|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
7-793 |
2.17e-146 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 452.15 E-value: 2.17e-146
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 7 VLMVAEKPSIALSIASVLSHGQMSTRR-GSTEVHEFDGmfRGFKahYRVTSVIGHVFSVDFPEKYQNWATIDPQDLFDAP 85
Cdd:PRK07219 2 ELIIAEKNNAARRIADILSGGKAKKKRvNGVPYYEFER--KGEK--WIVIGLSGHIVTVDFPEEYGDWRDVDPAELIDAD 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 86 IIKKESNPKahICRHLSNEARGCSYMVLWLDCDREGENICFEVIESTGFDMKDskrKVYRARFSSVTEKDISKAMDNLVE 165
Cdd:PRK07219 78 PVKKITKQN--YINALKKLAKDADEIIIATDYDREGELIGKEAYHILREVCQV---PVKRARFSSLTKKEIRKAFENPDE 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 166 PNRDEALAVDARQEIDLKVGVAFSRFQTsyfQGKYQNLDCRVISYGPCQTPTLGFCVQRYMHINTFKPEKFWALRPYIRK 245
Cdd:PRK07219 153 IDFNLADAGEARQIIDLYWGAALTRFLS---LSVRQLGRWDFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEALLDK 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 246 DGYELQLEW----ERRRLFDLE-AATVFQKLVvEGRTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLA 320
Cdd:PRK07219 230 EAQYFYRDLigghEAEKFWDEEeAEEIYEKLK-GAKEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRAMEIA 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 321 ERLYTQGFISYPRTESTAYPSSFDFTDTLRAQVSNPVWGGYVQRLLSDGFHMPKSG-TDAGDHPPITPMRAATEVMVGGD 399
Cdd:PRK07219 309 EKLYTAGYISYPRTDNTVYPDDLDPKELLKKLSKKKEYGPYAESILEQENIKPTEGkKETTDHPPIHPVDVPKREELSDD 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 400 AWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVDEKKLPSFLKGERIEVLRVELYE 479
Cdd:PRK07219 389 EWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDLEEGEKLKVNKIEIEA 468
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 480 GNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYvqVQSGRKMVPTALGITLIRGYQCIDPDLCLPDIRSFIE 559
Cdd:PRK07219 469 KETQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGY--VIEGDPPRPTDLGIAVIEALEKYAPEIVSEEMTAQLE 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 560 QQITLVAKGQADHSHVV-------QHVIQQFRRKFSYFVQQI-EHMDAlfeaqfspLADSGRALSKCGKCLRYMKHITAV 631
Cdd:PRK07219 547 ADMQAIEDGKKKKEDVTeesremlKEILSELKEKRKEIGDHLaGSLKA--------ENRSLKTIGKCPECGGDLIIIRTD 618
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 632 PPRLFCG-----TCEEVYYLPQKGTVKLYKElTCPLDNFELVIYsvpGPEGKSF----PLCPY---CYNSPPFEGIdtlf 699
Cdd:PRK07219 619 KGSRFVGcsgypDCRNTFPLPSTGRIKVLDE-VCEKCGLPVIKI---LRGKQTFvvgcPDCEAekeEEDPDEVIGP---- 690
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 700 gasktpnapaktktgagmpcslcphptcqhsvrnqgvcaCPECEGTLVLDPVSFPKWkLNC-NLCSCIVLLP---EGahR 775
Cdd:PRK07219 691 ---------------------------------------CPKCGGELAIKQLKYGSF-LGCtNYPKCKYTLPlprRG--K 728
|
810
....*....|....*...
gi 42569543 776 ITTTSNRCPECDSAIIEI 793
Cdd:PRK07219 729 ITVTDEKCPECGLPLLRV 746
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
165-577 |
3.62e-125 |
|
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: 383.13 E-value: 3.62e-125
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 165 EPNRDEALAVDARQEIDLKVGVAFSRFQTSYFQGKyqnldcRVISYGPCQTPTLGFCVQRYMHINTFKPEKFWALRPYIR 244
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKGN------KLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLK 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 245 K-DGYELQLEWERRRLFDL-EAATVFQKLvvEGRTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAER 322
Cdd:pfam01131 75 DgGGVFANAKWKRGRIFDKeEAEAILEKL--KKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQK 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 323 LYTQ-GFISYPRTESTAYPSSFDFTDTLRAQVSNP-VWGGYVQRLLSD--GFHMPKSGtDAGDHPPITPMRAATEVM-VG 397
Cdd:pfam01131 153 LYEKhGLITYPRTDSTYLSDDATLKAILEYLTKNYgKYLPYAPRLLKKtkGKLTVGNA-KVTAHEAIRPTGDIPVLPeLS 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 398 GDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAV-DEKKLPSFLKGERIEVLRVE 476
Cdd:pfam01131 232 DDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKeDEEELPELKEGEELKVTQVE 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 477 LYEGNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVQVQsGRKMVPTALGITLIRGYQCIdPDLCLPDIRS 556
Cdd:pfam01131 312 VEEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYVERK-KKSLVPTELGKALVEALEKF-PDLVDPELTA 389
|
410 420
....*....|....*....|.
gi 42569543 557 FIEQQITLVAKGQADHSHVVQ 577
Cdd:pfam01131 390 ELEEKLDEIAEGKLDWKDVLA 410
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
169-587 |
1.72e-115 |
|
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: 356.91 E-value: 1.72e-115
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 169 DEALAVDARQEIDLKVGVAFSRFQTSYFQGKyqnldcRVISYGPCQTPTLGFCVQRYMHINTFKPEKFWalrpyirkdgy 248
Cdd:cd00186 2 NLVNAQLARRILDRLVGFNLSRLLTKKLRRK------GVLSAGRVQSPTLGLIVEREREIKAFVPEDYW----------- 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 249 ELQlewerrrlfdleaatvfqklvvegrTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLYTQGF 328
Cdd:cd00186 65 EIK-------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGL 119
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 329 ISYPRTESTAYPSSFDFTDTLRAQVSNPVWGGYVQRLLsDGFHMPKSGTDAGDHPPITPMRAATEVMV----GGDAWRLY 404
Cdd:cd00186 120 ITYPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLL-GRRNPKRGKKEQGAHEAIRPTKVAPTPELeanlSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 405 QYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVDEKKLPSFLK-GERIEVLRVELYEGNTA 483
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPEEKDDEEEEPPPLKeGDELKLEEVELEEKETQ 278
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 484 PPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVQVQsGRKMVPTALGITLIRGYQCIDPDLCLPDIRSFIEQQIT 563
Cdd:cd00186 279 PPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVEKE-KKKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLD 357
|
410 420
....*....|....*....|....
gi 42569543 564 LVAKGQADHSHVVQHVIQQFRRKF 587
Cdd:cd00186 358 EIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
8-588 |
1.94e-84 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 280.44 E-value: 1.94e-84
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 8 LMVAEKPSIALSIASVLSHGqmstrrgstevhefdgmfrgfkahYRVTSVIGHVfsVDFPEKYqnwATIDPQDLFdAP-- 85
Cdd:COG0550 3 LVIVESPAKAKTIAKYLGKD------------------------YVVTASVGHL--RDLPKPE---LDVDVENDF-EPky 52
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 86 -IIKKEsnpKAHIcRHLSNEARGCSYMVLWLDCDREGENICFEVIESTGfdmkdSKRKVYRARFSSVTEKDISKAMDNLV 164
Cdd:COG0550 53 eVIPGK---KKQV-KELKKLAKKADEVILATDPDREGEAIAWHLLELLG-----DKKPVKRVVFNEITKKAIKEAFKNPR 123
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 165 EpnRDEALaVDA---RQEIDLKVGVAFSRFQTSyfqgKYQNLdcrvISYGPCQTPTLGFCVQRYMHINTFKPEKFWALRP 241
Cdd:COG0550 124 D--IDMNL-VDAqqaRRILDRLVGYNLSPLLWK----KVKRG----LSAGRVQSPALRLIVEREREIEAFVPEEYWTIEA 192
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 242 YIRKDGYELQLEWERR---RLFDLEAATVFQKLVvEGRTAKVMDVsEKQEVKGRPAGL-NTVNLLKVASSALGFGPQTAM 317
Cdd:COG0550 193 TFKTGGGEFTAKLVKIdgkKILDEEEAEAILAAL-KGKTFTVTSV-EKKPKKRNPPPPfTTSTLQQEASRKLGFSAKKTM 270
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 318 HLAERLYTQGFISYPRTESTAYPSsfDFTDTLRAQVSNpvwgGYVQRLLSDGFHMPKSGTDA-GDHPPITPmraaTEVMV 396
Cdd:COG0550 271 SIAQRLYEVGLITYMRTDSVRLSE--DAVAAAREYIEA----LYGKEYLPEKPRVYKTSKNAqEAHEAIRP----TGVTR 340
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 397 G-----GDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVD-----EKKLPSFLK 466
Cdd:COG0550 341 TpeslsGDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEGKDDeeeeeEKRLPPLKE 420
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 467 GERIEVLRVELYEGNTAPPDYLTESELISLMEKHGIG---TDASIavhINNIGERNYVQVQsGRKMVPTALGITLIRGYQ 543
Cdd:COG0550 421 GEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEELGIGrpsTYASI---IETLQDRGYVERE-GKRLVPTELGFIVIDLLE 496
|
570 580 590 600
....*....|....*....|....*....|....*....|....*
gi 42569543 544 CIDPDLCLPDIRSFIEQQITLVAKGQADhshvVQHVIQQFRRKFS 588
Cdd:COG0550 497 EHFPDLVDYEFTAKMEEKLDEIAEGKLD----WKDVLEEFYKPFK 537
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
285-538 |
1.34e-76 |
|
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: 249.86 E-value: 1.34e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 285 EKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLYTQGFISYPRTESTAYPSSFDFTDTLR-AQVSNPVWGGYVQ 363
Cdd:smart00437 2 EKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYiQKLYGKEYLDLAV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 364 RLLSDGFhmPKSGTDA-GDHPPITPMRAAT----EVMVGGDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCT 438
Cdd:smart00437 82 VLLKPRK--PRKGKKAqGAHEAIRPTKPIFtpelEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 439 GQRVTEKGFTAIMPW-SAVDEKKLPSFLKGERIEVLRVELYEGNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGE 517
Cdd:smart00437 160 GKTLLFDGWLKVYPEeKKEEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTYASIIETLLD 239
|
250 260
....*....|....*....|.
gi 42569543 518 RNYVQVQsGRKMVPTALGITL 538
Cdd:smart00437 240 RGYVTKK-KKKLIPTELGIAV 259
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
7-793 |
2.17e-146 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 452.15 E-value: 2.17e-146
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 7 VLMVAEKPSIALSIASVLSHGQMSTRR-GSTEVHEFDGmfRGFKahYRVTSVIGHVFSVDFPEKYQNWATIDPQDLFDAP 85
Cdd:PRK07219 2 ELIIAEKNNAARRIADILSGGKAKKKRvNGVPYYEFER--KGEK--WIVIGLSGHIVTVDFPEEYGDWRDVDPAELIDAD 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 86 IIKKESNPKahICRHLSNEARGCSYMVLWLDCDREGENICFEVIESTGFDMKDskrKVYRARFSSVTEKDISKAMDNLVE 165
Cdd:PRK07219 78 PVKKITKQN--YINALKKLAKDADEIIIATDYDREGELIGKEAYHILREVCQV---PVKRARFSSLTKKEIRKAFENPDE 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 166 PNRDEALAVDARQEIDLKVGVAFSRFQTsyfQGKYQNLDCRVISYGPCQTPTLGFCVQRYMHINTFKPEKFWALRPYIRK 245
Cdd:PRK07219 153 IDFNLADAGEARQIIDLYWGAALTRFLS---LSVRQLGRWDFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEALLDK 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 246 DGYELQLEW----ERRRLFDLE-AATVFQKLVvEGRTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLA 320
Cdd:PRK07219 230 EAQYFYRDLigghEAEKFWDEEeAEEIYEKLK-GAKEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRAMEIA 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 321 ERLYTQGFISYPRTESTAYPSSFDFTDTLRAQVSNPVWGGYVQRLLSDGFHMPKSG-TDAGDHPPITPMRAATEVMVGGD 399
Cdd:PRK07219 309 EKLYTAGYISYPRTDNTVYPDDLDPKELLKKLSKKKEYGPYAESILEQENIKPTEGkKETTDHPPIHPVDVPKREELSDD 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 400 AWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVDEKKLPSFLKGERIEVLRVELYE 479
Cdd:PRK07219 389 EWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDLEEGEKLKVNKIEIEA 468
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 480 GNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYvqVQSGRKMVPTALGITLIRGYQCIDPDLCLPDIRSFIE 559
Cdd:PRK07219 469 KETQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGY--VIEGDPPRPTDLGIAVIEALEKYAPEIVSEEMTAQLE 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 560 QQITLVAKGQADHSHVV-------QHVIQQFRRKFSYFVQQI-EHMDAlfeaqfspLADSGRALSKCGKCLRYMKHITAV 631
Cdd:PRK07219 547 ADMQAIEDGKKKKEDVTeesremlKEILSELKEKRKEIGDHLaGSLKA--------ENRSLKTIGKCPECGGDLIIIRTD 618
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 632 PPRLFCG-----TCEEVYYLPQKGTVKLYKElTCPLDNFELVIYsvpGPEGKSF----PLCPY---CYNSPPFEGIdtlf 699
Cdd:PRK07219 619 KGSRFVGcsgypDCRNTFPLPSTGRIKVLDE-VCEKCGLPVIKI---LRGKQTFvvgcPDCEAekeEEDPDEVIGP---- 690
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 700 gasktpnapaktktgagmpcslcphptcqhsvrnqgvcaCPECEGTLVLDPVSFPKWkLNC-NLCSCIVLLP---EGahR 775
Cdd:PRK07219 691 ---------------------------------------CPKCGGELAIKQLKYGSF-LGCtNYPKCKYTLPlprRG--K 728
|
810
....*....|....*...
gi 42569543 776 ITTTSNRCPECDSAIIEI 793
Cdd:PRK07219 729 ITVTDEKCPECGLPLLRV 746
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
165-577 |
3.62e-125 |
|
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: 383.13 E-value: 3.62e-125
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 165 EPNRDEALAVDARQEIDLKVGVAFSRFQTSYFQGKyqnldcRVISYGPCQTPTLGFCVQRYMHINTFKPEKFWALRPYIR 244
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKGN------KLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLK 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 245 K-DGYELQLEWERRRLFDL-EAATVFQKLvvEGRTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAER 322
Cdd:pfam01131 75 DgGGVFANAKWKRGRIFDKeEAEAILEKL--KKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQK 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 323 LYTQ-GFISYPRTESTAYPSSFDFTDTLRAQVSNP-VWGGYVQRLLSD--GFHMPKSGtDAGDHPPITPMRAATEVM-VG 397
Cdd:pfam01131 153 LYEKhGLITYPRTDSTYLSDDATLKAILEYLTKNYgKYLPYAPRLLKKtkGKLTVGNA-KVTAHEAIRPTGDIPVLPeLS 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 398 GDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAV-DEKKLPSFLKGERIEVLRVE 476
Cdd:pfam01131 232 DDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKeDEEELPELKEGEELKVTQVE 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 477 LYEGNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVQVQsGRKMVPTALGITLIRGYQCIdPDLCLPDIRS 556
Cdd:pfam01131 312 VEEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYVERK-KKSLVPTELGKALVEALEKF-PDLVDPELTA 389
|
410 420
....*....|....*....|.
gi 42569543 557 FIEQQITLVAKGQADHSHVVQ 577
Cdd:pfam01131 390 ELEEKLDEIAEGKLDWKDVLA 410
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
169-587 |
1.72e-115 |
|
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: 356.91 E-value: 1.72e-115
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 169 DEALAVDARQEIDLKVGVAFSRFQTSYFQGKyqnldcRVISYGPCQTPTLGFCVQRYMHINTFKPEKFWalrpyirkdgy 248
Cdd:cd00186 2 NLVNAQLARRILDRLVGFNLSRLLTKKLRRK------GVLSAGRVQSPTLGLIVEREREIKAFVPEDYW----------- 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 249 ELQlewerrrlfdleaatvfqklvvegrTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLYTQGF 328
Cdd:cd00186 65 EIK-------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGL 119
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 329 ISYPRTESTAYPSSFDFTDTLRAQVSNPVWGGYVQRLLsDGFHMPKSGTDAGDHPPITPMRAATEVMV----GGDAWRLY 404
Cdd:cd00186 120 ITYPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLL-GRRNPKRGKKEQGAHEAIRPTKVAPTPELeanlSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 405 QYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVDEKKLPSFLK-GERIEVLRVELYEGNTA 483
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPEEKDDEEEEPPPLKeGDELKLEEVELEEKETQ 278
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 484 PPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVQVQsGRKMVPTALGITLIRGYQCIDPDLCLPDIRSFIEQQIT 563
Cdd:cd00186 279 PPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVEKE-KKKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLD 357
|
410 420
....*....|....*....|....
gi 42569543 564 LVAKGQADHSHVVQHVIQQFRRKF 587
Cdd:cd00186 358 EIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
8-588 |
1.59e-103 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 337.11 E-value: 1.59e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 8 LMVAEKPSIALSIASVLSHGQMSTRRGS-TEVHEFDgmFRGFKahyrvTSVIG---HVFSVDFPEKYQNWATIDPQDLFD 83
Cdd:PRK07220 3 LIITEKNIAARRIAQILAPKKPKKTRVSgVDVYRYE--DNGDD-----TVVVGlsgHIVNIDFPKEYNNWQKVDARDLID 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 84 APIIKKESNPK-AHICRHLSNEArgcSYMVLWLDCDREGE-------NICFEVIESTGFDmkdskrkvyRARFSSVTEKD 155
Cdd:PRK07220 76 AEIITTPTQKKiVTALKKLGKEA---DRVTIATDYDREGEligvealNIIKKVNPDIKFD---------RVRYSAITKKE 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 156 ISKAMDNLVEPNRDEALAVDARQEIDLKVGVAFSRFqTSYFQGKYQNLdcrVISYGPCQTPTLGFCVQRYMHINTFKPEK 235
Cdd:PRK07220 144 IERAFSNPVEVDFNLADAGHSRQVIDLVWGAALTRY-ISLAAGRLGKM---FLSVGRVQSPTLALIVDREKEREAFVPTP 219
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 236 FWALRPYIRKDGYELQLEWERRRLFDLEAAT-VFQKLvveGRTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSaLGFGPQ 314
Cdd:PRK07220 220 YWEIYATLENNGETFVAQHSTRRFWEKEEADrVFEKL---GKTAEVTEVEKGTKTDKPPTPFNTTEFISAANS-IGFSAA 295
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 315 TAMHLAERLYTQGFISYPRTESTAYPSSFDftdtLRAQVSNPVWGG---YVQRLLSDGFHMPKSGT-DAGDHPPITPMRA 390
Cdd:PRK07220 296 NAMRIAESLYTNGYISYPRTDNTVYPESLD----LREQIEIFAEGPfgeYAQKLLEKGELVPTRGKkETTDHPPIYPASL 371
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 391 ATEVMVGGDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVDEKKLPSFLKGERI 470
Cdd:PRK07220 372 AKKSELKEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYNAPEDRLLPELSEGEEL 451
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 471 EVLRVELYEGNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVQvqsGRKMVPTALGITLIRGYQCIDPDLC 550
Cdd:PRK07220 452 KVKKKEMLDKETQPPGRYGQGRLIKLMEDLGLGTKATRHEIISKLYSRAYIH---GNPIQPTNTAFAVVDALEKYAPTIT 528
|
570 580 590
....*....|....*....|....*....|....*...
gi 42569543 551 LPDIRSFIEQQITLVAKGQADHSHVVQHVIQQFRRKFS 588
Cdd:PRK07220 529 KPDMTSRLEEDMDKIAEGKIKEDAVLEESREMLEQVFD 566
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
8-576 |
6.13e-86 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 294.06 E-value: 6.13e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 8 LMVAEKPSIALSIASVLSHGQ--MSTRRGSTEVHEFDGMFrgfkahyrVTSVIGHVFSVDFPEKYQNWATID--PQDLFD 83
Cdd:PRK14973 3 LIIAEKNIAANRIAQILAGKTkvQVKKDGGVSTYSFDDTV--------VVGLRGHVVEVDFEPGYTNWRSEEhtPRSLID 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 84 APIIKKESNPKahICRHLSNEARGCSYMVLWLDCDREGENI---CFEVIESTgfdmkDSKRKVYRARFSSVTEKDISKAM 160
Cdd:PRK14973 75 ADTIKKPTEKK--IVGLIQKLAKKADRVTIATDFDTEGELIgkeAYELVRAV-----NPKVPIDRARFSAITKEEIVTAF 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 161 DNLVEPNRDEALAVDARQEIDLKVGVAFSRFQTSYFQGKYQNldcrVISYGPCQTPTLGFCVQRYMHINTFKPEKFWALR 240
Cdd:PRK14973 148 AEPTDLDFALAAAGEARQIIDLIWGASLTRFISLAAHRGGDN----ILSVGRVQSPTLAMIVDREKEIEAFVPEKYWMLS 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 241 PYIRKDGYELQLEWERRRLFDLEAATVFQKLVVEgrTAKVMDVSEKQEVKGRPAGLNTVNLLkVASSALGFGPQTAMHLA 320
Cdd:PRK14973 224 LATEKDGEGIEARHTHGRFTDSAAAEAAYDATKE--PLVVTEVKEGHKVDRAPTPFDTTTFI-VAASRLGFSAANAMRIA 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 321 ERLYTQGFISYPRTESTAYPSSFDFTDTLrAQVSNPVWGGYVQRLLSDGFHMPKSGT-DAGDHPPITPMRAATEVMVGGD 399
Cdd:PRK14973 301 EDLYMNGYISYPRTDNTIYPKSLDLNGVL-ATLAKGAFSKDVAWVKDNRRPVPTRGKkSSTDHPPIHPTGVATREELGDD 379
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 400 AWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVDEKKLPSFLKGERIEVLRVELYE 479
Cdd:PRK14973 380 RWKLYELVVRRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVYPYSEAKENILPAFALGEKLPILAVNLEE 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 480 GNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVQvqsGRKMVPTALGITLIRGYQCIDPDLCLPDIRSFIE 559
Cdd:PRK14973 460 KETQPPARYSQSRLIQRMEELGLGTKSTRHEVIGKLVSRKYIE---GNPLRPTLVGRAVTESLEEHAGTITEPDMTQTLE 536
|
570
....*....|....*..
gi 42569543 560 QQITLVAKGQADHSHVV 576
Cdd:PRK14973 537 EHMQQIKERKRTRDDVV 553
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
8-588 |
1.94e-84 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 280.44 E-value: 1.94e-84
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 8 LMVAEKPSIALSIASVLSHGqmstrrgstevhefdgmfrgfkahYRVTSVIGHVfsVDFPEKYqnwATIDPQDLFdAP-- 85
Cdd:COG0550 3 LVIVESPAKAKTIAKYLGKD------------------------YVVTASVGHL--RDLPKPE---LDVDVENDF-EPky 52
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 86 -IIKKEsnpKAHIcRHLSNEARGCSYMVLWLDCDREGENICFEVIESTGfdmkdSKRKVYRARFSSVTEKDISKAMDNLV 164
Cdd:COG0550 53 eVIPGK---KKQV-KELKKLAKKADEVILATDPDREGEAIAWHLLELLG-----DKKPVKRVVFNEITKKAIKEAFKNPR 123
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 165 EpnRDEALaVDA---RQEIDLKVGVAFSRFQTSyfqgKYQNLdcrvISYGPCQTPTLGFCVQRYMHINTFKPEKFWALRP 241
Cdd:COG0550 124 D--IDMNL-VDAqqaRRILDRLVGYNLSPLLWK----KVKRG----LSAGRVQSPALRLIVEREREIEAFVPEEYWTIEA 192
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 242 YIRKDGYELQLEWERR---RLFDLEAATVFQKLVvEGRTAKVMDVsEKQEVKGRPAGL-NTVNLLKVASSALGFGPQTAM 317
Cdd:COG0550 193 TFKTGGGEFTAKLVKIdgkKILDEEEAEAILAAL-KGKTFTVTSV-EKKPKKRNPPPPfTTSTLQQEASRKLGFSAKKTM 270
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 318 HLAERLYTQGFISYPRTESTAYPSsfDFTDTLRAQVSNpvwgGYVQRLLSDGFHMPKSGTDA-GDHPPITPmraaTEVMV 396
Cdd:COG0550 271 SIAQRLYEVGLITYMRTDSVRLSE--DAVAAAREYIEA----LYGKEYLPEKPRVYKTSKNAqEAHEAIRP----TGVTR 340
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 397 G-----GDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMPWSAVD-----EKKLPSFLK 466
Cdd:COG0550 341 TpeslsGDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEGKDDeeeeeEKRLPPLKE 420
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 467 GERIEVLRVELYEGNTAPPDYLTESELISLMEKHGIG---TDASIavhINNIGERNYVQVQsGRKMVPTALGITLIRGYQ 543
Cdd:COG0550 421 GEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEELGIGrpsTYASI---IETLQDRGYVERE-GKRLVPTELGFIVIDLLE 496
|
570 580 590 600
....*....|....*....|....*....|....*....|....*
gi 42569543 544 CIDPDLCLPDIRSFIEQQITLVAKGQADhshvVQHVIQQFRRKFS 588
Cdd:COG0550 497 EHFPDLVDYEFTAKMEEKLDEIAEGKLD----WKDVLEEFYKPFK 537
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
285-538 |
1.34e-76 |
|
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: 249.86 E-value: 1.34e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 285 EKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLYTQGFISYPRTESTAYPSSFDFTDTLR-AQVSNPVWGGYVQ 363
Cdd:smart00437 2 EKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYiQKLYGKEYLDLAV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 364 RLLSDGFhmPKSGTDA-GDHPPITPMRAAT----EVMVGGDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCT 438
Cdd:smart00437 82 VLLKPRK--PRKGKKAqGAHEAIRPTKPIFtpelEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 439 GQRVTEKGFTAIMPW-SAVDEKKLPSFLKGERIEVLRVELYEGNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGE 517
Cdd:smart00437 160 GKTLLFDGWLKVYPEeKKEEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTYASIIETLLD 239
|
250 260
....*....|....*....|.
gi 42569543 518 RNYVQVQsGRKMVPTALGITL 538
Cdd:smart00437 240 RGYVTKK-KKKLIPTELGIAV 259
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
6-576 |
4.60e-76 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 261.08 E-value: 4.60e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 6 RVLMVAEKPSIALSIASVLSHGQMSTRRGSTEVHEFdgmFRGFKAhYRVTSVIGHVF-----SVDFPekyqnwatidpqd 80
Cdd:PRK05776 2 YILVIAEKPKAARKIAEALSEKPIRCRIYGVPYWIV---KRDGKK-IVVAPAAGHLFglhtkSKGFP------------- 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 81 LFDA---PIIKKESNpKAHICRH---LSNEARGCSYMVLWLDCDREGENICFEVIESTGfdmkdSKRKVYRARFSSVTEK 154
Cdd:PRK05776 65 VFDYewkPLYEIDKG-SKYTKKYyelLSSLSKYADEFINACDYDIEGSVIGYLIIKYLG-----DPKKAKRMKFSALTKS 138
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 155 DISKAMDNLVEPNRDEALAVDARQEIDLKVGVAFSRFQTSYFQ---GKyqnldcRVI-SYGPCQTPTLGFCVQRYMHINT 230
Cdd:PRK05776 139 DIRRAFRNLETLDYEMINAGIARHELDWLWGINVSRALMSSVRdasGK------RVIlSAGRVQSPTLKYVVEREIERNL 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 231 FKPEKFWALRPYIRKDGYELQLEWERRRLFDLEAATVFQKLVVEGRTAKVMDVSEKQEVKGRPAGLNTVNLLKVASSALG 310
Cdd:PRK05776 213 FVPLPYFSVSIIIEKNGYEFTLKYENKKFETKEEAKEILEEIKKTGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYG 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 311 FGPQTAMHLAERLYTQGFISYPRTESTAYPSSFDFTDTLRAQVSNPVWGGYVQRLLSD--GFHMPKSGT-DAGDHPPITP 387
Cdd:PRK05776 293 FSPYKTQSIAEDLYLDGLISYPRTNSQKLPPTLNIRNILKGLSRSPQYRPLVNLLLKEtkGVLKPVQGPkDDPAHPAIYP 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 388 mraaTEVMVGG---DAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGE--TFHCTGQRVTEKGFTAIMPWSAVDEKKLP 462
Cdd:PRK05776 373 ----TGEPPKNlskDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPGFplVFSASGQRIEERGWLKYYPFHKFDEEELP 448
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 463 SFLKGERIEVLRVELYEGNTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVqVQSGRKMVPTALGITLIRGY 542
Cdd:PRK05776 449 LLKKGERVKIVDVKVRKSYTKPPSRYSKASLLKWMESVGIGTEATRARIIETLFKRGYL-TSNGKYIEVTPLGFGVAEVL 527
|
570 580 590
....*....|....*....|....*....|....
gi 42569543 543 QCIDPDLCLPDIRSFIEQQITLVAKGQADHSHVV 576
Cdd:PRK05776 528 EKYFPDIVSVELTRDFEEKLEMIRTGKATREEVI 561
|
|
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
8-651 |
8.10e-59 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 212.72 E-value: 8.10e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 8 LMVAEKPSIALSIASVLSHgqmsTRRGstevhefDGMFRGfkAHYRVTSVIGHVFSVDFPE----KYQNWatidpqDLFD 83
Cdd:PRK07726 3 LFIAEKPSVGRDIADVLKP----HKKG-------DGYIEG--NGYIVTWAIGHLLELAEPEaydeRYKRW------RLED 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 84 APII--------KKESNPKAHICRHLSNEARGcsyMVLWLDCDREGENICFEVIESTGFdmkdsKRKVYRARFSSVTEKD 155
Cdd:PRK07726 64 LPIIpekwklvvKKKTAKQFNVVKKLLKQATE---IVIATDADREGELIAREILDYCGV-----RKPIKRLWISSLTDKA 135
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 156 ISKAMDNLvEPNRD------EALAvdaRQEIDLKVGVAFSR-FQTSYFQGKYQNldcrVISYGPCQTPTLGFCVQRYMHI 228
Cdd:PRK07726 136 IKRAFANL-KPGKEtiplyySALA---RSRADWLVGINMTRaYTLLGRKAGYNG----VLSVGRVQTPTLALVVRRDEEI 207
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 229 NTFKPEKFWALRPYIrKDGYELQLEW--------ERRRLFDLEAAtvfQKLV--VEGRTAKVMDVSEKQEVKGRPAGLNT 298
Cdd:PRK07726 208 ENFVPKPYWEVEAHL-TPGERFTAKWqpsepyqdEEGRLLDRPLA---EQVVarIQGQPAKVTEVETKRKKEYAPLLYDL 283
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 299 VNLLKVASSALGFGPQTAMHLAERLY-TQGFISYPRTESTAYPSSF--DFTDTLRAQVSNPVWGGYVQRLLSDGFHMpKS 375
Cdd:PRK07726 284 SELQIDANKRFGLSAKETLDIAQSLYeTHKLITYPRTDSRYLPEDMvaTLPEVLNAISKVDPYLLLAPPVLDPSIRS-RA 362
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 376 GTDA--GDHPPITPmraaTEVMV-----GGDAWRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFT 448
Cdd:PRK07726 363 WNDKkvTAHHAIIP----TEQPPnlsklSEDERKVYDLIARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWK 438
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 449 AIMPWSAVDEKK---LPSFLKGERIEVLRVELYEGNTAPPDYLTESELISLM-----------------EKHGIGTDASI 508
Cdd:PRK07726 439 ALLGKKEEDEEKeqpLPVLAKGDELKVEKGEVKEGQTQPPKRFTEGTLLSAMeniarfvqdkelkktlkETDGLGTEATR 518
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 509 AvhinNIGE----RNYVQVQsGRKMVPTALGITLIrgyQCIDPDLCLPDIRSFIEQQITLVAKGQADhshvVQHVIQQFR 584
Cdd:PRK07726 519 A----GIIEklfkRGYLEKK-GKYIHATDKGKQLI---DALPEELTSPDMTAKWEQALDQISEGQLS----YQDFMQPLK 586
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42569543 585 RKFSYFVQQIEHMDALFeaQFSPLadSGRALSKCGKCLRYMKhiTAVPPRLFCGTCEEVYYLP-QKGT 651
Cdd:PRK07726 587 QWLKQLVEQAKQSSEKY--KFDNL--TGPKCPDCGKPMLKVK--GKNGKMLVCQDRECGKRKNvSKKT 648
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
6-163 |
5.34e-51 |
|
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: 175.50 E-value: 5.34e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 6 RVLMVAEKPSIALSIASVLSHGQMSTRRGSTEVHEFDGmfrgfkAHYRVTSVIGHVFSVDFPEKYQNWATIDPQD--LFD 83
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGKGRYYEFYGEG------GGYVVTWASGHLLELDFPEEYDPWDKVWPLEdpLFP 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 84 APIIKKESNPKAHICRHLSNEARGCSYMVLWLDCDREGENICFEVIESTGfdmKDSKRKVYRARFSSVTEKDISKAMDNL 163
Cdd:cd03362 75 APFKLKVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAK---CVKRKPVKRAWFSSLTPKAIRRAFKNL 151
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
6-163 |
8.70e-44 |
|
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: 155.08 E-value: 8.70e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 6 RVLMVAEKPSIALSIASVLSHGQMSTRrgstevhefdgmFRGFKAHYRVTSVIGHVFSVDFPEKYQNWATIDPQDLFDAP 85
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKKKG------------FYGEGGGYVVTASVGHLLELPFPEEYVDWDKDWPLELFPFE 68
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 42569543 86 IIKKESNPKAHICRHLSNEARGCSYMVLWLDCDREGENICFEVIEstgfDMKDSKRKVYRARFSSVTEKDISKAMDNL 163
Cdd:cd01028 69 PKYVVIPDKKKQLKALKKLAKKADEIVLATDPDREGELIAWEILE----VLKCDNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
8-585 |
1.57e-37 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 151.74 E-value: 1.57e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 8 LMVAEKPSIALSIASVLShgqmstrrgstevhefdgmfrGFKAH--------YRVTSVIGHVFSVDFPE----KYQNWA- 74
Cdd:PRK08173 5 LIIAEKPSVANDIARALG---------------------GFTKHdeyfesdeYVLSSAVGHLLEIAAPEeyevKRGKWSf 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 75 ----TIDPQdlFD-APIIKKESNPKAhicrhLSNEARGCSYMVLWLDCD--REGENIcFEVIESTGFdmkdSKRKVYRAR 147
Cdd:PRK08173 64 ahlpVIPPH--FDlNPIAKTESRLKV-----LTKLIKRKDVTRLINACDagREGELI-FRLIAQHAK----AKKPVKRLW 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 148 FSSVTEKDISKAMDNL-----VEPNRDEALAvdaRQEIDLKVGVAFSRFQTSY--FQGKYQNLDC-RVisygpcQTPTLG 219
Cdd:PRK08173 132 LQSMTPQAIRDGFANLrsdedMQPLADAARC---RSEADWLVGINGTRAMTAFnsKGGGFFLTTVgRV------QTPTLS 202
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 220 FCVQRYMHINTFKPEKFWALR----------------PYIRKDGYELqlewERR--RLFDLEAA-TVFQKlvVEGRTAKV 280
Cdd:PRK08173 203 IVVEREEKIRRFVPRDYWEVRaefvaaagfyegrwfdPKFKKDEFDP----EKRasRLWSEAAAeAIVAA--CRGKPGTV 276
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 281 MDVSeKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLYTQ-GFISYPRTESTAYPSSFDFT--DTLRAQVSNPV 357
Cdd:PRK08173 277 TEES-KPSTQLSPLLFDLTSLQREANGRFGFSAKNTLGLAQALYEKhKVLTYPRTDSRALPEDYLGTvkQTLEMLKESNN 355
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 358 WGGYVQRLLSDGFHMPK----SGTDAGDHPPITPMRAATEVMVGGDAwRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGE 433
Cdd:PRK08173 356 YLPHAKQILDKGWVKPNkrifDNSKISDHFAIIPTLQAPKSLSEPEQ-KLYDLVVKRFLAVFFPAAEFLVTTRITEVAGH 434
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 434 TFHCTGQRVTEKGFTAIMPWSA-VDEKKLPSFLKGERIEVLRVELYEGNTAPPDYLTESELISLME-------------- 498
Cdd:PRK08173 435 HFKTEGKVLVNPGWLAVYGKEAqGADANLVPVQKGEKVKTDKIEAVALTTKPPARYNEATLLSAMEgagklveddelrea 514
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 499 --KHGIGTDASIAVHINNIGERNYVqVQSGRKMVPTALG---ITLIRGYQCidPDLCLPDIRSFIEQQITLVAKGQADHS 573
Cdd:PRK08173 515 maEKGLGTPATRAAIIEGLLGEKYL-VREGRELIPTAKAfqlMTLLRGLGV--EELTSPELTGEWEYKLSQIERGKLSRD 591
|
650
....*....|..
gi 42569543 574 HVVQHVIQQFRR 585
Cdd:PRK08173 592 AFMQEIAQMTQQ 603
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
52-535 |
1.69e-30 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 128.44 E-value: 1.69e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 52 YRVTSVIGHVfsVDFPEKYqnwATIDPQDLFdAP---IIKKesnpKAHICRHLSNEARGCSYMVLWLDCDREGENICFEV 128
Cdd:PRK06599 25 YKVLASFGHV--RDLPKKK---GGVDPDNDF-APkyeIIEG----KEKVVDALKKAAKKADAVYLATDPDREGEAIAWHI 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 129 IESTGFDMKDSKrKVYRARFSSVTEKDISKAMDNLVEPNRDEALAVDARQEIDLKVGvafsrFQTSYFQGKYQNldcRVI 208
Cdd:PRK06599 95 AEVLKEAKLKDK-NVKRVVFNEITKKAVQEAIENPRDIDMDLVDAQQARRALDYLVG-----FKLSPLLWKKVR---RGL 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 209 SYGPCQTPTLGFCVQRYMHINTFKPEKFWALRPYIRKDG---YELQL-EWERRRL--FDLEAATVFQKLV--VEGRTAKV 280
Cdd:PRK06599 166 SAGRVQSVALRLICEREDEIEAFIPQEYWTIEADLATSNgepFTAKLvEVNGKKLekFSITNEEQAKALVkaLEGQAYTV 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 281 MDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLY--------TQGFISYPRTESTAYpsSFDFTDTLRAq 352
Cdd:PRK06599 246 DKIEKKERKRNPPPPFITSTLQQEASRKLGFSAKKTMRIAQKLYegidlgegTVGLITYMRTDSVRL--SNEALDEARK- 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 353 vsnpvwggYVQRLLSDGFhMPKSGT----------DAgdHPPITPMRAA-TEVMVGG----DAWRLYQYVCQHFLGTVSP 417
Cdd:PRK06599 323 --------YITKKYGKEY-LPAKPRvykkksknaqEA--HEAIRPTSINrTPESLKPyltpDQFKLYELIWKRTVASQMA 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 418 NCKYIRTKVELS--IGGETFHCTGQRVTEKGFTAIMPWS-----AVDEKKLPSFLKGERIEVLRVELYEGNTAPPDYLTE 490
Cdd:PRK06599 392 PAILDQTSVDIAseNGKYVFRATGSVILFPGFLKVYGESkddeeEDDEKLLPPLKEGEKLKLDELLPEQHFTEPPPRYSE 471
|
490 500 510 520
....*....|....*....|....*....|....*....|....*...
gi 42569543 491 SELISLMEKHGIG---TDASIavhINNIGERNYVQVQsGRKMVPTALG 535
Cdd:PRK06599 472 ASLVKKLEEYGIGrpsTYASI---ISTLQDREYVELE-KKRFIPTDLG 515
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
52-535 |
4.43e-30 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 127.99 E-value: 4.43e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 52 YRVTSVIGHV-------FSVDFPEKYQNWAT--IDPQDLFDA--PIIKKesnpKAHICRHLSNEARGCSYMVLWLDCDRE 120
Cdd:PRK07561 24 YVVKASVGHIrdlptsaSSVPAKEKGALWARmgVDPDHDFEAlyEVLPG----KEKVVSELKKAAKDADELYLATDPDRE 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 121 GENICFEVIESTGFDMKDSKRKVyrarFSSVTEKDISKAMDNlvePnR--DEALaVDARQEidlkvgvafSRFqtsyfqg 198
Cdd:PRK07561 100 GEAIAWHLLEVLGGDDVPVKRVV----FNEITKNAIQEAFEN---P-RelDINL-VNAQQA---------RRF------- 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 199 kyqnLDcRVISY----------------GPCQTPTLGFCVQRYMHINTFKPEKFW---ALRPYIRKDGYELQL---EWER 256
Cdd:PRK07561 155 ----LD-RLVGYmvspllwkkiarglsaGRVQSVAVRLIVEREREIEAFVPEEYWdihADLTTPRGDAFEARLthlDGKK 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 257 RRLFDL--EAATVFQKLVVEGRTAKVMDVSEKqEVKGRP-AGLNTVNLLKVASSALGFGPQTAMHLAERLYTQGFISYPR 333
Cdd:PRK07561 230 FAPVDLlnEAQAEAAVAALEGARYSVASVEDK-PTTRKPsAPFTTSTLQQEASRKLGFSVKKTMRIAQRLYEAGYITYMR 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 334 TESTAYpsSFDFTDTLRAQVSNPvwggYVQRLLSDGfhmP-------KSGTDAgdHPPITP---MRAATEVM-VGGDAWR 402
Cdd:PRK07561 309 TDSTNL--SQEAINAARGYIGDN----YGKKYLPEK---PrqysskaKNAQEA--HEAIRPsdvFRTPDQLKgLEGDAQR 377
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 403 LYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCTGQRVTEKGFTAIMP-----WSAVDEKKLPSFLKGERIEVLRVEL 477
Cdd:PRK07561 378 LYELIWKRFVASQMAPARYDSTTVTIAAGDAELRATGRVLRFDGFLKVYVegrddALDDEDRRLPALKVGDALTLEKLDP 457
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 42569543 478 YEGNTAPPDYLTESELISLMEKHGIG---TDASIavhINNIGERNYVQVQsGRKMVPTALG 535
Cdd:PRK07561 458 TQHFTKPPARYSEASLVKELEKLGIGrpsTYASI---ISTIQDRGYVRLE-NRRFYPEKMG 514
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
5-579 |
3.13e-29 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 125.45 E-value: 3.13e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 5 LRVLMVAEKPSIALSIASVLShgqmsTRRGSTEVHefDGMFRgfKAHYRVTSVIGHVFSVDFPEKYQ---------NWAT 75
Cdd:PRK14724 1 TKTLVIAEKPSVAQDIVRALT-----PVAGKFEKH--DEHFE--SDSYVVTSAVGHLVEIQAPEEFDvkrgkwsfaNLPV 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 76 IDPQdlFD-APIIKKESNPKAHIcrhlsNEARGCSYMVLWLDCD--REGENIcFEVIESTGFDMKDSKRK-VYRARFSSV 151
Cdd:PRK14724 72 IPPY--FDlKPVDKTKTRLNAVV-----KLAKRKDVTELVNACDagREGELI-FRLIEQYAGGAKGGLGKpVKRLWLQSM 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 152 TEKDISKAMDNLVEPNRDEALAVDA--RQEIDLKVGVAFSRFQTSYfqgKYQNLDCRVISYGPCQTPTLGFCVQRYMHIN 229
Cdd:PRK14724 144 TPQAIRDGFDNLRSDAQMQGLASAArsRSEADWLVGINGTRAMTAF---NSRDGGFFLTTVGRVQTPTLSLVVEREEKIR 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 230 TFKPEKFWALR----------------PYIRK--DGYELQLE--WERRRLFDLEAAtvfqklvVEGRTAKVMDVSeKQEV 289
Cdd:PRK14724 221 KFVSRDYWEIHagfhaeageylgkwfdPQWKKasDDPEARADrvWSEREARAIADA-------VRGKAATVTEES-KPTT 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 290 KGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLYTQ-GFISYPRTESTAYPSsfDFTDTLRAQVSNPVWGG------YV 362
Cdd:PRK14724 293 QASPLLFDLTSLQREANGKFGFSAKTTLALAQSLYERhKALTYPRTDSRALPE--DYLPVAKQTFEMLATSGmrhlapFA 370
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 363 QRLLSDGFHMPKS----GTDAGDHPPITPMRAATEVMVGGDAwRLYQYVCQHFLGTVSPNCKYIRTKVELSIGGETFHCT 438
Cdd:PRK14724 371 QQALDGNYVRPSKrifdNSKVSDHFAIIPTTQAPSGLSEAEQ-KLYDLVVRRFMAVFFPSAEYQVTTRISQVVGHSFKTE 449
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 439 GQRVTEKGFTAIMPWSAVDE----------KKLPSFLKGERIEVLRVELYEGNTAPPDYLTESELISLME---------- 498
Cdd:PRK14724 450 GKVLVKPGWLAIYGKEAANEvedakdgdkgQPLVPVKPGEMVRTEFAEAKGLKTKPPARYSEATLLGAMEsagkqiddde 529
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 499 ------KHGIGTDASIAVHINNIGERNYVqVQSGRKMVPTALG---ITLIRGYQCidPDLCLPDIRSFIEQQITLVAKGQ 569
Cdd:PRK14724 530 lreamqEKGLGTPATRAAIIEGLLTEKYM-LREGRELIPTAKAfqlMTLLRGLGV--EELSRAELTGEWEYKLAQMEKGQ 606
|
650
....*....|
gi 42569543 570 ADHSHVVQHV 579
Cdd:PRK14724 607 LSREAFMQQI 616
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
143-237 |
4.10e-28 |
|
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: 108.44 E-value: 4.10e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 143 VYRARFSSVTEKDISKAMDNLVEPNRDEALAVDARQEIDLKVGVAFSRFQTSYFQGKyqnldcrVISYGPCQTPTLGFCV 222
Cdd:smart00436 1 IKRIEFSEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRNG-------VLSAGRVQTPTLGLIV 73
|
90
....*....|....*
gi 42569543 223 QRYMHINTFKPEKFW 237
Cdd:smart00436 74 EREREIKNFVPKPYW 88
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
52-535 |
9.11e-28 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 120.25 E-value: 9.11e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 52 YRVTSVIGHVFSVdFPEKyqnwATIDPQDLFD---APIIKKESNPKAhicrhLSNEARGCSYMVLWLDCDREGENICF-- 126
Cdd:PRK08780 25 FTVLASYGHVRDL-VPKE----GAVDPENGFAmryDLIDKNEKHVEA-----IAKAAKSADDLYLATDPDREGEAISWhl 94
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 127 -EVIESTGFdMKDskRKVYRARFSSVTEKDISKAMDNLVEPNRDEALAVDARQEIDLKVGVAFSRFQTSYFQgkyqnldc 205
Cdd:PRK08780 95 aEILKERGL-LKD--KPMQRVVFTEITPRAIKEAMAKPRDIASDLVDAQQARRALDYLVGFNLSPLLWRKIQ-------- 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 206 RVISYGPCQTPTLGFCVQRYMHINTFKPEKFWALRPYIRKDGYE-----LQLEWERRRLFDLEAATVFQKLVVEGRTA-- 278
Cdd:PRK08780 164 RGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAHPSQPfnaklIKLDGQKFEQFTITDGDTAEAARLRIQQAaq 243
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 279 ---KVMDVsEKQEVKGRPAG-LNTVNLLKVASSALGFGPQTAMHLAERLY---------TQGFISYPRTESTAYPSsfdf 345
Cdd:PRK08780 244 gtlHVTDV-ESKERKRNPAPpFTTSTLQQEASRKLGFTTRRTMQVAQKLYegvdlgdegSVGLITYMRTDSVNLSQ---- 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 346 tDTLrAQVSNPVWGGYVQRLLSDG--FHMPKSGTDAGDHPPITP---MRAATEV--MVGGDAWRLYQYV------CQHF- 411
Cdd:PRK08780 319 -DAL-AEIRDVIARDYGTASLPDQpnTYKTKSKNAQEAHEAVRPtsaLRTPAQVarFLSDDQRRLYELIwkravaCQMIp 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 412 --LGTVSpnckyirtkVELSIGGE-TFHCTGQRVTEKGFTAIM--------PWSAVDEKKLPSFLKGERIEVLRVELYEG 480
Cdd:PRK08780 397 atLNTVS---------VDLAAGSEhVFRATGSTVVVPGFLAVYeegkddksAEDEDEGRKLPPMKEGDNVPLERIRAEQH 467
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*
gi 42569543 481 NTAPPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVQVQsGRKMVPTALG 535
Cdd:PRK08780 468 FTEPPPRYTEASLVKALEEYGIGRPSTYASIISTLQFRKYVEME-GRRFRPTDVG 521
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
56-535 |
1.59e-19 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 94.12 E-value: 1.59e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 56 SVIGHVfsVDFPEKYQNwatIDPQDLF--DAPIIKKesnpKAHICRHLSNEARGCSYMVLWLDCDREGENICFEVIESTG 133
Cdd:PRK06319 29 SSLGHI--VDLPAKEFG---IDIENDFepDYQILPD----KEEVINKICKLAKKCDVVYLSPDPDREGEAIAWHIANQLP 99
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 134 fdmKDSKRKvyRARFSSVTEKDISKAMDNLVEPnrDEAL--AVDARQEIDLKVGVAFSRFQTSYFQGKyqnldcRVISYG 211
Cdd:PRK06319 100 ---KNTKIQ--RISFNAITKGAVTEALKHPREI--DMALvnAQQARRLLDRIVGYKISPILSRKLQRR------SGVSAG 166
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 212 PCQTPTLGFCVQRYMHINTFKPEKFWALRPYIrKDGYELQLEWErrRLFDLEAATvFQKLVVEGRTA------------- 278
Cdd:PRK06319 167 RVQSVALKLVVDREKAIEAFVPVEYWNIRVHL-KDPKTQKTFWA--HLYSVDGKK-WEKEIPEGKTEdevllinskekad 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 279 -----------KVMDVSEKQEVKGRPAGLNTVNLLKVASSALGFGPQTAMHLAERLY---------TQGFISYPRTESTA 338
Cdd:PRK06319 243 hivellesatyTVTRVESKEKRRNAYPPFITSTLQQEASRHFRFSSSRTMNIAQTLYegvdldsegATGLITYMRTDSVR 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 339 Y-PSSFDftdtlraQVSNPVWGGYVQRLLSDGFHM---PKSGTDAgdHPPITPMRAA-----TEVMVGGDAWRLYQYVCQ 409
Cdd:PRK06319 323 TdPEALK-------QVRKYIEGTFGKEFLPSSPNVyttKKMAQDA--HEAIRPTDITltpekLRSKLTEDQYKLYSLIWK 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 410 HFLGTVSPNCKYIRTKVELSIGGET-FHCTGQRVTEKGFTAIMPWSAVDEKK------LPSFLKGERIEVLRVELYEGNT 482
Cdd:PRK06319 394 RFVASQMIPAIYDTLAIRITTNKGIdLRATGSLLKFKGFLAVYEEKRDDEGDeeenihLPKLHEQDVLTKEELSAEQAFT 473
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|...
gi 42569543 483 APPDYLTESELISLMEKHGIGTDASIAVHINNIGERNYVqVQSGRKMVPTALG 535
Cdd:PRK06319 474 KPLPRFTEASLVKELEKSGIGRPSTYATIMNKIQSREYT-LKENQRLRPTELG 525
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
7-151 |
4.91e-09 |
|
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: 54.28 E-value: 4.91e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 7 VLMVAEKPSIALSIASVLSHGqmstrrgstevhefdgmfrgfkaHYRVTSVIGHVFSVDFPEKYQNWATIDPqdlfdapi 86
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGG-----------------------FQAVVAVLGHLLSLEKGPKKKALKALKE-------- 49
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 42569543 87 ikkesnpkahicrhlsnEARGCSYMVLWLDCDREGENICFEVIESTGFDmkdsKRKVYRARFSSV 151
Cdd:pfam01751 50 -----------------LALKAKEVILATDPDREGEAIALKLLELKELL----ENAGGRVEFSEL 93
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
6-130 |
3.63e-06 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 45.33 E-value: 3.63e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 6 RVLMVAEKPSIALSIASVLSHgqmstrrgstevhefdgmfrgfkaHYRVTSVIGHVFsvdfpekyqnwatidpqdlfdap 85
Cdd:smart00493 1 KVLIIVEGPADAIALEKAGGK------------------------RGNVVALGGHLL----------------------- 33
|
90 100 110 120
....*....|....*....|....*....|....*....|....*
gi 42569543 86 iikkesnpKAHICRHLSNEARGCsYMVLWLDCDREGENICFEVIE 130
Cdd:smart00493 34 --------SKEQIKLLKKLAKKA-EVILATDPDREGEAIAWELAE 69
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
6-148 |
1.00e-04 |
|
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: 41.64 E-value: 1.00e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 42569543 6 RVLMVAEKPSIALSIASVLSHGqmstrrgstevhefdgmfrgfkahYRVTSVIGHVFsvdfpekyqnwatidpqdlfdap 85
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGGYG------------------------GAVVALGGHAL----------------------- 33
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 42569543 86 iikkesnpkAHICRHLSNEARGCSYMVLWLDCDREGENICFEVIEStgfdMKDSKRKVYRARF 148
Cdd:cd00188 34 ---------NKTRELLKRLLGEAKEVIIATDADREGEAIALRLLEL----LKSLGKKVRRLLL 83
|
|
| |
