 465 EIEAKETQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGYV--IEGDPPRPTDLGIAVIEALEKYAPEIVSEEMT 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 586 AELEADLKLICEGKKDKFQVLRQQVQKYKQVFIEAVAKAKKLDEALSQYLgeRTEMAQQEEIypampepvRKCPQCNKDM 665
Cdd:PRK07219 543 AQLEADMQAIEDGKKKKEDVTEESREMLKEILSELKEKRKEIGDHLAGSL--KAENRSLKTI--------GKCPECGGDL 612
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 666 VLKTKKSGGFYLSCMGFPECRSAVWFPD----SVLeasrdNSVCSVCQPPpvyrlKLKFKRGSLPPAmplefVGCIgGC- 740
Cdd:PRK07219 613 IIIRTDKGSRFVGCSGYPDCRNTFPLPStgriKVL-----DEVCEKCGLP-----VIKILRGKQTFV-----VGCP-DCe 676
|
730
....*....|...
gi 74186931 741 ----DETLKEIFG 749
Cdd:PRK07219 677 aekeEEDPDEVIG 689
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
195-606 |
3.08e-135 |
|
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: 411.64 E-value: 3.08e-135
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 195 EPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevlaEQLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKVT- 273
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKG-------NKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATl 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 274 HDHKDGTVEFNWKRYRLFNHTACLVLYQLCmEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAEK 353
Cdd:pfam01131 74 KDGGGVFANAKWKRGRIFDKEEAEAILEKL-KKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQK 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 354 LYTQ-GYISYPRTETNIFPKDLNLVALVE-QQTVDPHWGAFAQTILERGGPTPRNGSKSDQAHPPIHPTKY---TSGLQG 428
Cdd:pfam01131 153 LYEKhGLITYPRTDSTYLSDDATLKAILEyLTKNYGKYLPYAPRLLKKTKGKLTVGNAKVTAHEAIRPTGDipvLPELSD 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 429 DDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSD-KLLPVYEQGSHFQPSTVEM 507
Cdd:pfam01131 233 DERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKEDeEELPELKEGEELKVTQVEV 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 508 VDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLtSDKRFLPGHLGMGLVEGYDSMgYEMSKPDLRAE 587
Cdd:pfam01131 313 EEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYVER-KKKSLVPTELGKALVEALEKF-PDLVDPELTAE 390
|
410
....*....|....*....
gi 74186931 588 LEADLKLICEGKKDKFQVL 606
Cdd:pfam01131 391 LEEKLDEIAEGKLDWKDVL 409
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
315-568 |
1.61e-107 |
|
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: 333.44 E-value: 1.61e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 315 RSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDP-HWGAFA 393
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKLYGkEYLDLA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 394 QTILERGGptPRNGSKSDQAHPPIHPTKYT------SGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVA 467
Cdd:smart00437 81 VVLLKPRK--PRKGKKAQGAHEAIRPTKPIftpeleKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 468 HGLIILARNYLDVYPYDHW-SDKLLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIK 546
Cdd:smart00437 159 KGKTLLFDGWLKVYPEEKKeEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTYASIIETLL 238
|
250 260
....*....|....*....|..
gi 74186931 547 ARMYVGLTSdKRFLPGHLGMGL 568
Cdd:smart00437 239 DRGYVTKKK-KKLIPTELGIAV 259
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
35-608 |
5.88e-94 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 307.79 E-value: 5.88e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNgrmrrkeglskfnkiyefDYhlygqnvtmIMTSVSGHLL-----------AHDFQMQFr 103
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLGK------------------DY---------VVTASVGHLRdlpkpeldvdvENDFEPKY- 52
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 104 kwqscnplvlfeaEIEKYCPENFIDIKKTLERethhCQALVIWTDCDREGENIGFEIIHVCKAVKPnlrVLRARFSEITP 183
Cdd:COG0550 53 -------------EVIPGKKKQVKELKKLAKK----ADEVILATDPDREGEAIAWHLLELLGDKKP---VKRVVFNEITK 112
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 184 HAVRTACENLTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevlaeqLISYGSCQFPTLGFVVERFKAIQAFV 263
Cdd:COG0550 113 KAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPLLWKKVKR---------GLSAGRVQSPALRLIVEREREIEAFV 183
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 264 PEVFHKIKVTHDHKDGTVEFNWKRY---RLFNHTACLVLYQLCmEDPMATVVEVRSKPKSKwRPQAL-DTVELEKLASRK 339
Cdd:COG0550 184 PEEYWTIEATFKTGGGEFTAKLVKIdgkKILDEEEAEAILAAL-KGKTFTVTSVEKKPKKR-NPPPPfTTSTLQQEASRK 261
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 340 LRINAKETMRIAEKLYTQGYISYPRTE-TNIfPKDLNlvalveqqtvdphwGAFAQTILERGGP-----TPR--NGSKSD 411
Cdd:COG0550 262 LGFSAKKTMSIAQRLYEVGLITYMRTDsVRL-SEDAV--------------AAAREYIEALYGKeylpeKPRvyKTSKNA 326
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 412 Q-AHPPIHPT---KYTSGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDH-- 485
Cdd:COG0550 327 QeAHEAIRPTgvtRTPESLSGDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEGKdd 406
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 486 ---WSDKLLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLtSDKRFLPG 562
Cdd:COG0550 407 eeeEEEKRLPPLKEGEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEELGIGRPSTYASIIETLQDRGYVER-EGKRLVPT 485
|
570 580 590 600
....*....|....*....|....*....|....*....|....*....
gi 74186931 563 HLGM---GLVEGYDSmgyEMSKPDLRAELEADLKLICEGKKDKFQVLRQ 608
Cdd:COG0550 486 ELGFiviDLLEEHFP---DLVDYEFTAKMEEKLDEIAEGKLDWKDVLEE 531
|
|
| topA_arch |
TIGR01057 |
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ... |
39-685 |
3.80e-87 |
|
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These enzymes are involved in the control of DNA topology. DNA topoisomerase I belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273420 [Multi-domain] Cd Length: 618 Bit Score: 291.73 E-value: 3.80e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 39 VAEKNDAAKGIADLLSNGRMRRKeglSKFNKIYefdYHLYGQNVTMIMTSVSGHL--LAHDFQMQFR----KWQScnplv 112
Cdd:TIGR01057 1 IAEKPKVAAKIAGALSDGRVLKK---SEYGVPY---WEVRRDGKKIIVASAVGHLfgLHPKSRGGYPvfdiEWVP----- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 113 LFEAEIEKYCPENFIdikKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLRVlraRFSEITPHAVRTACEN 192
Cdd:TIGR01057 70 IFEFDKGKGYVSKYI---KALSKLAKGADEYINACDYDIEGEVIGFKALKYFCGVERAKRM---KFSTLTKQDIRRAYAN 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 193 LTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRIFPEVLaeqLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKV 272
Cdd:TIGR01057 144 PEEIDYGMVDAGMARHILDWYWGINLSRALMEAIRAAAGRWV---ILSAGRVQGPTLAFLVEREREINLFVPKPYWVIKA 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 273 THDHKDGTVEFNWKRYRLFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAE 352
Cdd:TIGR01057 221 TLEKGGGVFDARPEKWKIWSEEEAKSIKEELKKSPWAAVEEVRSERSILKPPPPFDLGTLQREAYRIFGFSPKKTQSIAQ 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 353 KLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERGGPTPRNGSKSDQAHPPIHPT--KYTSGLQGDD 430
Cdd:TIGR01057 301 ELYEEALISYPRTSSQKLPPSINYRAILDNLAKGPLYREAAERLLETGVLKPVEGKKEDPAHPAIHPTgeIPSQELSKDE 380
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 431 RRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGSHFQPSTVEMVDG 510
Cdd:TIGR01057 381 KKVYDLIVRRFLAAFSEEAIREKSKVLLRIGQEKFRLSGLRVVKLGWLEYYHYSKFEEKELPPLDRGDKIKVVRVDVRVK 460
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 511 ETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSDKRFLPghLGMGLVEGYDSMGYEMSKPDLRAELEA 590
Cdd:TIGR01057 461 ETQPPARYDKASLIREMESRGLGTKATRARIIETLYKRGYIEGKKSIKVTP--LGEAVIETLQRYCPEIISEELTRRFES 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 591 DLKLICEGKKDKFQVLRQQVQKYKQVFIEAvakAKKLDEAlSQYLGertEMAQQEEIypampepVRKCPQCNKDMVLKTK 670
Cdd:TIGR01057 539 KLEDIMSGRITKDEVIDEAKKRLRKILEEF---KKRLDDI-GIELG---KSLGSVEV-------VGKCPKCGGKLVSKYA 604
|
650
....*....|....*
gi 74186931 671 KSGGFYLsCMGFPEC 685
Cdd:TIGR01057 605 KKGRFVG-CSNYPEC 618
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
35-193 |
2.06e-46 |
|
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: 163.17 E-value: 2.06e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNGRMRRKEGlskfnkiyeFDYHLYGQNVTMIMTSVSGHLLAHDFQMQFRKWQSCNPL--V 112
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGKG---------RYYEFYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLedP 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 113 LFEAEIEKYCPENFIDIKKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKpNLRVLRARFSEITPHAVRTACEN 192
Cdd:cd03362 72 LFPAPFKLKVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKCVK-RKPVKRAWFSSLTPKAIRRAFKN 150
|
.
gi 74186931 193 L 193
Cdd:cd03362 151 L 151
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
897-941 |
9.87e-21 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 85.92 E-value: 9.87e-21
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 74186931 897 TPCLCGQPAVTRTVQKDGPNKGRQFHTCAKPREQQCGFFQWVDEN 941
Cdd:pfam06839 1 PLCPCGQRAVLLTVRKTGPNPGRQFYKCPVGREKQCGFFQWADEV 45
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
813-854 |
1.06e-18 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 80.14 E-value: 1.06e-18
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 74186931 813 VTCNCGREAVLLTVRKQGPNQGRHFYKCSNGD---CNFFLWADSS 854
Cdd:pfam06839 1 PLCPCGQRAVLLTVRKTGPNPGRQFYKCPVGRekqCGFFQWADEV 45
|
|
| zf-C4_Topoisom |
pfam01396 |
Topoisomerase DNA binding C4 zinc finger; |
655-694 |
1.38e-11 |
|
Topoisomerase DNA binding C4 zinc finger;
Pssm-ID: 307520 [Multi-domain] Cd Length: 39 Bit Score: 59.96 E-value: 1.38e-11
10 20 30 40
....*....|....*....|....*....|....*....|
gi 74186931 655 VRKCPQCNKDMVLKTKKSGGFYlSCMGFPECRSAVWFPDS 694
Cdd:pfam01396 1 GGKCPKCGGDLVLKRGRFGKFV-GCSNYPECRFTRPLKKN 39
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
36-181 |
6.37e-10 |
|
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: 56.98 E-value: 6.37e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 36 VLCVAEKNDAAKGIADLLSNGrmrrkeglskfnkiyefdyhlygqnvTMIMTSVSGHLLAHDFqmqfrkwqscnplvlfe 115
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGG--------------------------FQAVVAVLGHLLSLEK----------------- 37
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 74186931 116 aeiekycpENFIDIKKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPnlRVLRARFSEI 181
Cdd:pfam01751 38 --------GPKKKALKALKELALKAKEVILATDPDREGEAIALKLLELKELLEN--AGGRVEFSEL 93
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
35-168 |
2.08e-06 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 46.10 E-value: 2.08e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNGrmrrkeglskfnkiyefdyhlygqnvtMIMTSVSGHLLAhdfqmqfrkwqscnplvlf 114
Cdd:smart00493 1 KVLIIVEGPADAIALEKAGGKR---------------------------GNVVALGGHLLS------------------- 34
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 74186931 115 eaeiekycpenfIDIKKTLERETHHCQaLVIWTDCDREGENIGFEIIHVCKAVK 168
Cdd:smart00493 35 ------------KEQIKLLKKLAKKAE-VILATDPDREGEAIAWELAELLKPAG 75
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
202-617 |
4.67e-160 |
|
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: 474.79 E-value: 4.67e-160
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 202 DAVDVRQELDLRIGAAFTRFQTLRLQRifpevlaEQLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKvthdhkdgtv 281
Cdd:cd00186 5 NAQLARRILDRLVGFNLSRLLTKKLRR-------KGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK---------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 282 efnwkryrlfnhtaclvlyqlcmedpMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAEKLYTQGYIS 361
Cdd:cd00186 68 --------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGLIT 121
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 362 YPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERggPTPRNGSKSDQAHPPIHPTKYT------SGLQGDDRRLYE 435
Cdd:cd00186 122 YPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGR--RNPKRGKKEQGAHEAIRPTKVAptpeleANLSEDEFKLYE 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 436 FIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKL-LPVYEQGSHFQPSTVEMVDGETSP 514
Cdd:cd00186 200 LIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPEEKDDEEEePPPLKEGDELKLEEVELEEKETQP 279
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 515 PQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSdKRFLPGHLGMGLVEGYDSMGYEMSKPDLRAELEADLKL 594
Cdd:cd00186 280 PPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVEKEK-KKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLDE 358
|
410 420
....*....|....*....|...
gi 74186931 595 ICEGKKDKFQVLRQQVQKYKQVF 617
Cdd:cd00186 359 IAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
36-749 |
4.81e-155 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 477.57 E-value: 4.81e-155
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 36 VLCVAEKNDAAKGIADLLSNGRMRRK--EGLSkfnkIYEFDyhlyGQNVTMIMTSVSGHLLAHDFQMQFRKWQSCNPLVL 113
Cdd:PRK07219 2 ELIIAEKNNAARRIADILSGGKAKKKrvNGVP----YYEFE----RKGEKWIVIGLSGHIVTVDFPEEYGDWRDVDPAEL 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 114 FEAEIEKYCP-ENFIDIKKTLEREThhcQALVIWTDCDREGENIGFEIIHVCKAVKpNLRVLRARFSEITPHAVRTACEN 192
Cdd:PRK07219 74 IDADPVKKITkQNYINALKKLAKDA---DEIIIATDYDREGELIGKEAYHILREVC-QVPVKRARFSSLTKKEIRKAFEN 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 193 LTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevLAEQ-LISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIK 271
Cdd:PRK07219 150 PDEIDFNLADAGEARQIIDLYWGAALTRFLSLSVRQ-----LGRWdFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIE 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 272 VTHD----HKDGTVEFNWKRYRLFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKET 347
Cdd:PRK07219 225 ALLDkeaqYFYRDLIGGHEAEKFWDEEEAEEIYEKLKGAKEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRA 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 348 MRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERGGPTPRNGSKSDQAHPPIHPTKYTSG-- 425
Cdd:PRK07219 305 MEIAEKLYTAGYISYPRTDNTVYPDDLDPKELLKKLSKKKEYGPYAESILEQENIKPTEGKKETTDHPPIHPVDVPKRee 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 426 LQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGSHFQPSTV 505
Cdd:PRK07219 385 LSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDLEEGEKLKVNKI 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 506 EMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVglTSDKRFLPGHLGMGLVEGYDSMGYEMSKPDLR 585
Cdd:PRK07219 465 EIEAKETQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGYV--IEGDPPRPTDLGIAVIEALEKYAPEIVSEEMT 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 586 AELEADLKLICEGKKDKFQVLRQQVQKYKQVFIEAVAKAKKLDEALSQYLgeRTEMAQQEEIypampepvRKCPQCNKDM 665
Cdd:PRK07219 543 AQLEADMQAIEDGKKKKEDVTEESREMLKEILSELKEKRKEIGDHLAGSL--KAENRSLKTI--------GKCPECGGDL 612
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 666 VLKTKKSGGFYLSCMGFPECRSAVWFPD----SVLeasrdNSVCSVCQPPpvyrlKLKFKRGSLPPAmplefVGCIgGC- 740
Cdd:PRK07219 613 IIIRTDKGSRFVGCSGYPDCRNTFPLPStgriKVL-----DEVCEKCGLP-----VIKILRGKQTFV-----VGCP-DCe 676
|
730
....*....|...
gi 74186931 741 ----DETLKEIFG 749
Cdd:PRK07219 677 aekeEEDPDEVIG 689
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
195-606 |
3.08e-135 |
|
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: 411.64 E-value: 3.08e-135
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 195 EPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevlaEQLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKVT- 273
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKG-------NKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATl 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 274 HDHKDGTVEFNWKRYRLFNHTACLVLYQLCmEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAEK 353
Cdd:pfam01131 74 KDGGGVFANAKWKRGRIFDKEEAEAILEKL-KKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQK 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 354 LYTQ-GYISYPRTETNIFPKDLNLVALVE-QQTVDPHWGAFAQTILERGGPTPRNGSKSDQAHPPIHPTKY---TSGLQG 428
Cdd:pfam01131 153 LYEKhGLITYPRTDSTYLSDDATLKAILEyLTKNYGKYLPYAPRLLKKTKGKLTVGNAKVTAHEAIRPTGDipvLPELSD 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 429 DDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSD-KLLPVYEQGSHFQPSTVEM 507
Cdd:pfam01131 233 DERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKEDeEELPELKEGEELKVTQVEV 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 508 VDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLtSDKRFLPGHLGMGLVEGYDSMgYEMSKPDLRAE 587
Cdd:pfam01131 313 EEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYVER-KKKSLVPTELGKALVEALEKF-PDLVDPELTAE 390
|
410
....*....|....*....
gi 74186931 588 LEADLKLICEGKKDKFQVL 606
Cdd:pfam01131 391 LEEKLDEIAEGKLDWKDVL 409
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
37-694 |
1.96e-117 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 376.40 E-value: 1.96e-117
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 37 LCVAEKNDAAKGIADLLSNGRMRRKeglskfnKIYEFDYHLYGQNVT-MIMTSVSGHLLAHDFQMQFRKWQSCNPLVLFE 115
Cdd:PRK07220 3 LIITEKNIAARRIAQILAPKKPKKT-------RVSGVDVYRYEDNGDdTVVVGLSGHIVNIDFPKEYNNWQKVDARDLID 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 116 AEIEK-YCPENFIDIKKTLERETHHcqaLVIWTDCDREGENIGFEIIHVCKAVKPNLRVLRARFSEITPHAVRTACENLT 194
Cdd:PRK07220 76 AEIITtPTQKKIVTALKKLGKEADR---VTIATDYDREGELIGVEALNIIKKVNPDIKFDRVRYSAITKKEIERAFSNPV 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 195 EPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevLAEQLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKVTH 274
Cdd:PRK07220 153 EVDFNLADAGHSRQVIDLVWGAALTRYISLAAGR-----LGKMFLSVGRVQSPTLALIVDREKEREAFVPTPYWEIYATL 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 275 DHKDGTVEFNWKRYRLFNHT-ACLVLYQLCMEdpmATVVEVRSKPKSKWRPQALDTVELEKLASrKLRINAKETMRIAEK 353
Cdd:PRK07220 228 ENNGETFVAQHSTRRFWEKEeADRVFEKLGKT---AEVTEVEKGTKTDKPPTPFNTTEFISAAN-SIGFSAANAMRIAES 303
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 354 LYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPhWGAFAQTILERGGPTPRNGSKSDQAHPPIHPTKYT--SGLQGDDR 431
Cdd:PRK07220 304 LYTNGYISYPRTDNTVYPESLDLREQIEIFAEGP-FGEYAQKLLEKGELVPTRGKKETTDHPPIYPASLAkkSELKEDEW 382
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 432 RLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGSHFQPSTVEMVDGE 511
Cdd:PRK07220 383 KVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYNAPEDRLLPELSEGEELKVKKKEMLDKE 462
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 512 TSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVgltSDKRFLPGHLGMGLVEGYDSMGYEMSKPDLRAELEAD 591
Cdd:PRK07220 463 TQPPGRYGQGRLIKLMEDLGLGTKATRHEIISKLYSRAYI---HGNPIQPTNTAFAVVDALEKYAPTITKPDMTSRLEED 539
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 592 LKLICEGKKDKFQVLRQQVQKYKQVFIEAVAKAKKLDEALSQYLGErtemaqqEEIypampepVRKCPQCNKDMVLKTKK 671
Cdd:PRK07220 540 MDKIAEGKIKEDAVLEESREMLEQVFDELDKNREKIRESLREGLRE-------DKI-------IGKCPLCGSDLMVRRSK 605
|
650 660
....*....|....*....|...
gi 74186931 672 SGGFYLSCMGFPECRSAVWFPDS 694
Cdd:PRK07220 606 RGSRFIGCEGYPECTFSLPLPKS 628
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
315-568 |
1.61e-107 |
|
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: 333.44 E-value: 1.61e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 315 RSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDP-HWGAFA 393
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKLYGkEYLDLA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 394 QTILERGGptPRNGSKSDQAHPPIHPTKYT------SGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVA 467
Cdd:smart00437 81 VVLLKPRK--PRKGKKAQGAHEAIRPTKPIftpeleKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 468 HGLIILARNYLDVYPYDHW-SDKLLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIK 546
Cdd:smart00437 159 KGKTLLFDGWLKVYPEEKKeEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTYASIIETLL 238
|
250 260
....*....|....*....|..
gi 74186931 547 ARMYVGLTSdKRFLPGHLGMGL 568
Cdd:smart00437 239 DRGYVTKKK-KKLIPTELGIAV 259
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
35-608 |
5.88e-94 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 307.79 E-value: 5.88e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNgrmrrkeglskfnkiyefDYhlygqnvtmIMTSVSGHLL-----------AHDFQMQFr 103
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLGK------------------DY---------VVTASVGHLRdlpkpeldvdvENDFEPKY- 52
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 104 kwqscnplvlfeaEIEKYCPENFIDIKKTLERethhCQALVIWTDCDREGENIGFEIIHVCKAVKPnlrVLRARFSEITP 183
Cdd:COG0550 53 -------------EVIPGKKKQVKELKKLAKK----ADEVILATDPDREGEAIAWHLLELLGDKKP---VKRVVFNEITK 112
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 184 HAVRTACENLTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevlaeqLISYGSCQFPTLGFVVERFKAIQAFV 263
Cdd:COG0550 113 KAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPLLWKKVKR---------GLSAGRVQSPALRLIVEREREIEAFV 183
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 264 PEVFHKIKVTHDHKDGTVEFNWKRY---RLFNHTACLVLYQLCmEDPMATVVEVRSKPKSKwRPQAL-DTVELEKLASRK 339
Cdd:COG0550 184 PEEYWTIEATFKTGGGEFTAKLVKIdgkKILDEEEAEAILAAL-KGKTFTVTSVEKKPKKR-NPPPPfTTSTLQQEASRK 261
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 340 LRINAKETMRIAEKLYTQGYISYPRTE-TNIfPKDLNlvalveqqtvdphwGAFAQTILERGGP-----TPR--NGSKSD 411
Cdd:COG0550 262 LGFSAKKTMSIAQRLYEVGLITYMRTDsVRL-SEDAV--------------AAAREYIEALYGKeylpeKPRvyKTSKNA 326
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 412 Q-AHPPIHPT---KYTSGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDH-- 485
Cdd:COG0550 327 QeAHEAIRPTgvtRTPESLSGDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEGKdd 406
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 486 ---WSDKLLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLtSDKRFLPG 562
Cdd:COG0550 407 eeeEEEKRLPPLKEGEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEELGIGRPSTYASIIETLQDRGYVER-EGKRLVPT 485
|
570 580 590 600
....*....|....*....|....*....|....*....|....*....
gi 74186931 563 HLGM---GLVEGYDSmgyEMSKPDLRAELEADLKLICEGKKDKFQVLRQ 608
Cdd:COG0550 486 ELGFiviDLLEEHFP---DLVDYEFTAKMEEKLDEIAEGKLDWKDVLEE 531
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
37-707 |
2.24e-93 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 316.79 E-value: 2.24e-93
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 37 LCVAEKNDAAKGIADLLSNG---RMRRKEGLSkfnkIYEFDyhlygqnvTMIMTSVSGHLLAHDFQMQFRKWQScnplvl 113
Cdd:PRK14973 3 LIIAEKNIAANRIAQILAGKtkvQVKKDGGVS----TYSFD--------DTVVVGLRGHVVEVDFEPGYTNWRS------ 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 114 feaeiEKYCPENFID---IKKTLERE--------THHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLRVLRARFSEIT 182
Cdd:PRK14973 65 -----EEHTPRSLIDadtIKKPTEKKivgliqklAKKADRVTIATDFDTEGELIGKEAYELVRAVNPKVPIDRARFSAIT 139
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 183 PHAVRTACENLTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevLAEQLISYGSCQFPTLGFVVERFKAIQAF 262
Cdd:PRK14973 140 KEEIVTAFAEPTDLDFALAAAGEARQIIDLIWGASLTRFISLAAHR-----GGDNILSVGRVQSPTLAMIVDREKEIEAF 214
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 263 VPEVFHKIKVTHDhKDG-TVEFNWKRYRLFNHTACLVLYQlCMEDPMaTVVEVRSKPKSKWRPQALDTVELEKLASRkLR 341
Cdd:PRK14973 215 VPEKYWMLSLATE-KDGeGIEARHTHGRFTDSAAAEAAYD-ATKEPL-VVTEVKEGHKVDRAPTPFDTTTFIVAASR-LG 290
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 342 INAKETMRIAEKLYTQGYISYPRTETNIFPKDLNLVALVeqQTVDPhwGAFAQT---ILERGGPTPRNGSKSDQAHPPIH 418
Cdd:PRK14973 291 FSAANAMRIAEDLYMNGYISYPRTDNTIYPKSLDLNGVL--ATLAK--GAFSKDvawVKDNRRPVPTRGKKSSTDHPPIH 366
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 419 PTKYTSGLQ-GDDR-RLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQ 496
Cdd:PRK14973 367 PTGVATREElGDDRwKLYELVVRRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVYPYSEAKENILPAFAL 446
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 497 GSHFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVgltSDKRFLPGHLGMGLVEGYDSMG 576
Cdd:PRK14973 447 GEKLPILAVNLEEKETQPPARYSQSRLIQRMEELGLGTKSTRHEVIGKLVSRKYI---EGNPLRPTLVGRAVTESLEEHA 523
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 577 YEMSKPDLRAELEADLKLICEGKKDKFQVLRQQVQKYKQVFIEAVAKakklDEALSQYLGERTemAQQEEIYPampepvr 656
Cdd:PRK14973 524 GTITEPDMTQTLEEHMQQIKERKRTRDDVVTESRKMLHRAFDELEAN----EAVIGRDIMERT--AEELTIGP------- 590
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|..
gi 74186931 657 kCPQCNKDMVLKTKKSGGFyLSCMGFPECRSAVWFPDSVL-EASRDNSVCSV 707
Cdd:PRK14973 591 -CPVCGKDLRIKHIGSSQF-IGCSGYPDCTFNIGLPGTTWgWAIRTDEVCPI 640
|
|
| topA_arch |
TIGR01057 |
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ... |
39-685 |
3.80e-87 |
|
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These enzymes are involved in the control of DNA topology. DNA topoisomerase I belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273420 [Multi-domain] Cd Length: 618 Bit Score: 291.73 E-value: 3.80e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 39 VAEKNDAAKGIADLLSNGRMRRKeglSKFNKIYefdYHLYGQNVTMIMTSVSGHL--LAHDFQMQFR----KWQScnplv 112
Cdd:TIGR01057 1 IAEKPKVAAKIAGALSDGRVLKK---SEYGVPY---WEVRRDGKKIIVASAVGHLfgLHPKSRGGYPvfdiEWVP----- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 113 LFEAEIEKYCPENFIdikKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLRVlraRFSEITPHAVRTACEN 192
Cdd:TIGR01057 70 IFEFDKGKGYVSKYI---KALSKLAKGADEYINACDYDIEGEVIGFKALKYFCGVERAKRM---KFSTLTKQDIRRAYAN 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 193 LTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRIFPEVLaeqLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKV 272
Cdd:TIGR01057 144 PEEIDYGMVDAGMARHILDWYWGINLSRALMEAIRAAAGRWV---ILSAGRVQGPTLAFLVEREREINLFVPKPYWVIKA 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 273 THDHKDGTVEFNWKRYRLFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAE 352
Cdd:TIGR01057 221 TLEKGGGVFDARPEKWKIWSEEEAKSIKEELKKSPWAAVEEVRSERSILKPPPPFDLGTLQREAYRIFGFSPKKTQSIAQ 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 353 KLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERGGPTPRNGSKSDQAHPPIHPT--KYTSGLQGDD 430
Cdd:TIGR01057 301 ELYEEALISYPRTSSQKLPPSINYRAILDNLAKGPLYREAAERLLETGVLKPVEGKKEDPAHPAIHPTgeIPSQELSKDE 380
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 431 RRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGSHFQPSTVEMVDG 510
Cdd:TIGR01057 381 KKVYDLIVRRFLAAFSEEAIREKSKVLLRIGQEKFRLSGLRVVKLGWLEYYHYSKFEEKELPPLDRGDKIKVVRVDVRVK 460
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 511 ETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSDKRFLPghLGMGLVEGYDSMGYEMSKPDLRAELEA 590
Cdd:TIGR01057 461 ETQPPARYDKASLIREMESRGLGTKATRARIIETLYKRGYIEGKKSIKVTP--LGEAVIETLQRYCPEIISEELTRRFES 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 591 DLKLICEGKKDKFQVLRQQVQKYKQVFIEAvakAKKLDEAlSQYLGertEMAQQEEIypampepVRKCPQCNKDMVLKTK 670
Cdd:TIGR01057 539 KLEDIMSGRITKDEVIDEAKKRLRKILEEF---KKRLDDI-GIELG---KSLGSVEV-------VGKCPKCGGKLVSKYA 604
|
650
....*....|....*
gi 74186931 671 KSGGFYLsCMGFPEC 685
Cdd:TIGR01057 605 KKGRFVG-CSNYPEC 618
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
35-664 |
1.70e-81 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 277.64 E-value: 1.70e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNGRMRRKeglsKFN-KIYEFDYhlYGQNVtmIMTSVSGHL--LAHD------FQMQFRkw 105
Cdd:PRK05776 2 YILVIAEKPKAARKIAEALSEKPIRCR----IYGvPYWIVKR--DGKKI--VVAPAAGHLfgLHTKskgfpvFDYEWK-- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 106 qscnPLvlFEAEIEKYCPENFIDIKKTLERethHCQALVIWTDCDREGENIGFEIIhvcKAVKPNLRVLRARFSEITPHA 185
Cdd:PRK05776 72 ----PL--YEIDKGSKYTKKYYELLSSLSK---YADEFINACDYDIEGSVIGYLII---KYLGDPKKAKRMKFSALTKSD 139
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 186 VRTACENLTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRIFPEVLaeqLISYGSCQFPTLGFVVERFKAIQAFVPE 265
Cdd:PRK05776 140 IRRAFRNLETLDYEMINAGIARHELDWLWGINVSRALMSSVRDASGKRV---ILSAGRVQSPTLKYVVEREIERNLFVPL 216
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 266 VFHKIKVTHDHKDG--TVEFNWKRYRLFNhTACLVLYQlCMEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRIN 343
Cdd:PRK05776 217 PYFSVSIIIEKNGYefTLKYENKKFETKE-EAKEILEE-IKKTGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGFS 294
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 344 AKETMRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERGGP--TPRNGSKSDQAHPPIHPT- 420
Cdd:PRK05776 295 PYKTQSIAEDLYLDGLISYPRTNSQKLPPTLNIRNILKGLSRSPQYRPLVNLLLKETKGvlKPVQGPKDDPAHPAIYPTg 374
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 421 KYTSGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDI--AQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGS 498
Cdd:PRK05776 375 EPPKNLSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVpgFPLVFSASGQRIEERGWLKYYPFHKFDEEELPLLKKGE 454
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 499 HFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYvgLTSDKRFL-PGHLGMGLVEGYDSMGY 577
Cdd:PRK05776 455 RVKIVDVKVRKSYTKPPSRYSKASLLKWMESVGIGTEATRARIIETLFKRGY--LTSNGKYIeVTPLGFGVAEVLEKYFP 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 578 EMSKPDLRAELEADLKLICEGKKDKFQVlrqqVQKYKQVFIEAVAKAKKLDEALSQYLGERTEMAqqeeiypampEPVRK 657
Cdd:PRK05776 533 DIVSVELTRDFEEKLEMIRTGKATREEV----IEEAKETLNKLLEEFKKNKDEIGEELAKALGLI----------KPVGK 598
|
....*..
gi 74186931 658 CPQCNKD 664
Cdd:PRK05776 599 CKICGRE 605
|
|
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
35-685 |
1.03e-63 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 227.74 E-value: 1.03e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLsnGRMRRKEGlskfnkiyefdyHLYGQNVtmIMTSVSGHLLAH----DFQMQFRKWQ-SCN 109
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVL--KPHKKGDG------------YIEGNGY--IVTWAIGHLLELaepeAYDERYKRWRlEDL 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 110 PLVlfeaeiekycPENF--IDIKKT------LERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLRVLrarFSEI 181
Cdd:PRK07726 65 PII----------PEKWklVVKKKTakqfnvVKKLLKQATEIVIATDADREGELIAREILDYCGVRKPIKRLW---ISSL 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 182 TPHAVRTACENL-----TEPdqrVSDAVDVRQELDLRIGAAFTRFQTLRLQRI-FPEVLaeqliSYGSCQFPTLGFVVER 255
Cdd:PRK07726 132 TDKAIKRAFANLkpgkeTIP---LYYSALARSRADWLVGINMTRAYTLLGRKAgYNGVL-----SVGRVQTPTLALVVRR 203
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 256 FKAIQAFVPEVFHKIKVtHDHKDGTVEFNW--------KRYRLFNHTACLVLYQLCMEDPmATVVEVRSKPKSKWRPQAL 327
Cdd:PRK07726 204 DEEIENFVPKPYWEVEA-HLTPGERFTAKWqpsepyqdEEGRLLDRPLAEQVVARIQGQP-AKVTEVETKRKKEYAPLLY 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 328 DTVELEKLASRKLRINAKETMRIAEKLY-TQGYISYPRTETNIFPKDLnlVALVEQ-----QTVDPhwgaFAQTILERGG 401
Cdd:PRK07726 282 DLSELQIDANKRFGLSAKETLDIAQSLYeTHKLITYPRTDSRYLPEDM--VATLPEvlnaiSKVDP----YLLLAPPVLD 355
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 402 PTPR----NGSKSDqAHPPIHPTKYT---SGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILA 474
Cdd:PRK07726 356 PSIRsrawNDKKVT-AHHAIIPTEQPpnlSKLSEDERKVYDLIARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVE 434
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 475 RNYLDVYPYDHWSDK---LLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALM-----------------EKHGIGT 534
Cdd:PRK07726 435 AGWKALLGKKEEDEEkeqPLPVLAKGDELKVEKGEVKEGQTQPPKRFTEGTLLSAMeniarfvqdkelkktlkETDGLGT 514
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 535 DATHAEHIETIKARMYvgLTSDKRFL-PGHLGMGLVegyDSMGYEMSKPDLRAELEADLKLICEGKKDKFQVLRQQVQKY 613
Cdd:PRK07726 515 EATRAGIIEKLFKRGY--LEKKGKYIhATDKGKQLI---DALPEELTSPDMTAKWEQALDQISEGQLSYQDFMQPLKQWL 589
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74186931 614 KQVfieaVAKAKkldealsqylgertemaQQEEIYPAMPEPVRKCPQCNKDMVLKTKKSGGFyLSCMGFPEC 685
Cdd:PRK07726 590 KQL----VEQAK-----------------QSSEKYKFDNLTGPKCPDCGKPMLKVKGKNGKM-LVCQDRECG 639
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
96-686 |
4.14e-52 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 194.69 E-value: 4.14e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 96 HDFQMQFrkwqscnplvlfeaEI----EKYCPEnfidIKKTLERethhCQALVIWTDCDREGENIGFEIIHVCK-AVKPN 170
Cdd:PRK06599 48 NDFAPKY--------------EIiegkEKVVDA----LKKAAKK----ADAVYLATDPDREGEAIAWHIAEVLKeAKLKD 105
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 171 LRVLRARFSEITPHAVRTACENLTEPDQRVSDAVDVRQELDLRIGAAFTRFqtlrLQRIFPEVLaeqliSYGSCQFPTLG 250
Cdd:PRK06599 106 KNVKRVVFNEITKKAVQEAIENPRDIDMDLVDAQQARRALDYLVGFKLSPL----LWKKVRRGL-----SAGRVQSVALR 176
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 251 FVVERFKAIQAFVPEVFHKIKVTHDHKDGT------VEFNWKR---YRLFNHTACLVLYQLcMEDPMATVVEVRSKPKSK 321
Cdd:PRK06599 177 LICEREDEIEAFIPQEYWTIEADLATSNGEpftaklVEVNGKKlekFSITNEEQAKALVKA-LEGQAYTVDKIEKKERKR 255
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 322 wRPQA-LDTVELEKLASRKLRINAKETMRIAEKLY--------TQGYISYPRTE-TNIFPKdlnlvALVE-QQTVDPHWG 390
Cdd:PRK06599 256 -NPPPpFITSTLQQEASRKLGFSAKKTMRIAQKLYegidlgegTVGLITYMRTDsVRLSNE-----ALDEaRKYITKKYG 329
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 391 AfaqtilERGGPTPR---NGSKSDQ-AHPPIHPT----------KYtsgLQGDDRRLYEFIVRHFLACCSQDAQGQETTV 456
Cdd:PRK06599 330 K------EYLPAKPRvykKKSKNAQeAHEAIRPTsinrtpeslkPY---LTPDQFKLYELIWKRTVASQMAPAILDQTSV 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 457 EIDIAQERFV--AHGLIILARNYLDVYPYD-----HWSDKLLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALMEK 529
Cdd:PRK06599 401 DIASENGKYVfrATGSVILFPGFLKVYGESkddeeEDDEKLLPPLKEGEKLKLDELLPEQHFTEPPPRYSEASLVKKLEE 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 530 HGIGTDATHAEHIETIKARMYVGLtSDKRFLPGHLGMG----LVEGY-DSMGYemskpDLRAELEADLKLICEGKKDKFQ 604
Cdd:PRK06599 481 YGIGRPSTYASIISTLQDREYVEL-EKKRFIPTDLGRIvndfLVEHFpKYVDY-----DFTAGLEDELDEIAEGKKDWKP 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 605 VLRQQVQKykqvFIEAVAKAKKLdealsqylgERTEMAQQEEIypampepVRKCPQCN-KDMVLKTKKSGGFyLSCMGFP 683
Cdd:PRK06599 555 VLREFWEP----FISNLEKVEED---------VRTEKVTQEET-------DETCPKCGgGPLVLKLGKNGKF-LGCSGYP 613
|
...
gi 74186931 684 ECR 686
Cdd:PRK06599 614 ECK 616
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
147-686 |
3.53e-50 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 191.16 E-value: 3.53e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 147 TDCDREGENIGFEIIHVCKavKPNLRVLRARFSEITPHAVRTACENLTEPDQRVSDAVDVRQELDLRIGaaFTrfqtlrl 226
Cdd:PRK07561 94 TDPDREGEAIAWHLLEVLG--GDDVPVKRVVFNEITKNAIQEAFENPRELDINLVNAQQARRFLDRLVG--YM------- 162
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 227 qrIFPeVLAEQL---ISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKVTHDHKDGT------VEFNWKRYRLF---NHT 294
Cdd:PRK07561 163 --VSP-LLWKKIargLSAGRVQSVAVRLIVEREREIEAFVPEEYWDIHADLTTPRGDafearlTHLDGKKFAPVdllNEA 239
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 295 ACLVLYQLcMEDPMATVVEVRSKPKSKwRPQA-LDTVELEKLASRKLRINAKETMRIAEKLYTQGYISYPRTE-TNIfpk 372
Cdd:PRK07561 240 QAEAAVAA-LEGARYSVASVEDKPTTR-KPSApFTTSTLQQEASRKLGFSVKKTMRIAQRLYEAGYITYMRTDsTNL--- 314
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 373 dlnlvalvEQQTVDphwgAFAQTILERGG-----PTPRN-GSKSD---QAHPPIHPT------KYTSGLQGDDRRLYEFI 437
Cdd:PRK07561 315 --------SQEAIN----AARGYIGDNYGkkylpEKPRQySSKAKnaqEAHEAIRPSdvfrtpDQLKGLEGDAQRLYELI 382
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 438 VRHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYP-----YDHWSDKLLPVYEQGSHFQPSTVEMVDGET 512
Cdd:PRK07561 383 WKRFVASQMAPARYDSTTVTIAAGDAELRATGRVLRFDGFLKVYVegrddALDDEDRRLPALKVGDALTLEKLDPTQHFT 462
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 513 SPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSdKRFLPGHLGM---GLVEGY--DSMGYemskpDLRAE 587
Cdd:PRK07561 463 KPPARYSEASLVKELEKLGIGRPSTYASIISTIQDRGYVRLEN-RRFYPEKMGRivtDRLEEFfpRLVDY-----DFTAR 536
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 588 LEADLKLICEGKKDKFQVLRqqvQKYKQvFIEAVAKAKKLDEAlsqylgerTEMAQQEeiypaMPEPVRKCPQCNKDMVL 667
Cdd:PRK07561 537 MEEELDDIANGEADWKPVLD---DFYKD-FSQQLEKAEELREE--------GGMRPNQ-----MVITDRDCPTCGRGMGI 599
|
570 580
....*....|....*....|..
gi 74186931 668 KTKKSGGFyLSCMGF---PECR 686
Cdd:PRK07561 600 RTGKTGVF-LGCSGYalkERCK 620
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
35-193 |
2.06e-46 |
|
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: 163.17 E-value: 2.06e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNGRMRRKEGlskfnkiyeFDYHLYGQNVTMIMTSVSGHLLAHDFQMQFRKWQSCNPL--V 112
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGKG---------RYYEFYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLedP 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 113 LFEAEIEKYCPENFIDIKKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKpNLRVLRARFSEITPHAVRTACEN 192
Cdd:cd03362 72 LFPAPFKLKVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKCVK-RKPVKRAWFSSLTPKAIRRAFKN 150
|
.
gi 74186931 193 L 193
Cdd:cd03362 151 L 151
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
35-193 |
4.88e-39 |
|
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: 141.59 E-value: 4.88e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNGRMRRKEglskfnkiyefdyhlYGQNVTMIMTSVSGHLLAHDFQMQFRKWQSCNPLVLF 114
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKKKGF---------------YGEGGGYVVTASVGHLLELPFPEEYVDWDKDWPLELF 65
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 74186931 115 EAEIEKYCPENFIDIKKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAvkPNLRVLRARFSEITPHAVRTACENL 193
Cdd:cd01028 66 PFEPKYVVIPDKKKQLKALKKLAKKADEIVLATDPDREGELIAWEILEVLKC--DNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
35-629 |
6.09e-37 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 150.20 E-value: 6.09e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSngrmrrkeGLSKFNKIYEFDYHlygqnvtmIMTSVSGHLLA----HDFQMQFRKWQSCNP 110
Cdd:PRK08173 3 KALIIAEKPSVANDIARALG--------GFTKHDEYFESDEY--------VLSSAVGHLLEiaapEEYEVKRGKWSFAHL 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 111 LVLfeaeiekycPENF--IDIKKTLERethhCQALV----------IWTDCD--REGENIGFEIIHVCKAVKPnlrVLRA 176
Cdd:PRK08173 67 PVI---------PPHFdlNPIAKTESR----LKVLTklikrkdvtrLINACDagREGELIFRLIAQHAKAKKP---VKRL 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 177 RFSEITPHAVRTACENLTEPDQRVS--DAVDVRQELDLRIGAAFTRFQTLRLQRI--FpevlaeQLISYGSCQFPTLGFV 252
Cdd:PRK08173 131 WLQSMTPQAIRDGFANLRSDEDMQPlaDAARCRSEADWLVGINGTRAMTAFNSKGggF------FLTTVGRVQTPTLSIV 204
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 253 VERFKAIQAFVPEVFHKIKVTHDHKDGTVEFNW-------------KR-YRLFNHTACLVLYQLCMEDPmATVVEvRSKP 318
Cdd:PRK08173 205 VEREEKIRRFVPRDYWEVRAEFVAAAGFYEGRWfdpkfkkdefdpeKRaSRLWSEAAAEAIVAACRGKP-GTVTE-ESKP 282
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 319 KSKWRPQALDTVELEKLASRKLRINAKETMRIAEKLYTQ-GYISYPRTETNIFPKD-LNLV-ALVEQQTVDPHWGAFAQT 395
Cdd:PRK08173 283 STQLSPLLFDLTSLQREANGRFGFSAKNTLGLAQALYEKhKVLTYPRTDSRALPEDyLGTVkQTLEMLKESNNYLPHAKQ 362
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 396 ILERG--GPTPR--NGSK-SDqaHPPIHPTKYT-SGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQERFVAHG 469
Cdd:PRK08173 363 ILDKGwvKPNKRifDNSKiSD--HFAIIPTLQApKSLSEPEQKLYDLVVKRFLAVFFPAAEFLVTTRITEVAGHHFKTEG 440
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 470 LIILARNYLDVYPYDHWSD--KLLPVyEQGSHFQPSTVEMVDGETSPPQLLTEADLIALME----------------KHG 531
Cdd:PRK08173 441 KVLVNPGWLAVYGKEAQGAdaNLVPV-QKGEKVKTDKIEAVALTTKPPARYNEATLLSAMEgagklveddelreamaEKG 519
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 532 IGTDATHAEHIETIKARMYVgLTSDKRFLPG----HLgMGLVEGYDSMgyEMSKPDLRAELEADLKLICEGKKDKFQVLR 607
Cdd:PRK08173 520 LGTPATRAAIIEGLLGEKYL-VREGRELIPTakafQL-MTLLRGLGVE--ELTSPELTGEWEYKLSQIERGKLSRDAFMQ 595
|
650 660
....*....|....*....|..
gi 74186931 608 QQVQKYKQVfieaVAKAKKLDE 629
Cdd:PRK08173 596 EIAQMTQQI----VKRAKEYDS 613
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
35-628 |
1.67e-36 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 149.34 E-value: 1.67e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSngrmrrkEGLSKFNKIYEfdyhlYGQNVTMIMTSVSGHLL----AHDFQMQFRKWQSCNP 110
Cdd:PRK14724 2 KTLVIAEKPSVAQDIVRALT-------PVAGKFEKHDE-----HFESDSYVVTSAVGHLVeiqaPEEFDVKRGKWSFANL 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 111 LVLfeaeiekycPENFiDIK---KTLER--------ETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLR--VLRAR 177
Cdd:PRK14724 70 PVI---------PPYF-DLKpvdKTKTRlnavvklaKRKDVTELVNACDAGREGELIFRLIEQYAGGAKGGLGkpVKRLW 139
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 178 FSEITPHAVRTACENLTEPDQR--VSDAVDVRQELDLRIGAAFTRFQTLRLQR---IFpevlaeqLISYGSCQFPTLGFV 252
Cdd:PRK14724 140 LQSMTPQAIRDGFDNLRSDAQMqgLASAARSRSEADWLVGINGTRAMTAFNSRdggFF-------LTTVGRVQTPTLSLV 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 253 VERFKAIQAFVPEVFHKIKVTHDHKDGT-----VEFNWKRY---------RLFNHTACLVLYQLCMEDPmATVVEvRSKP 318
Cdd:PRK14724 213 VEREEKIRKFVSRDYWEIHAGFHAEAGEylgkwFDPQWKKAsddpearadRVWSEREARAIADAVRGKA-ATVTE-ESKP 290
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 319 KSKWRPQALDTVELEKLASRKLRINAKETMRIAEKLYTQ-GYISYPRTETNIFPKDLNLVAlveQQTVD-------PHWG 390
Cdd:PRK14724 291 TTQASPLLFDLTSLQREANGKFGFSAKTTLALAQSLYERhKALTYPRTDSRALPEDYLPVA---KQTFEmlatsgmRHLA 367
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 391 AFAQTILERG--GPTPR---NGSKSDqaHPPIHPT-KYTSGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQER 464
Cdd:PRK14724 368 PFAQQALDGNyvRPSKRifdNSKVSD--HFAIIPTtQAPSGLSEAEQKLYDLVVRRFMAVFFPSAEYQVTTRISQVVGHS 445
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 465 FVAHGLIILARNYLDVYPYDHWSD-----------KLLPVyEQGSHFQPSTVEMVDGETSPPQLLTEADLIALME----- 528
Cdd:PRK14724 446 FKTEGKVLVKPGWLAIYGKEAANEvedakdgdkgqPLVPV-KPGEMVRTEFAEAKGLKTKPPARYSEATLLGAMEsagkq 524
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 529 -----------KHGIGTDATHAEHIETIKARMYVgLTSDKRFLPGHLG---MGLVEGYDSMgyEMSKPDLRAELEADLKL 594
Cdd:PRK14724 525 idddelreamqEKGLGTPATRAAIIEGLLTEKYM-LREGRELIPTAKAfqlMTLLRGLGVE--ELSRAELTGEWEYKLAQ 601
|
650 660 670
....*....|....*....|....*....|....*.
gi 74186931 595 ICEGK--KDKFQvlrQQVQKYKQvfiEAVAKAKKLD 628
Cdd:PRK14724 602 MEKGQlsREAFM---QQIAAMTE---KLVKKAKEYD 631
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
133-685 |
5.24e-36 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 147.28 E-value: 5.24e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 133 LERETHHCQALVIWTDCDREGENIGFeiiHVCKAVKPNLRVLRARFSEITPHAVRTACENLTEPDQRVSDAVDVRQELDL 212
Cdd:PRK06319 67 ICKLAKKCDVVYLSPDPDREGEAIAW---HIANQLPKNTKIQRISFNAITKGAVTEALKHPREIDMALVNAQQARRLLDR 143
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 213 RIGAAFTRFQTLRLQRifpevlaEQLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKV-THDHKDGTV------EFNW 285
Cdd:PRK06319 144 IVGYKISPILSRKLQR-------RSGVSAGRVQSVALKLVVDREKAIEAFVPVEYWNIRVhLKDPKTQKTfwahlySVDG 216
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 286 KRYR-------------LFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKETMRIAE 352
Cdd:PRK06319 217 KKWEkeipegktedevlLINSKEKADHIVELLESATYTVTRVESKEKRRNAYPPFITSTLQQEASRHFRFSSSRTMNIAQ 296
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 353 KLY---------TQGYISYPRTET-NIFPKDLNLVALVEQQTvdphwgaFAQTILERGgPTPRNGSKSDQ-AHPPIHPT- 420
Cdd:PRK06319 297 TLYegvdldsegATGLITYMRTDSvRTDPEALKQVRKYIEGT-------FGKEFLPSS-PNVYTTKKMAQdAHEAIRPTd 368
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 421 ------KYTSGLQGDDRRLYEFIVRHFLAccSQDAQGQETTVEIDIAQERFV---AHGLIILARNYLDVYP------YDH 485
Cdd:PRK06319 369 itltpeKLRSKLTEDQYKLYSLIWKRFVA--SQMIPAIYDTLAIRITTNKGIdlrATGSLLKFKGFLAVYEekrddeGDE 446
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 486 WSDKLLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVgLTSDKRFLPGHLG 565
Cdd:PRK06319 447 EENIHLPKLHEQDVLTKEELSAEQAFTKPLPRFTEASLVKELEKSGIGRPSTYATIMNKIQSREYT-LKENQRLRPTELG 525
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 566 MGLVEGYDSMGYEMSKPDLRAELEADLKLICEGKKDkfqvLRQQVQKYKQVFIEAVakakkldealsqylgertEMAQQE 645
Cdd:PRK06319 526 KIISQFLETNFPRIMDIGFTALMEDELELIADNKKP----WKLLLQEFWELFLPVV------------------VTAEKE 583
|
570 580 590 600
....*....|....*....|....*....|....*....|
gi 74186931 646 EIYPAMPEPVrKCPQCNKDMVLKTKKSGGFYLSCMGFPEC 685
Cdd:PRK06319 584 AFIPRIVTEI-DCPKCHKGKLVKIWAKNRYFYGCSEYPEC 622
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
142-655 |
5.47e-33 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 137.20 E-value: 5.47e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 142 ALVIWTDCDREGENIGFEIIHVCKAV-----KPNLRVLrarFSEITPHAVRTACENltePDQRVSDAVDVRQE---LDLR 213
Cdd:PRK08780 76 DLYLATDPDREGEAISWHLAEILKERgllkdKPMQRVV---FTEITPRAIKEAMAK---PRDIASDLVDAQQArraLDYL 149
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 214 IGAAFTRFQTLRLQRifpevlaeqLISYGSCQFPTLGFVVERFKAIQAFVPEVFHKIKVTHDHKDGtvEFNWKRYRLFNH 293
Cdd:PRK08780 150 VGFNLSPLLWRKIQR---------GLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAHPSQ--PFNAKLIKLDGQ 218
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 294 -----------TACLVLYQLC-MEDPMATVVEVRSKPKsKWRPQA-LDTVELEKLASRKLRINAKETMRIAEKLY----- 355
Cdd:PRK08780 219 kfeqftitdgdTAEAARLRIQqAAQGTLHVTDVESKER-KRNPAPpFTTSTLQQEASRKLGFTTRRTMQVAQKLYegvdl 297
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 356 ----TQGYISYPRTETnifpKDLNLVALVE-QQTVDPHWGAFAqtiLERGGPTPRNGSKSDQ-AHPPIHPT-------KY 422
Cdd:PRK08780 298 gdegSVGLITYMRTDS----VNLSQDALAEiRDVIARDYGTAS---LPDQPNTYKTKSKNAQeAHEAVRPTsalrtpaQV 370
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 423 TSGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVEIDIAQER-FVAHGLIILARNYLDVY--------PYDHWSDKLLPV 493
Cdd:PRK08780 371 ARFLSDDQRRLYELIWKRAVACQMIPATLNTVSVDLAAGSEHvFRATGSTVVVPGFLAVYeegkddksAEDEDEGRKLPP 450
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 494 YEQGSHFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSdKRFLPGHLGMG----LV 569
Cdd:PRK08780 451 MKEGDNVPLERIRAEQHFTEPPPRYTEASLVKALEEYGIGRPSTYASIISTLQFRKYVEMEG-RRFRPTDVGRAvnkfLT 529
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 570 EGYDS-MGYemskpDLRAELEADLKLICEGKKDKFQVLRqqvqKYKQVFIEAVAKAKkldEALSqylgeRTEMAQQEE-- 646
Cdd:PRK08780 530 GHFTRyVDY-----DFTARLEDDLDAVSRGEKEWIPLME----KFWGPFKELVEEKK---DSVD-----RTEAGQVRElg 592
|
....*....
gi 74186931 647 IYPAMPEPV 655
Cdd:PRK08780 593 TDPKSGKPV 601
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
173-269 |
3.11e-32 |
|
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: 120.38 E-value: 3.11e-32
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 173 VLRARFSEITPHAVRTACENLTEPDQRVSDAVDVRQELDLRIGAAFTRFQTLRLQRifpevlaeQLISYGSCQFPTLGFV 252
Cdd:smart00436 1 IKRIEFSEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRN--------GVLSAGRVQTPTLGLI 72
|
90
....*....|....*..
gi 74186931 253 VERFKAIQAFVPEVFHK 269
Cdd:smart00436 73 VEREREIKNFVPKPYWE 89
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
127-745 |
1.41e-24 |
|
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: 110.34 E-value: 1.41e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 127 IDIKKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLRVLRARFSEITPHAVRTACENLTEPDQRVSDAVDV 206
Cdd:COG0551 71 LKKLKKDKKKKAKALAAALAAADDDAIEAAAAADEEEALKAAEALEAIRKAVVEEVKSRARKRAARAPADVAAAAAAAAL 150
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 207 RQELDLRIGAAFTRFQTLRLQRIFPEVLAEQLISYGSCQFptLGFVVERFKAIQAFVPEVFHKIKVTHDHKDGTVEFNWK 286
Cdd:COG0551 151 ARLLLLAAASRALRLLLLLAAGRLRLLSAVAAGLLELEEL--LKEFEEEEEEEAAEEEEEEEEAKKKKEEDKKKKKKKKK 228
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 287 RYRLFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTVELEKLASRKLRINAKET------MRIAEKLYTQGYI 360
Cdd:COG0551 229 KDKEEETKAIKKKKKAAEAVLAAKKAAKEAKAKKELPTTTTDALPEALATTSLTAAAAASAlaaallEEEGELLYTGGYI 308
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 361 SYPRTETNIFPKDLNLVALVEQQTVDPHWGAFAQTILERGGPTPRNGSKSDQAHPPIHPTKYTSG--LQGDDRRLYEFIV 438
Cdd:COG0551 309 RYTRTPKSSEADALAALEALKKIAEEPPDERAKKKKKKAKKKKASEAKETTDHPPIPPTTAAALLelLEDRKLLLELLVR 388
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 439 RHFLACCSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGSHFQPSTVEMVDGETSPPQLL 518
Cdd:COG0551 389 RRFAAAADLAKVEELTKVEEADEEELVEAEGGLLEVLGEEEEDDEDEEEELLLPPLEEGEPLLLEELLLEKQTTTPPPRY 468
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 519 TEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSDKRFLPGHLGMGLVEGYDSMGYEMSKPDLRAELEADLKLICEG 598
Cdd:COG0551 469 TTELLLKKLEEEGGGGRGTTATIIILILKRRYVVLEEKKTTPTELLVEVVLLLLLPFPKLEDTTETAEEEEALLDKEEGK 548
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 599 KKDKFQVLRqqvqKYKQVFIEAVAKAKKldealsqylgertemaQQEEIYPAMPEPV-RKCPQCNKDMVLKTKKSGGFyL 677
Cdd:COG0551 549 EDKVVEIRE----EEYPFFKKLLEIAEE----------------EGEEELSEEDEVLgEKCPKCGKPLVIKKGRYGKF-L 607
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 678 SCMGFPECRsavwFPDSVLEASRDNSVCSVCQpppVYRLKLKFKRGSLppampleFVGCIGG--CDETLK 745
Cdd:COG0551 608 GCSNYPECK----YTKPLPKPEVTGVKCPKCG---KKLVLRKSKKGKV-------FYGCSNYpkCKFTEW 663
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
897-941 |
9.87e-21 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 85.92 E-value: 9.87e-21
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 74186931 897 TPCLCGQPAVTRTVQKDGPNKGRQFHTCAKPREQQCGFFQWVDEN 941
Cdd:pfam06839 1 PLCPCGQRAVLLTVRKTGPNPGRQFYKCPVGREKQCGFFQWADEV 45
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
813-854 |
1.06e-18 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 80.14 E-value: 1.06e-18
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 74186931 813 VTCNCGREAVLLTVRKQGPNQGRHFYKCSNGD---CNFFLWADSS 854
Cdd:pfam06839 1 PLCPCGQRAVLLTVRKTGPNPGRQFYKCPVGRekqCGFFQWADEV 45
|
|
| zf-C4_Topoisom |
pfam01396 |
Topoisomerase DNA binding C4 zinc finger; |
655-694 |
1.38e-11 |
|
Topoisomerase DNA binding C4 zinc finger;
Pssm-ID: 307520 [Multi-domain] Cd Length: 39 Bit Score: 59.96 E-value: 1.38e-11
10 20 30 40
....*....|....*....|....*....|....*....|
gi 74186931 655 VRKCPQCNKDMVLKTKKSGGFYlSCMGFPECRSAVWFPDS 694
Cdd:pfam01396 1 GGKCPKCGGDLVLKRGRFGKFV-GCSNYPECRFTRPLKKN 39
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
36-181 |
6.37e-10 |
|
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: 56.98 E-value: 6.37e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 36 VLCVAEKNDAAKGIADLLSNGrmrrkeglskfnkiyefdyhlygqnvTMIMTSVSGHLLAHDFqmqfrkwqscnplvlfe 115
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGG--------------------------FQAVVAVLGHLLSLEK----------------- 37
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 74186931 116 aeiekycpENFIDIKKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPnlRVLRARFSEI 181
Cdd:pfam01751 38 --------GPKKKALKALKELALKAKEVILATDPDREGEAIALKLLELKELLEN--AGGRVEFSEL 93
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
131-192 |
6.92e-08 |
|
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: 51.79 E-value: 6.92e-08
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 74186931 131 KTLERETHHCQALVIWTDCDREGENIGFeiiHVCKAVKPNLRVLRARFSEITPHAVRTACEN 192
Cdd:cd03363 64 KELKKLAKKADEIYLATDPDREGEAIAW---HLAEVLKLKKNVKRVVFNEITKEAIKEALKN 122
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
129-570 |
1.23e-06 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 52.64 E-value: 1.23e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 129 IKKTLER----ETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLRV--LRARFSEITPHAVRTACE--NLTEPDQRV 200
Cdd:PTZ00407 110 IQETLERyieeKADNVTEIILATDPDREGELIAVHALQTIKRLYPKLKVpfSRAYMHSITEDGIRKAMRerHVEACDYDL 189
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 201 SDAVDVRQELDlRI----GAAFTRFQTlrlqrifpevlaEQLISYGSCQFPTLGFVVERFKAIQAFVPEvfHK------- 269
Cdd:PTZ00407 190 ANAAETRHAMD-RIfgflGSSVVRAAN------------SQMRSIGRVQTPALILINEREDKIKAFLES--NKstfevqa 254
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 270 ---------------IKVTHDHKDGTVEfnWKRYRLFNHtaCLVLYQL--CME---DPMATVVEVRSKPkskwrPQALDT 329
Cdd:PTZ00407 255 mcqfpsphgttfsqvVTITPDRKGGASH--WATEAEARR--CLEQWKLnnCTGfsvPLEPKPQPSVVPP-----PQPFTM 325
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 330 VELEKLASRKLRINAKETMRIAEKLYTQGYISYPRTE-TNI---------------FPKDLnLVALVEQQTVDPHWGAFA 393
Cdd:PTZ00407 326 ATAIAKANRQLKYSSEMVSGCLQDLFQLGHITYPRTDsTRIdesalpdiyaavkkeFGKEF-LYRLEDRTVSAQEGKGSK 404
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 394 QTILERggpTPRNGSKSDQ-------AHPPIHPTK-YTSG----LQGDDRRLYEFIVRHFLA----------------CC 445
Cdd:PTZ00407 405 KTGKKR---STKQKKGADTpvgnvedAHEAIRPTNiDTTGeslsLSPPTRAVYDLVRRNTLAvfmipmktekivatvkFT 481
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 446 SqdAQGQETTVEIdiaQERFVAH-------------------------------GLIILARNYLDVYPYDHWSDKLLPVY 494
Cdd:PTZ00407 482 S--GSGEKLEFEL---QGKRVVEpgwtrafhkgdkgttgpaeetdeditaveegAPVVPSLSQEEFKAIMNLRSQLGSGV 556
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 74186931 495 EQGShFQPSTVEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSDKRFLPGHLGMGLVE 570
Cdd:PTZ00407 557 QKGF-FELRSPQVRENRPVPPLPHSEGTLIEELKNNGVGRPSTYPMIVKTLLARGYIAVNPKGRCETTPVGRMLVE 631
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
35-168 |
2.08e-06 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 46.10 E-value: 2.08e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 35 KVLCVAEKNDAAKGIADLLSNGrmrrkeglskfnkiyefdyhlygqnvtMIMTSVSGHLLAhdfqmqfrkwqscnplvlf 114
Cdd:smart00493 1 KVLIIVEGPADAIALEKAGGKR---------------------------GNVVALGGHLLS------------------- 34
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 74186931 115 eaeiekycpenfIDIKKTLERETHHCQaLVIWTDCDREGENIGFEIIHVCKAVK 168
Cdd:smart00493 35 ------------KEQIKLLKKLAKKAE-VILATDPDREGEAIAWELAELLKPAG 75
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
125-175 |
1.11e-05 |
|
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: 1.11e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|.
gi 74186931 125 NFIDIKKTLERETHHCQALVIWTDCDREGENIGFEIIHVCKAVKPNLRVLR 175
Cdd:cd00188 32 ALNKTRELLKRLLGEAKEVIIATDADREGEAIALRLLELLKSLGKKVRRLL 82
|
|
| COG1754 |
COG1754 |
Uncharacterized C-terminal domain of topoisomerase IA [Function unknown]; |
309-693 |
1.74e-04 |
|
Uncharacterized C-terminal domain of topoisomerase IA [Function unknown];
Pssm-ID: 441360 [Multi-domain] Cd Length: 892 Bit Score: 45.58 E-value: 1.74e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 309 ATVVEVRSKPKSKWRPQAldtvelEKLASRKLRINAKETMRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPH 388
Cdd:COG1754 256 AAAAAVREPPTPTTTTTA------QAATTTTTRAAAARTTRSAQQAARRTRLGGEGTYTTTTTTTTTTSAAAAAAAAAAA 329
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 389 wGAFAQTILERGGPTPRNGSKSDQAHP-----------PIHPTKYTSGLQGDDRRLYEFIVRHFLACCSQDAQGQETTVE 457
Cdd:COG1754 330 -ALAAAAAAAYAPPPPYYYKKKAAAAAaaaaaaaaaaaRRPPAARAALLSDDRLLLELLLLRRTAAAAAAAAAATATTTA 408
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 458 IDIAQE----------RFVAHGLIILARNYLDVYPYDHwSDKLLPVYEQGSHFQPSTVEMVDGETSPPQLLTEADLIALM 527
Cdd:COG1754 409 AAAAAGagavgtaaagAVFFFGGFLLFAEEEDDDEEDD-DDDDLPALEEGLPLLKEGVLADQHFTQPPPRYTEAPLVKRM 487
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 528 EKHGIGTDATHAEHIETIKARMYVGLTsDKRFLPGhlGMGLV------------EGYdsmgyemskpDLRAELEADLKLI 595
Cdd:COG1754 488 EELGIGRPSTYASILSTLADRIYVRLD-KRRLIPE--DKGRLvtaflfsffrryVEY----------DFTADLEEFLDDV 554
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 74186931 596 CEGKKDKFQVLRQQVQKYKQvFIEAVAKAKKLDEALsqylgertEMAQQEEIypaMPEPVRKCPQCNKDMVLKTKKSGGf 675
Cdd:COG1754 555 SDGELDWKAVLRRFWRDFSA-AYDETGDLRISEVLD--------ALEDLGEI---DPREINSCPLGTGGLSLRVGRYGP- 621
|
410 420
....*....|....*....|....*
gi 74186931 676 YLSCMG-------FPECRsavwFPD 693
Cdd:COG1754 622 FIECSNyeprrasIPECL----APD 642
|
|
| |
