|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
3-650 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 564.02 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSIKNRTKSYIEldrcstfPAGAFLTWGIGHLIQLK----YPKEYKQpintWDLNNLPFLPTC 78
Cdd:PRK07726 2 RLFIAEKPSVGRDIADVLKPHKKGDGYIE-------GNGYIVTWAIGHLLELAepeaYDERYKR----WRLEDLPIIPEK 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 79 FEYKVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRnKEIKRLWINSLEKEEIKKGFNQLKDNRKD 158
Cdd:PRK07726 71 WKLVVKKKTAKQFNVVKKLLKQATEIVIATDADREGELIAREILDYCGVR-KPIKRLWISSLTDKAIKRAFANLKPGKET 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 159 VLMFQEAKARMLSDYLIGMNLSPLYSIKLSKiADFNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCsKDSQQ 238
Cdd:PRK07726 150 IPLYYSALARSRADWLVGINMTRAYTLLGRK-AGYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHL-TPGER 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 239 FTAKMKLKE---------KDKAIVDKIFEDIKLKDyATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQ 309
Cdd:PRK07726 228 FTAKWQPSEpyqdeegrlLDRPLAEQVVARIQGQP-AKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQ 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 310 KLYE-LKLVSYPRTDCQYITEQEFQYLDQNLESYLNMFNISSELID--NRSMRKRFVNNSAVQEHYAIILT-KTADVEKv 385
Cdd:PRK07726 307 SLYEtHKLITYPRTDSRYLPEDMVATLPEVLNAISKVDPYLLLAPPvlDPSIRSRAWNDKKVTAHHAIIPTeQPPNLSK- 385
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 386 nmLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNQK---ENTESILPEMNIGEMI 462
Cdd:PRK07726 386 --LSEDERKVYDLIARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKeedEEKEQPLPVLAKGDEL 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 463 KAKPF-IYEGMTQPPSLYTEGQLINLMKNCGKLLEDED-TEILKEVEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDK 540
Cdd:PRK07726 464 KVEKGeVKEGQTQPPKRFTEGTLLSAMENIARFVQDKElKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDK 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 541 GRLLARSVqGTLLSSPEMTAKWEASLKKISSEEQTLDNFI---KNTIKYILHQIKQIDSDFKKNQLVDNKgqsvvkiddp 617
Cdd:PRK07726 544 GKQLIDAL-PEELTSPDMTAKWEQALDQISEGQLSYQDFMqplKQWLKQLVEQAKQSSEKYKFDNLTGPK---------- 612
|
650 660 670
....*....|....*....|....*....|...
gi 1081115590 618 nvigdCPKCKeSVVKKIKGKKGVFYACQNKKCK 650
Cdd:PRK07726 613 -----CPDCG-KPMLKVKGKNGKMLVCQDRECG 639
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
3-594 |
4.71e-149 |
|
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase III from bacteria and its equivalents encoded on plasmids. The gene is designated topB if found in the bacterial chromosome, traE on conjugative plasmid RP4, etc. These enzymes are involved in the control of DNA topology. DNA topoisomerase III belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273419 [Multi-domain] Cd Length: 660 Bit Score: 448.91 E-value: 4.71e-149
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSIKNRTKSYIELDrcstfpAGAFLTWGIGHLIQLKYPKEYKQPINTWDLNNLPFLPTCFEYK 82
Cdd:TIGR01056 2 TLVLCEKPSQARDLATVLAKKKKGNGYLEIG------VGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLV 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 83 VDSKKYAQYNTVKEL--CMKADTIINACDVDREGSNIFYLILEHAGIRNKE-IKRLWINSLEKEEIKKGFNQLKDNRKDV 159
Cdd:TIGR01056 76 VSDKTKKQFNVIKRIlkENKVDEVVIATDPDREGELIAREILDYLKVTDKVtIKRLWISSLVDSSIRKAFKNLRPKSETE 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 160 LMFQEAKARMLSDYLIGMNLSPLYSIkLSKIADFNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKDSQQF 239
Cdd:TIGR01056 156 GLYKSGVARARADWLVGINLTRAFTK-LGREAGNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSATINKDEQEF 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 240 TAKM---KLKEKD---KAIVDKIFEDIKLKDyATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYE 313
Cdd:TIGR01056 235 TTEWqpyKDEEERelhEFLAENVVTDLTQKP-ALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYE 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 314 -LKLVSYPRTDCQYITEQEFQYLDQNLESYL----NMFNISSELIDnrsMRKRFVNNSAVQEHYAIILTKTADVekVNML 388
Cdd:TIGR01056 314 tHKLITYPRTDSRYLPEDEKEMLLEVLDALKvitpALLPIKKRDEL---TNNRLWNDKKIEDHHAIIPTGNDFN--LSDL 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 389 SDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNQK----ENTESILPEMNIGEMIKA 464
Cdd:TIGR01056 389 SEEERNVYKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALLGKQeedeETEDTTLPAFQKGDELDV 468
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 465 KPF-IYEGMTQPPSLYTEGQLINLMKNCGKLLEDED-TEILKEVEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGR 542
Cdd:TIGR01056 469 ETLeLLEKQTKPPARYTEGTLLSAMTNPAAFVQDKGlKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGK 548
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|..
gi 1081115590 543 LLARSVQGTlLSSPEMTAKWEASLKKISSEEQTLDNFIKNTIKYILHQIKQI 594
Cdd:TIGR01056 549 LLCLLLPEL-LTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEE 599
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
3-592 |
3.24e-142 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 427.20 E-value: 3.24e-142
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSiknrtKSYIeldrcstfpagafLTWGIGHLIQLKYPKEYKQPINTwdlnnlpFLPtcfEYK 82
Cdd:COG0550 2 KLVIVESPAKAKTIAKYLG-----KDYV-------------VTASVGHLRDLPKPELDVDVEND-------FEP---KYE 53
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 83 VDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIrNKEIKRLWINSLEKEEIKKGFNQLKDNRKDvlMF 162
Cdd:COG0550 54 VIPGKKKQVKELKKLAKKADEVILATDPDREGEAIAWHLLELLGD-KKPVKRVVFNEITKKAIKEAFKNPRDIDMN--LV 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 163 QEAKARMLSDYLIGMNLSPLYSIKLSKiadfntifG--VGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKDSQQFT 240
Cdd:COG0550 131 DAQQARRILDRLVGYNLSPLLWKKVKR--------GlsAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFKTGGGEFT 202
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 241 AKM-KLKEK---DKAIVDKIFEDIKLKDYaTVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYELKL 316
Cdd:COG0550 203 AKLvKIDGKkilDEEEAEAILAALKGKTF-TVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEVGL 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 317 VSYPRTDCQYITEQEFQYLDQNLES-----YLnmfnisselidnrSMRKRFVN--NSAVQEHYAIIltKTADVEKVNMLS 389
Cdd:COG0550 282 ITYMRTDSVRLSEDAVAAAREYIEAlygkeYL-------------PEKPRVYKtsKNAQEAHEAIR--PTGVTRTPESLS 346
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 390 DKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFN-----QKENTESILPEMNIGEMIKA 464
Cdd:COG0550 347 GDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGegkddEEEEEEKRLPPLKEGEKLKL 426
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 465 KPFIYE-GMTQPPSLYTEGQLINLMKNcgkllededteilkevEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRL 543
Cdd:COG0550 427 KKIEPEqHFTKPPPRYTEASLVKAMEE----------------LGIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFI 490
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|.
gi 1081115590 544 LARSVQGTL--LSSPEMTAKWEASLKKISSEEQTLDNFIKNTIKYILHQIK 592
Cdd:COG0550 491 VIDLLEEHFpdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
156-581 |
1.75e-110 |
|
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: 340.37 E-value: 1.75e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 156 RKDVLMFQEAKARMLSDYLIGMNLSPLYSIKLSKiadfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKD 235
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKG----NKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 236 SQQFTAKMKLKEK--DKAIVDKIFEDIKlKDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYE 313
Cdd:pfam01131 77 GGVFANAKWKRGRifDKEEAEAILEKLK-KGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYE 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 314 -LKLVSYPRTDCQYITEqEF------QYLDQNLESYLNmfniSSELIDNRSMRKRFVNNSAVQEHYAIILTKtaDVEKVN 386
Cdd:pfam01131 156 kHGLITYPRTDSTYLSD-DAtlkailEYLTKNYGKYLP----YAPRLLKKTKGKLTVGNAKVTAHEAIRPTG--DIPVLP 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 387 MLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFN-QKENTESILPEMNIGEMIK-A 464
Cdd:pfam01131 229 ELSDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPyEKKEDEEELPELKEGEELKvT 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 465 KPFIYEGMTQPPSLYTEGQLINLMKNCgkllededteilkeveGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLL 544
Cdd:pfam01131 309 QVEVEEKKTKPPPRYTEASLIKAMEKA----------------GIGTPATRATIIETLLERGYVERKKKSLVPTELGKAL 372
|
410 420 430
....*....|....*....|....*....|....*...
gi 1081115590 545 ARSVQGTL-LSSPEMTAKWEASLKKISSEEQTLDNFIK 581
Cdd:pfam01131 373 VEALEKFPdLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
163-591 |
2.48e-91 |
|
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: 289.89 E-value: 2.48e-91
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 163 QEAKARMLSDYLIGMNLSPLYSIKLSKiadfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVhadcskdsqqftak 242
Cdd:cd00186 5 NAQLARRILDRLVGFNLSRLLTKKLRR----KGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEI-------------- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 243 mklkekdkaivdkifediklkDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYELKLVSYPRT 322
Cdd:cd00186 67 ---------------------KEAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGLITYPRT 125
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 323 DCQYITEQEFQYLDQNLESYLNMFNISSELIDNRSMRKRfvNNSAVQEHYAIILTKTADVEKV-NMLSDKERNIYEEIYN 401
Cdd:cd00186 126 DSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGRRNPKR--GKKEQGAHEAIRPTKVAPTPELeANLSEDEFKLYELIWR 203
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 402 TTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFN-QKENTESILPEMNIGEMIK-AKPFIYEGMTQPPSLY 479
Cdd:cd00186 204 RFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPeEKDDEEEEPPPLKEGDELKlEEVELEEKETQPPPRY 283
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 480 TEGQLINLMKNcgkllededteilkevEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLLARSVQGT--LLSSPE 557
Cdd:cd00186 284 TEASLIKLMEK----------------RGIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAVIELLEKHfpELVDPE 347
|
410 420 430
....*....|....*....|....*....|....
gi 1081115590 558 MTAKWEASLKKISSEEQTLDNFIKNTIKYILHQI 591
Cdd:cd00186 348 FTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
272-544 |
4.48e-58 |
|
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: 197.47 E-value: 4.48e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 272 KRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYELKLVSYPRTDCQYITEQEFQYLDQNLESYLNMFNISSE 351
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKLYGKEYLDLA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 352 LIDnRSMRKRFVNNSAVQEHYAIILTKTADV-EKVNMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSR 430
Cdd:smart00437 81 VVL-LKPRKPRKGKKAQGAHEAIRPTKPIFTpELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 431 GKVDKQLGWKELFN-QKENTESILPEMNIGEMIK-AKPFIYEGMTQPPSLYTEGQLINLMKNcgkllededteilkevEG 508
Cdd:smart00437 160 GKTLLFDGWLKVYPeEKKEEEIELPTLKKGDELKvEEVEVEEKETKPPARYTEASLIKLMEK----------------RG 223
|
250 260 270
....*....|....*....|....*....|....*.
gi 1081115590 509 IGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLL 544
Cdd:smart00437 224 IGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| Toprim_Crpt |
pfam13342 |
C-terminal repeat of topoisomerase; |
648-708 |
7.71e-16 |
|
C-terminal repeat of topoisomerase;
Pssm-ID: 463851 [Multi-domain] Cd Length: 60 Bit Score: 72.13 E-value: 7.71e-16
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1081115590 648 KCKFVIFKNIFGKNISTTVVKELINHGRTKhKVKGFVSKKGKTYDAFVKLNNDYKVTLFFD 708
Cdd:pfam13342 1 GCGFSIGKTIAGKKLSEEQVKELLTKGKTG-LIKGFKSKKGKKFDAYLVLDDDEKVEFDFE 60
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
3-650 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 564.02 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSIKNRTKSYIEldrcstfPAGAFLTWGIGHLIQLK----YPKEYKQpintWDLNNLPFLPTC 78
Cdd:PRK07726 2 RLFIAEKPSVGRDIADVLKPHKKGDGYIE-------GNGYIVTWAIGHLLELAepeaYDERYKR----WRLEDLPIIPEK 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 79 FEYKVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRnKEIKRLWINSLEKEEIKKGFNQLKDNRKD 158
Cdd:PRK07726 71 WKLVVKKKTAKQFNVVKKLLKQATEIVIATDADREGELIAREILDYCGVR-KPIKRLWISSLTDKAIKRAFANLKPGKET 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 159 VLMFQEAKARMLSDYLIGMNLSPLYSIKLSKiADFNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCsKDSQQ 238
Cdd:PRK07726 150 IPLYYSALARSRADWLVGINMTRAYTLLGRK-AGYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHL-TPGER 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 239 FTAKMKLKE---------KDKAIVDKIFEDIKLKDyATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQ 309
Cdd:PRK07726 228 FTAKWQPSEpyqdeegrlLDRPLAEQVVARIQGQP-AKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQ 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 310 KLYE-LKLVSYPRTDCQYITEQEFQYLDQNLESYLNMFNISSELID--NRSMRKRFVNNSAVQEHYAIILT-KTADVEKv 385
Cdd:PRK07726 307 SLYEtHKLITYPRTDSRYLPEDMVATLPEVLNAISKVDPYLLLAPPvlDPSIRSRAWNDKKVTAHHAIIPTeQPPNLSK- 385
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 386 nmLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNQK---ENTESILPEMNIGEMI 462
Cdd:PRK07726 386 --LSEDERKVYDLIARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKeedEEKEQPLPVLAKGDEL 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 463 KAKPF-IYEGMTQPPSLYTEGQLINLMKNCGKLLEDED-TEILKEVEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDK 540
Cdd:PRK07726 464 KVEKGeVKEGQTQPPKRFTEGTLLSAMENIARFVQDKElKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDK 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 541 GRLLARSVqGTLLSSPEMTAKWEASLKKISSEEQTLDNFI---KNTIKYILHQIKQIDSDFKKNQLVDNKgqsvvkiddp 617
Cdd:PRK07726 544 GKQLIDAL-PEELTSPDMTAKWEQALDQISEGQLSYQDFMqplKQWLKQLVEQAKQSSEKYKFDNLTGPK---------- 612
|
650 660 670
....*....|....*....|....*....|...
gi 1081115590 618 nvigdCPKCKeSVVKKIKGKKGVFYACQNKKCK 650
Cdd:PRK07726 613 -----CPDCG-KPMLKVKGKNGKMLVCQDRECG 639
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
3-594 |
4.71e-149 |
|
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase III from bacteria and its equivalents encoded on plasmids. The gene is designated topB if found in the bacterial chromosome, traE on conjugative plasmid RP4, etc. These enzymes are involved in the control of DNA topology. DNA topoisomerase III belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273419 [Multi-domain] Cd Length: 660 Bit Score: 448.91 E-value: 4.71e-149
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSIKNRTKSYIELDrcstfpAGAFLTWGIGHLIQLKYPKEYKQPINTWDLNNLPFLPTCFEYK 82
Cdd:TIGR01056 2 TLVLCEKPSQARDLATVLAKKKKGNGYLEIG------VGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLV 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 83 VDSKKYAQYNTVKEL--CMKADTIINACDVDREGSNIFYLILEHAGIRNKE-IKRLWINSLEKEEIKKGFNQLKDNRKDV 159
Cdd:TIGR01056 76 VSDKTKKQFNVIKRIlkENKVDEVVIATDPDREGELIAREILDYLKVTDKVtIKRLWISSLVDSSIRKAFKNLRPKSETE 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 160 LMFQEAKARMLSDYLIGMNLSPLYSIkLSKIADFNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKDSQQF 239
Cdd:TIGR01056 156 GLYKSGVARARADWLVGINLTRAFTK-LGREAGNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSATINKDEQEF 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 240 TAKM---KLKEKD---KAIVDKIFEDIKLKDyATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYE 313
Cdd:TIGR01056 235 TTEWqpyKDEEERelhEFLAENVVTDLTQKP-ALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYE 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 314 -LKLVSYPRTDCQYITEQEFQYLDQNLESYL----NMFNISSELIDnrsMRKRFVNNSAVQEHYAIILTKTADVekVNML 388
Cdd:TIGR01056 314 tHKLITYPRTDSRYLPEDEKEMLLEVLDALKvitpALLPIKKRDEL---TNNRLWNDKKIEDHHAIIPTGNDFN--LSDL 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 389 SDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNQK----ENTESILPEMNIGEMIKA 464
Cdd:TIGR01056 389 SEEERNVYKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALLGKQeedeETEDTTLPAFQKGDELDV 468
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 465 KPF-IYEGMTQPPSLYTEGQLINLMKNCGKLLEDED-TEILKEVEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGR 542
Cdd:TIGR01056 469 ETLeLLEKQTKPPARYTEGTLLSAMTNPAAFVQDKGlKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGK 548
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|..
gi 1081115590 543 LLARSVQGTlLSSPEMTAKWEASLKKISSEEQTLDNFIKNTIKYILHQIKQI 594
Cdd:TIGR01056 549 LLCLLLPEL-LTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEE 599
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
3-592 |
3.24e-142 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 427.20 E-value: 3.24e-142
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSiknrtKSYIeldrcstfpagafLTWGIGHLIQLKYPKEYKQPINTwdlnnlpFLPtcfEYK 82
Cdd:COG0550 2 KLVIVESPAKAKTIAKYLG-----KDYV-------------VTASVGHLRDLPKPELDVDVEND-------FEP---KYE 53
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 83 VDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIrNKEIKRLWINSLEKEEIKKGFNQLKDNRKDvlMF 162
Cdd:COG0550 54 VIPGKKKQVKELKKLAKKADEVILATDPDREGEAIAWHLLELLGD-KKPVKRVVFNEITKKAIKEAFKNPRDIDMN--LV 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 163 QEAKARMLSDYLIGMNLSPLYSIKLSKiadfntifG--VGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKDSQQFT 240
Cdd:COG0550 131 DAQQARRILDRLVGYNLSPLLWKKVKR--------GlsAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFKTGGGEFT 202
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 241 AKM-KLKEK---DKAIVDKIFEDIKLKDYaTVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYELKL 316
Cdd:COG0550 203 AKLvKIDGKkilDEEEAEAILAALKGKTF-TVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEVGL 281
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 317 VSYPRTDCQYITEQEFQYLDQNLES-----YLnmfnisselidnrSMRKRFVN--NSAVQEHYAIIltKTADVEKVNMLS 389
Cdd:COG0550 282 ITYMRTDSVRLSEDAVAAAREYIEAlygkeYL-------------PEKPRVYKtsKNAQEAHEAIR--PTGVTRTPESLS 346
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 390 DKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFN-----QKENTESILPEMNIGEMIKA 464
Cdd:COG0550 347 GDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGegkddEEEEEEKRLPPLKEGEKLKL 426
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 465 KPFIYE-GMTQPPSLYTEGQLINLMKNcgkllededteilkevEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRL 543
Cdd:COG0550 427 KKIEPEqHFTKPPPRYTEASLVKAMEE----------------LGIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFI 490
|
570 580 590 600 610
....*....|....*....|....*....|....*....|....*....|.
gi 1081115590 544 LARSVQGTL--LSSPEMTAKWEASLKKISSEEQTLDNFIKNTIKYILHQIK 592
Cdd:COG0550 491 VIDLLEEHFpdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
156-581 |
1.75e-110 |
|
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: 340.37 E-value: 1.75e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 156 RKDVLMFQEAKARMLSDYLIGMNLSPLYSIKLSKiadfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKD 235
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKG----NKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDG 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 236 SQQFTAKMKLKEK--DKAIVDKIFEDIKlKDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYE 313
Cdd:pfam01131 77 GGVFANAKWKRGRifDKEEAEAILEKLK-KGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYE 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 314 -LKLVSYPRTDCQYITEqEF------QYLDQNLESYLNmfniSSELIDNRSMRKRFVNNSAVQEHYAIILTKtaDVEKVN 386
Cdd:pfam01131 156 kHGLITYPRTDSTYLSD-DAtlkailEYLTKNYGKYLP----YAPRLLKKTKGKLTVGNAKVTAHEAIRPTG--DIPVLP 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 387 MLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFN-QKENTESILPEMNIGEMIK-A 464
Cdd:pfam01131 229 ELSDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPyEKKEDEEELPELKEGEELKvT 308
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 465 KPFIYEGMTQPPSLYTEGQLINLMKNCgkllededteilkeveGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLL 544
Cdd:pfam01131 309 QVEVEEKKTKPPPRYTEASLIKAMEKA----------------GIGTPATRATIIETLLERGYVERKKKSLVPTELGKAL 372
|
410 420 430
....*....|....*....|....*....|....*...
gi 1081115590 545 ARSVQGTL-LSSPEMTAKWEASLKKISSEEQTLDNFIK 581
Cdd:pfam01131 373 VEALEKFPdLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
3-712 |
4.37e-97 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 318.92 E-value: 4.37e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSIKNRTKSYIELDRcstfpagAFLTWGIGHLIQLKYPKEYKQPINTWDLNNLPFLPTCFEYK 82
Cdd:PRK08173 4 ALIIAEKPSVANDIARALGGFTKHDEYFESDE-------YVLSSAVGHLLEIAAPEEYEVKRGKWSFAHLPVIPPHFDLN 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 83 VDSKKYAQYNTVKELCMKAD--TIINACDVDREGSNIFYLILEHAGIrNKEIKRLWINSLEKEEIKKGFNQLKDNRKDVL 160
Cdd:PRK08173 77 PIAKTESRLKVLTKLIKRKDvtRLINACDAGREGELIFRLIAQHAKA-KKPVKRLWLQSMTPQAIRDGFANLRSDEDMQP 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 161 MFQEAKARMLSDYLIGMNLSPLYSIKLSKIADFNtIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHAD--CSKDSQQ 238
Cdd:PRK08173 156 LADAARCRSEADWLVGINGTRAMTAFNSKGGGFF-LTTVGRVQTPTLSIVVEREEKIRRFVPRDYWEVRAEfvAAAGFYE 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 239 ---FTAKMKLKEKD-KAIVDKIF-----EDIKLK---DYATVKDIKRTQKQKqAPKLHSLSTLQTKANKLWRYSPKETLA 306
Cdd:PRK08173 235 grwFDPKFKKDEFDpEKRASRLWseaaaEAIVAAcrgKPGTVTEESKPSTQL-SPLLFDLTSLQREANGRFGFSAKNTLG 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 307 IVQKLYEL-KLVSYPRTDCQYITEqefQYLD------QNLESYLNMFNISSELIDNRSMR--KRFVNNSAVQEHYAIILT 377
Cdd:PRK08173 314 LAQALYEKhKVLTYPRTDSRALPE---DYLGtvkqtlEMLKESNNYLPHAKQILDKGWVKpnKRIFDNSKISDHFAIIPT 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 378 KTADvekvNMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNqKENT--ESILPE 455
Cdd:PRK08173 391 LQAP----KSLSEPEQKLYDLVVKRFLAVFFPAAEFLVTTRITEVAGHHFKTEGKVLVNPGWLAVYG-KEAQgaDANLVP 465
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 456 MNIGEMIKAKPFIYEGM-TQPPSLYTEGQLINLMKNCGKLLEDED-TEILKEvEGIGTEATRADVIEKLKHHDYITTKKN 533
Cdd:PRK08173 466 VQKGEKVKTDKIEAVALtTKPPARYNEATLLSAMEGAGKLVEDDElREAMAE-KGLGTPATRAAIIEGLLGEKYLVREGR 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 534 QVMLTDKGR---LLARSVQGTLLSSPEMTAKWEASLKKISSEEQTLDNF---IKNTIKYILHQIKQIDSDfkknqlvdnk 607
Cdd:PRK08173 545 ELIPTAKAFqlmTLLRGLGVEELTSPELTGEWEYKLSQIERGKLSRDAFmqeIAQMTQQIVKRAKEYDSD---------- 614
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 608 gqsvvkiddpNVIGD-------CPKC----KESVVKkikgkkgvfYACQnkKCKFVIFKNIFGKNISTTVVKELInhgrT 676
Cdd:PRK08173 615 ----------TIPGDyatlqtpCPNCggvvKENYRR---------FACT--KCDFSISKIPGGRQFEIAEVEELL----R 669
|
730 740 750 760
....*....|....*....|....*....|....*....|..
gi 1081115590 677 KHKV---KGFVSKKGKTYDAFVKLN---NDYKVTLFFDNKEG 712
Cdd:PRK08173 670 KKEIgplSGFRSKMGRPFSAILKLSdetKNYKLEFDFGQDQG 711
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
163-591 |
2.48e-91 |
|
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: 289.89 E-value: 2.48e-91
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 163 QEAKARMLSDYLIGMNLSPLYSIKLSKiadfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVhadcskdsqqftak 242
Cdd:cd00186 5 NAQLARRILDRLVGFNLSRLLTKKLRR----KGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEI-------------- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 243 mklkekdkaivdkifediklkDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYELKLVSYPRT 322
Cdd:cd00186 67 ---------------------KEAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGLITYPRT 125
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 323 DCQYITEQEFQYLDQNLESYLNMFNISSELIDNRSMRKRfvNNSAVQEHYAIILTKTADVEKV-NMLSDKERNIYEEIYN 401
Cdd:cd00186 126 DSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGRRNPKR--GKKEQGAHEAIRPTKVAPTPELeANLSEDEFKLYELIWR 203
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 402 TTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFN-QKENTESILPEMNIGEMIK-AKPFIYEGMTQPPSLY 479
Cdd:cd00186 204 RFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPeEKDDEEEEPPPLKEGDELKlEEVELEEKETQPPPRY 283
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 480 TEGQLINLMKNcgkllededteilkevEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLLARSVQGT--LLSSPE 557
Cdd:cd00186 284 TEASLIKLMEK----------------RGIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAVIELLEKHfpELVDPE 347
|
410 420 430
....*....|....*....|....*....|....
gi 1081115590 558 MTAKWEASLKKISSEEQTLDNFIKNTIKYILHQI 591
Cdd:cd00186 348 FTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
2-626 |
2.31e-86 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 289.21 E-value: 2.31e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 2 TTVIVAEKPSQAKAYAEAFSIKNRTK------SYIEL--DRCSTFPAGAfltwgIGHLIQLKYPKEYkqpiNTWDLNNLP 73
Cdd:PRK07219 1 TELIIAEKNNAARRIADILSGGKAKKkrvngvPYYEFerKGEKWIVIGL-----SGHIVTVDFPEEY----GDWRDVDPA 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 74 FLP-TCFEYKVDSKKYaqYNTVKELCMKADTIINACDVDREGSNI---FYLILEHAGirNKEIKRLWINSLEKEEIKKGF 149
Cdd:PRK07219 72 ELIdADPVKKITKQNY--INALKKLAKDADEIIIATDYDREGELIgkeAYHILREVC--QVPVKRARFSSLTKKEIRKAF 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 150 NQLKDnrKDVLMFQEAKARMLSDYLIGMNLSPLYSIKLSKIADFNTIfGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVH 229
Cdd:PRK07219 148 ENPDE--IDFNLADAGEARQIIDLYWGAALTRFLSLSVRQLGRWDFL-SVGRVQTPTLAFIVDREREIRAFDPEDYWKIE 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 230 ADCSKDSQQF-------TAKMKLKEKDKAivDKIFEDIKLKDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPK 302
Cdd:PRK07219 225 ALLDKEAQYFyrdliggHEAEKFWDEEEA--EEIYEKLKGAKEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPK 302
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 303 ETLAIVQKLYELKLVSYPRTDCQYITEqefqylDQNLESYLNMFNISS------ELIDNRSMRKRFVNNSAVQEHYAIIL 376
Cdd:PRK07219 303 RAMEIAEKLYTAGYISYPRTDNTVYPD------DLDPKELLKKLSKKKeygpyaESILEQENIKPTEGKKETTDHPPIHP 376
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 377 TKTADVEKvnmLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNQKENTESILPEM 456
Cdd:PRK07219 377 VDVPKREE---LSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDL 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 457 NIGEMIKAKPF-IYEGMTQPPSLYTEGQLINLMkncgkllededteilkEVEGIGTEATRADVIEKLKHHDYItTKKNQV 535
Cdd:PRK07219 454 EEGEKLKVNKIeIEAKETQPPKRYTQSSLIKEM----------------EKRGLGTKATRHDIIEKLYKRGYV-IEGDPP 516
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 536 MLTDKGRLLARSVQGT--LLSSPEMTAKWEASLKKISSEEQTLDNFIKNTIKyilhQIKQIDSDFKKNQlvDNKGQSVVK 613
Cdd:PRK07219 517 RPTDLGIAVIEALEKYapEIVSEEMTAQLEADMQAIEDGKKKKEDVTEESRE----MLKEILSELKEKR--KEIGDHLAG 590
|
650
....*....|....*...
gi 1081115590 614 -IDDPNV----IGDCPKC 626
Cdd:PRK07219 591 sLKAENRslktIGKCPEC 608
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
1-712 |
1.26e-78 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 271.06 E-value: 1.26e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 1 MTTVIVAEKPSQAKAYAEAFSIK----NRTKSYIELDRcstfpagAFLTWGIGHLIQLKYPKEYKQPINTWDLNNLPFLP 76
Cdd:PRK14724 1 TKTLVIAEKPSVAQDIVRALTPVagkfEKHDEHFESDS-------YVVTSAVGHLVEIQAPEEFDVKRGKWSFANLPVIP 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 77 TCFEYKVDSKKYAQYNTVKELCMKADT--IINACDVDREGSNIFYLILEHAGIR----NKEIKRLWINSLEKEEIKKGFN 150
Cdd:PRK14724 74 PYFDLKPVDKTKTRLNAVVKLAKRKDVteLVNACDAGREGELIFRLIEQYAGGAkgglGKPVKRLWLQSMTPQAIRDGFD 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 151 QLKDNRKDVLMFQEAKARMLSDYLIGMNLSPLYSIKLSKIADFnTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHA 230
Cdd:PRK14724 154 NLRSDAQMQGLASAARSRSEADWLVGINGTRAMTAFNSRDGGF-FLTTVGRVQTPTLSLVVEREEKIRKFVSRDYWEIHA 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 231 DCSKDSQQFTAK------MKLKEKDKAIVDKIFEDIKLKDYATV---KDIKRTQKQK---QA-PKLHSLSTLQTKANKLW 297
Cdd:PRK14724 233 GFHAEAGEYLGKwfdpqwKKASDDPEARADRVWSEREARAIADAvrgKAATVTEESKpttQAsPLLFDLTSLQREANGKF 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 298 RYSPKETLAIVQKLYEL-KLVSYPRTDCQYITE-------QEFQYLDQNLESYLNMFniSSELIDNRSMR--KRFVNNSA 367
Cdd:PRK14724 313 GFSAKTTLALAQSLYERhKALTYPRTDSRALPEdylpvakQTFEMLATSGMRHLAPF--AQQALDGNYVRpsKRIFDNSK 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 368 VQEHYAIILTKTADvekvNMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGW-----KEL 442
Cdd:PRK14724 391 VSDHFAIIPTTQAP----SGLSEAEQKLYDLVVRRFMAVFFPSAEYQVTTRISQVVGHSFKTEGKVLVKPGWlaiygKEA 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 443 FNQKENT------ESILPeMNIGEMIKAKPFIYEGM-TQPPSLYTEGQLINLMKNCGKLLEDEDTEILKEVEGIGTEATR 515
Cdd:PRK14724 467 ANEVEDAkdgdkgQPLVP-VKPGEMVRTEFAEAKGLkTKPPARYSEATLLGAMESAGKQIDDDELREAMQEKGLGTPATR 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 516 ADVIEKLKHHDYITTKKNQVMLTDKG---RLLARSVQGTLLSSPEMTAKWEASLKKISSEEQTLDNF---IKNTIKYILH 589
Cdd:PRK14724 546 AAIIEGLLTEKYMLREGRELIPTAKAfqlMTLLRGLGVEELSRAELTGEWEYKLAQMEKGQLSREAFmqqIAAMTEKLVK 625
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 590 QIKQIDSDfkknqlvdnkgqsVVKIDDPNVIGDCPKC----KESVVKkikgkkgvfYACQNKK-----CKFVIFKNIFGK 660
Cdd:PRK14724 626 KAKEYDRD-------------TIPGDYATLSTPCPNCggvvKENYRR---------YACTGANgagegCGFSFTKSPAGR 683
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 661 NISTTVVKELInhgRTKH--KVKGFVSKKGKTYDAFVKLNND-----YKVTL-FFDNKEG 712
Cdd:PRK14724 684 TFETAEAEQLL---RDRRigPLEGFRSKAGWPFTAEVVIKRDeeaknYKLEFdFGDDKNA 740
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
1-627 |
7.89e-71 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 243.75 E-value: 7.89e-71
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 1 MTTVIVAEKPSQAKAYAEAFSIKNRTKS-----YIELDRCSTF----PAgafltwgIGHLIQLkYPKEYKQPINTWDLNN 71
Cdd:PRK05776 1 GYILVIAEKPKAARKIAEALSEKPIRCRiygvpYWIVKRDGKKivvaPA-------AGHLFGL-HTKSKGFPVFDYEWKP 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 72 LpflptcfeYKVD-SKKYAQ--YNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRNKEiKRLWINSLEKEEIKKG 148
Cdd:PRK05776 73 L--------YEIDkGSKYTKkyYELLSSLSKYADEFINACDYDIEGSVIGYLIIKYLGDPKKA-KRMKFSALTKSDIRRA 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 149 FNQLKdnRKDVLMFQEAKARMLSDYLIGMNLSPLYSIKLSKIADFNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEV 228
Cdd:PRK05776 144 FRNLE--TLDYEMINAGIARHELDWLWGINVSRALMSSVRDASGKRVILSAGRVQSPTLKYVVEREIERNLFVPLPYFSV 221
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 229 HADCSKDSQQFTAKMKLKE-KDKAIVDKIFEDIKLKDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAI 307
Cdd:PRK05776 222 SIIIEKNGYEFTLKYENKKfETKEEAKEILEEIKKTGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGFSPYKTQSI 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 308 VQKLYELKLVSYPRTDCQYITEQ-EFQYLDQNLESYLNMFNISSELIdnRSMRKRFVNNSAVQE---HYAIILTKtadvE 383
Cdd:PRK05776 302 AEDLYLDGLISYPRTNSQKLPPTlNIRNILKGLSRSPQYRPLVNLLL--KETKGVLKPVQGPKDdpaHPAIYPTG----E 375
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 384 KVNMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHY--FYSRGKVDKQLGWKELFNQKENTESILPEMNIGEM 461
Cdd:PRK05776 376 PPKNLSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPGFPlvFSASGQRIEERGWLKYYPFHKFDEEELPLLKKGER 455
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 462 IK-AKPFIYEGMTQPPSLYTEGQLINLMkncgkllededteilkEVEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDK 540
Cdd:PRK05776 456 VKiVDVKVRKSYTKPPSRYSKASLLKWM----------------ESVGIGTEATRARIIETLFKRGYLTSNGKYIEVTPL 519
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 541 GRLLARSVQGTL--LSSPEMTAKWEASLKKISSEEQTLDNFIKNTIKYILHQIKQIDSdfKKNQLVDNKGQSVVKIDdpn 618
Cdd:PRK05776 520 GFGVAEVLEKYFpdIVSVELTRDFEEKLEMIRTGKATREEVIEEAKETLNKLLEEFKK--NKDEIGEELAKALGLIK--- 594
|
....*....
gi 1081115590 619 VIGDCPKCK 627
Cdd:PRK05776 595 PVGKCKICG 603
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
272-544 |
4.48e-58 |
|
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: 197.47 E-value: 4.48e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 272 KRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYELKLVSYPRTDCQYITEQEFQYLDQNLESYLNMFNISSE 351
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKLYGKEYLDLA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 352 LIDnRSMRKRFVNNSAVQEHYAIILTKTADV-EKVNMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSR 430
Cdd:smart00437 81 VVL-LKPRKPRKGKKAQGAHEAIRPTKPIFTpELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 431 GKVDKQLGWKELFN-QKENTESILPEMNIGEMIK-AKPFIYEGMTQPPSLYTEGQLINLMKNcgkllededteilkevEG 508
Cdd:smart00437 160 GKTLLFDGWLKVYPeEKKEEEIELPTLKKGDELKvEEVEVEEKETKPPARYTEASLIKLMEK----------------RG 223
|
250 260 270
....*....|....*....|....*....|....*.
gi 1081115590 509 IGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLL 544
Cdd:smart00437 224 IGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
5-626 |
4.60e-50 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 186.89 E-value: 4.60e-50
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 5 IVAEKPSQAKAYAEAFSIKNRTKsyielDRCSTFPAGAFLTWGI--------GHLIQLKYPKEYK--QPINTWDLNNLPF 74
Cdd:PRK07220 4 IITEKNIAARRIAQILAPKKPKK-----TRVSGVDVYRYEDNGDdtvvvglsGHIVNIDFPKEYNnwQKVDARDLIDAEI 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 75 LPTCFEYKVDSkkyaqynTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRNKEIK--RLWINSLEKEEIKKGFNQL 152
Cdd:PRK07220 79 ITTPTQKKIVT-------ALKKLGKEADRVTIATDYDREGELIGVEALNIIKKVNPDIKfdRVRYSAITKKEIERAFSNP 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 153 KDnrKDVLMFQEAKARMLSDYLIGMNLSPLYSIKLSKIAdfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADC 232
Cdd:PRK07220 152 VE--VDFNLADAGHSRQVIDLVWGAALTRYISLAAGRLG--KMFLSVGRVQSPTLALIVDREKEREAFVPTPYWEIYATL 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 233 SKDSQQFTAKMKLKE-KDKAIVDKIFEdiKLKDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLwRYSPKETLAIVQKL 311
Cdd:PRK07220 228 ENNGETFVAQHSTRRfWEKEEADRVFE--KLGKTAEVTEVEKGTKTDKPPTPFNTTEFISAANSI-GFSAANAMRIAESL 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 312 YELKLVSYPRTD-------------CQYITEQEF-QYLDQNLEsylnmfniSSELIDNRSMRKrfvnnsaVQEHYAIILT 377
Cdd:PRK07220 305 YTNGYISYPRTDntvypesldlreqIEIFAEGPFgEYAQKLLE--------KGELVPTRGKKE-------TTDHPPIYPA 369
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 378 KTAdveKVNMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNQKENTESILPEMN 457
Cdd:PRK07220 370 SLA---KKSELKEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYNAPEDRLLPELS 446
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 458 IGEMIK-AKPFIYEGMTQPPSLYTEGQLINLMkncgklledEDTeilkeveGIGTEATRADVIEKLKHHDYIttKKNQVM 536
Cdd:PRK07220 447 EGEELKvKKKEMLDKETQPPGRYGQGRLIKLM---------EDL-------GLGTKATRHEIISKLYSRAYI--HGNPIQ 508
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 537 LTDKGRLLARSVQ--GTLLSSPEMTAKWEASLKKISSEEQTLDNFIKNTikyiLHQIKQIDSDFKKNQlvDNKGQSVVK- 613
Cdd:PRK07220 509 PTNTAFAVVDALEkyAPTITKPDMTSRLEEDMDKIAEGKIKEDAVLEES----REMLEQVFDELDKNR--EKIRESLREg 582
|
650
....*....|...
gi 1081115590 614 IDDPNVIGDCPKC 626
Cdd:PRK07220 583 LREDKIIGKCPLC 595
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
2-152 |
6.10e-44 |
|
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: 155.08 E-value: 6.10e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 2 TTVIVAEKPSQAKAYAEAFSIKNRTKSYIELDRCSTFPAGAFLTWGIGHLIQLKYPKEYKQPINTWDLNNLPFLPTcFEY 81
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGKGRYYEFYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLEDPLFPAP-FKL 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1081115590 82 KVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGI-RNKEIKRLWINSLEKEEIKKGFNQL 152
Cdd:cd03362 80 KVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKCvKRKPVKRAWFSSLTPKAIRRAFKNL 151
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
81-574 |
1.87e-39 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 156.08 E-value: 1.87e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 81 YKVDSKKYAQYNTVKELCMKADTIINACDVDREGSNI---FYLILEHAG-IRNKEIKRLWINSLEKEEIKKGFNQLKDNR 156
Cdd:PRK08780 54 YDLIDKNEKHVEAIAKAAKSADDLYLATDPDREGEAIswhLAEILKERGlLKDKPMQRVVFTEITPRAIKEAMAKPRDIA 133
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 157 KDVLMFQEAKaRMLsDYLIGMNLSPLYSIKLskiadfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKDS 236
Cdd:PRK08780 134 SDLVDAQQAR-RAL-DYLVGFNLSPLLWRKI------QRGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAHPS 205
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 237 QQFTAKM------KLKEKDKAIVDKIFE-DIKLKDYA----TVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETL 305
Cdd:PRK08780 206 QPFNAKLikldgqKFEQFTITDGDTAEAaRLRIQQAAqgtlHVTDVESKERKRNPAPPFTTSTLQQEASRKLGFTTRRTM 285
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 306 AIVQKLYE---------LKLVSYPRTDCQYITEQEFQYLDQNLEsylNMFNISSELIDNRSMRKRFVNnsAVQEHYAIIL 376
Cdd:PRK08780 286 QVAQKLYEgvdlgdegsVGLITYMRTDSVNLSQDALAEIRDVIA---RDYGTASLPDQPNTYKTKSKN--AQEAHEAVRP 360
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 377 TKTADV-EKVN-MLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELII-DDHYF---------------YSRGKVDKQlg 438
Cdd:PRK08780 361 TSALRTpAQVArFLSDDQRRLYELIWKRAVACQMIPATLNTVSVDLAAgSEHVFratgstvvvpgflavYEEGKDDKS-- 438
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 439 wkelfNQKENTESILPEMNIGEMIKAKPFIYEG-MTQPPSLYTEGQLInlmkncgKLLEDedteilkevEGIGTEATRAD 517
Cdd:PRK08780 439 -----AEDEDEGRKLPPMKEGDNVPLERIRAEQhFTEPPPRYTEASLV-------KALEE---------YGIGRPSTYAS 497
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*....
gi 1081115590 518 VIEKLKHHDYITTKKNQVMLTDKGRLLARSVQG--TLLSSPEMTAKWEASLKKISSEEQ 574
Cdd:PRK08780 498 IISTLQFRKYVEMEGRRFRPTDVGRAVNKFLTGhfTRYVDYDFTARLEDDLDAVSRGEK 556
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
74-690 |
6.69e-39 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 153.48 E-value: 6.69e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 74 FLPTcfeYKVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILE---HAGIRNKEIKRLWINSLEKEEIKkgfN 150
Cdd:PRK06599 50 FAPK---YEIIEGKEKVVDALKKAAKKADAVYLATDPDREGEAIAWHIAEvlkEAKLKDKNVKRVVFNEITKKAVQ---E 123
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 151 QLKDNRK-DVLMFQEAKARMLSDYLIGMNLSPLYSIKL--SKIAdfntifgvGRVQTPTLSMIYHRQIEIENFKSEPFFE 227
Cdd:PRK06599 124 AIENPRDiDMDLVDAQQARRALDYLVGFKLSPLLWKKVrrGLSA--------GRVQSVALRLICEREDEIEAFIPQEYWT 195
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 228 VHADCSKDS-QQFTAKM---------KLKEKDKAIVDKIFEDIKLKDYaTVKDIKRTQKQKQAPKLHSLSTLQTKA-NKL 296
Cdd:PRK06599 196 IEADLATSNgEPFTAKLvevngkkleKFSITNEEQAKALVKALEGQAY-TVDKIEKKERKRNPPPPFITSTLQQEAsRKL 274
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 297 wRYSPKETLAIVQKLYE--------LKLVSYPRTDCQYITEQEF----QYLDQNL-ESYLnmfnisselidNRSMRKrFV 363
Cdd:PRK06599 275 -GFSAKKTMRIAQKLYEgidlgegtVGLITYMRTDSVRLSNEALdearKYITKKYgKEYL-----------PAKPRV-YK 341
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 364 NNSA-VQE-HYAI----ILTKTADVEKvnMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQL 437
Cdd:PRK06599 342 KKSKnAQEaHEAIrptsINRTPESLKP--YLTPDQFKLYELIWKRTVASQMAPAILDQTSVDIASENGKYVFRATGSVIL 419
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 438 --GWKELFN-----QKENTESILPEMNIGEMIKAKPFIYE-GMTQPPSLYTEGQLInlmkncgKLLEDedteilkevEGI 509
Cdd:PRK06599 420 fpGFLKVYGeskddEEEDDEKLLPPLKEGEKLKLDELLPEqHFTEPPPRYSEASLV-------KKLEE---------YGI 483
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 510 GTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLLARsvqgtLLSS--PEM-----TAKWEASLKKISSEE----QTLDN 578
Cdd:PRK06599 484 GRPSTYASIISTLQDREYVELEKKRFIPTDLGRIVND-----FLVEhfPKYvdydfTAGLEDELDEIAEGKkdwkPVLRE 558
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 579 FIKNTIKYiLHQIKQIDSDFKKNQLVDNKgqsvvkiddpnvigDCPKCKESVVKKIKGKKGVFYACQN-KKCKFVifKNI 657
Cdd:PRK06599 559 FWEPFISN-LEKVEEDVRTEKVTQEETDE--------------TCPKCGGGPLVLKLGKNGKFLGCSGyPECKYT--KNI 621
|
650 660 670
....*....|....*....|....*....|....
gi 1081115590 658 fGKNISTTVVKELINHGRTKHKV-KGFVSKKGKT 690
Cdd:PRK06599 622 -TRDEDEPIEEEEIVEEEKCPKCgGPLVLKKGRY 654
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
2-152 |
8.93e-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: 140.05 E-value: 8.93e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 2 TTVIVAEKPSQAKAYAEAFSIKNRTKsyieldRCSTFPAGAFLTWGIGHLIQLKYPKEYkqpINTWDLNNLPFLPTCFEY 81
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKKK------GFYGEGGGYVVTASVGHLLELPFPEEY---VDWDKDWPLELFPFEPKY 71
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1081115590 82 KVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRNKEIKRLWINSLEKEEIKKGFNQL 152
Cdd:cd01028 72 VVIPDKKKQLKALKKLAKKADEIVLATDPDREGELIAWEILEVLKCDNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
80-628 |
2.06e-37 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 149.94 E-value: 2.06e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 80 EYKVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRNKEIKRLWINSLEKEEIKKGFN---QLKDNR 156
Cdd:PRK07561 66 LYEVLPGKEKVVSELKKAAKDADELYLATDPDREGEAIAWHLLEVLGGDDVPVKRVVFNEITKNAIQEAFEnprELDINL 145
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 157 KDVlmfQEAKaRMLsDYLIGMNLSPLYSIKL--SKIAdfntifgvGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSK 234
Cdd:PRK07561 146 VNA---QQAR-RFL-DRLVGYMVSPLLWKKIarGLSA--------GRVQSVAVRLIVEREREIEAFVPEEYWDIHADLTT 212
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 235 -DSQQFTAKM---------KLKEKDKAIVDKIFEDIKLKDYaTVKDI--KRTQKQKQAPklHSLSTLQTKAN-KLwRYSP 301
Cdd:PRK07561 213 pRGDAFEARLthldgkkfaPVDLLNEAQAEAAVAALEGARY-SVASVedKPTTRKPSAP--FTTSTLQQEASrKL-GFSV 288
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 302 KETLAIVQKLYELKLVSYPRTDcqyiteqefqyldqnleSylnmFNISSELIDN-RSM-RKRF---------------VN 364
Cdd:PRK07561 289 KKTMRIAQRLYEAGYITYMRTD-----------------S----TNLSQEAINAaRGYiGDNYgkkylpekprqysskAK 347
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 365 NSavQE-HYAIiltKTADV----EKVNMLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGW 439
Cdd:PRK07561 348 NA--QEaHEAI---RPSDVfrtpDQLKGLEGDAQRLYELIWKRFVASQMAPARYDSTTVTIAAGDAELRATGRVLRFDGF 422
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 440 KELF-----NQKENTESILPEMNIGEMIKAKPFIYEG-MTQPPSLYTEGQLInlmkncgKLLEDedteilkevEGIGTEA 513
Cdd:PRK07561 423 LKVYvegrdDALDDEDRRLPALKVGDALTLEKLDPTQhFTKPPARYSEASLV-------KELEK---------LGIGRPS 486
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 514 TRADVIEKLKHHDYITTKKNQVMLTDKGRLlarsVQGTLLSS------PEMTAKWEASLKKISSEE----QTLDNFIKNT 583
Cdd:PRK07561 487 TYASIISTIQDRGYVRLENRRFYPEKMGRI----VTDRLEEFfprlvdYDFTARMEEELDDIANGEadwkPVLDDFYKDF 562
|
570 580 590 600
....*....|....*....|....*....|....*....|....*....
gi 1081115590 584 IKyilhQIKQIDSDFKKNQLvdnkgqsvvkidDPNVIG----DCPKCKE 628
Cdd:PRK07561 563 SQ----QLEKAEELREEGGM------------RPNQMVitdrDCPTCGR 595
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
92-626 |
2.06e-37 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 150.38 E-value: 2.06e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 92 NTVKELCMKADTIINACDVDREGSNI----FYLIleHAGIRNKEIKRLWINSLEKEEIKKGFNQLKDnrKDVLMFQEAKA 167
Cdd:PRK14973 88 GLIQKLAKKADRVTIATDFDTEGELIgkeaYELV--RAVNPKVPIDRARFSAITKEEIVTAFAEPTD--LDFALAAAGEA 163
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 168 RMLSDYLIGMNLSPLYSIKLSKIAdfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKDSQQFTAK-MKLK 246
Cdd:PRK14973 164 RQIIDLIWGASLTRFISLAAHRGG--DNILSVGRVQSPTLAMIVDREKEIEAFVPEKYWMLSLATEKDGEGIEARhTHGR 241
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 247 EKDKAIVDKIFEdiKLKDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKLwRYSPKETLAIVQKLYELKLVSYPRTDcQY 326
Cdd:PRK14973 242 FTDSAAAEAAYD--ATKEPLVVTEVKEGHKVDRAPTPFDTTTFIVAASRL-GFSAANAMRIAEDLYMNGYISYPRTD-NT 317
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 327 ITEQEFqyldqNLESYLNMFN---ISSELIDNRSMRkRFVNNSAVQE---HYAIILTKTADVEKvnmLSDKERNIYEEIY 400
Cdd:PRK14973 318 IYPKSL-----DLNGVLATLAkgaFSKDVAWVKDNR-RPVPTRGKKSstdHPPIHPTGVATREE---LGDDRWKLYELVV 388
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 401 NTTIAMFLKEYIYEETDVELIIDDHYFYSRGKVDKQLGWKELFNQKENTESILPEMNIGEMIKAKPF-IYEGMTQPPSLY 479
Cdd:PRK14973 389 RRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVYPYSEAKENILPAFALGEKLPILAVnLEEKETQPPARY 468
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 480 TEGQLINLMkncgkllededteilkEVEGIGTEATRADVIEKLKHHDYIttKKNQVMLTDKGRLLARSVQ--GTLLSSPE 557
Cdd:PRK14973 469 SQSRLIQRM----------------EELGLGTKSTRHEVIGKLVSRKYI--EGNPLRPTLVGRAVTESLEehAGTITEPD 530
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 558 MTAKWEASLKKISSEEQTLDNFIKNTIKyILHQIkqIDsDFKKNQLVdnKGQSVV-KIDDPNVIGDCPKC 626
Cdd:PRK14973 531 MTQTLEEHMQQIKERKRTRDDVVTESRK-MLHRA--FD-ELEANEAV--IGRDIMeRTAEELTIGPCPVC 594
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
132-227 |
9.49e-25 |
|
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: 98.42 E-value: 9.49e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 132 IKRLWINSLEKEEIKKGFNQLKDNrkDVLMFQEAKARMLSDYLIGMNLSPLYSIKLSkiadfNTIFGVGRVQTPTLSMIY 211
Cdd:smart00436 1 IKRIEFSEITKKAIREALKNPREI--DENLVNAQLARRILDRLIGFNLSRLLTKKLR-----NGVLSAGRVQTPTLGLIV 73
|
90
....*....|....*.
gi 1081115590 212 HRQIEIENFKSEPFFE 227
Cdd:smart00436 74 EREREIKNFVPKPYWE 89
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
80-644 |
1.38e-21 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 100.28 E-value: 1.38e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 80 EYKVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGiRNKEIKRLWINSLEKEEIKKGfnqLKDNRK-D 158
Cdd:PRK06319 53 DYQILPDKEEVINKICKLAKKCDVVYLSPDPDREGEAIAWHIANQLP-KNTKIQRISFNAITKGAVTEA---LKHPREiD 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 159 VLMFQEAKARMLSDYLIGMNLSPLYSIKLSKiadfNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFE--VHADCSKDS 236
Cdd:PRK06319 129 MALVNAQQARRLLDRIVGYKISPILSRKLQR----RSGVSAGRVQSVALKLVVDREKAIEAFVPVEYWNirVHLKDPKTQ 204
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 237 QQFTAKM-----KLKEKD---------------KAIVDKIFEDIKLKDYaTVKDIKRTQKQKQAPKLHSLSTLQTKANKL 296
Cdd:PRK06319 205 KTFWAHLysvdgKKWEKEipegktedevllinsKEKADHIVELLESATY-TVTRVESKEKRRNAYPPFITSTLQQEASRH 283
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 297 WRYSPKETLAIVQKLYE---------LKLVSYPRTDCQYITEQEFQYLDQNLESYLnmfniSSELIDnrSMRKRFVNNSA 367
Cdd:PRK06319 284 FRFSSSRTMNIAQTLYEgvdldsegaTGLITYMRTDSVRTDPEALKQVRKYIEGTF-----GKEFLP--SSPNVYTTKKM 356
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 368 VQE-HYAIILTKTADV-EKV-NMLSDKERNIYEEIYNTTIAMFLKEYIYE------ETDVELIIDdhyfySRGKVDKQLG 438
Cdd:PRK06319 357 AQDaHEAIRPTDITLTpEKLrSKLTEDQYKLYSLIWKRFVASQMIPAIYDtlairiTTNKGIDLR-----ATGSLLKFKG 431
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 439 WKELFNQKENTES------ILPEMNIG-EMIKAKPFIYEGMTQPPSLYTEGQLInlmkncgkllededteilKEVE--GI 509
Cdd:PRK06319 432 FLAVYEEKRDDEGdeeeniHLPKLHEQdVLTKEELSAEQAFTKPLPRFTEASLV------------------KELEksGI 493
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 510 GTEATRADVIEKLKHHDYiTTKKNQVML-TDKGRLLARSVQGTLlssPEM-----TAKWEASLKKISSEEQTLdnfiKNT 583
Cdd:PRK06319 494 GRPSTYATIMNKIQSREY-TLKENQRLRpTELGKIISQFLETNF---PRImdigfTALMEDELELIADNKKPW----KLL 565
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1081115590 584 IKYILHQIKQIDSDFKKNQLVdnkgqsvvkiddPNVIG--DCPKCKESVVKKIKGKKGVFYAC 644
Cdd:PRK06319 566 LQEFWELFLPVVVTAEKEAFI------------PRIVTeiDCPKCHKGKLVKIWAKNRYFYGC 616
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
104-570 |
3.25e-16 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 82.68 E-value: 3.25e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 104 IINACDVDREGSnifyLILEHAgirNKEIKRL-----------WINSLEKEEIKKGFNQLKDNRKDVLMFQEAKARMLSD 172
Cdd:PTZ00407 128 IILATDPDREGE----LIAVHA---LQTIKRLypklkvpfsraYMHSITEDGIRKAMRERHVEACDYDLANAAETRHAMD 200
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 173 YLIGMNLSPLYSIKLSKIADfntifgVGRVQTPTLSMIYHRQIEIENF--KSEPFFEVHADC---SKDSQQFTAKMKLKE 247
Cdd:PTZ00407 201 RIFGFLGSSVVRAANSQMRS------IGRVQTPALILINEREDKIKAFleSNKSTFEVQAMCqfpSPHGTTFSQVVTITP 274
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 248 ---------KDKAIVDKIFEDIKLKD---YATVKDIKRTQKQKQAPKLHSLSTLQTKANKLWRYSPKETLAIVQKLYELK 315
Cdd:PTZ00407 275 drkggashwATEAEARRCLEQWKLNNctgFSVPLEPKPQPSVVPPPQPFTMATAIAKANRQLKYSSEMVSGCLQDLFQLG 354
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 316 LVSYPRTDCQYITE---------------QEFQYLDQNLESYLNMFNISSELIDNRSMRKRFVNNSAVQE----HYAIIL 376
Cdd:PTZ00407 355 HITYPRTDSTRIDEsalpdiyaavkkefgKEFLYRLEDRTVSAQEGKGSKKTGKKRSTKQKKGADTPVGNvedaHEAIRP 434
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 377 TKT-ADVEKVNmLSDKERNIYEEIYNTTIAMFLKEYIYEETDVELII-----DDHYFYSRGKVDKQLGWKELFNQKE-NT 449
Cdd:PTZ00407 435 TNIdTTGESLS-LSPPTRAVYDLVRRNTLAVFMIPMKTEKIVATVKFtsgsgEKLEFELQGKRVVEPGWTRAFHKGDkGT 513
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 450 ESILPE--------------------------MNIGEMIKA----------KPFIYEGMTQPPSLYTEGQLINLMKNcgk 493
Cdd:PTZ00407 514 TGPAEEtdeditaveegapvvpslsqeefkaiMNLRSQLGSgvqkgffelrSPQVRENRPVPPLPHSEGTLIEELKN--- 590
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 494 llededteilkevEGIGTEATRADVIEKLKHHDYIT-TKKNQVMLTDKGRLLARSVQGTLLSSPEM--TAKWEASLKKIS 570
Cdd:PTZ00407 591 -------------NGVGRPSTYPMIVKTLLARGYIAvNPKGRCETTPVGRMLVETAKSTFPSIVDIgfTAAFEKKLDRIA 657
|
|
| Toprim_Crpt |
pfam13342 |
C-terminal repeat of topoisomerase; |
648-708 |
7.71e-16 |
|
C-terminal repeat of topoisomerase;
Pssm-ID: 463851 [Multi-domain] Cd Length: 60 Bit Score: 72.13 E-value: 7.71e-16
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1081115590 648 KCKFVIFKNIFGKNISTTVVKELINHGRTKhKVKGFVSKKGKTYDAFVKLNNDYKVTLFFD 708
Cdd:pfam13342 1 GCGFSIGKTIAGKKLSEEQVKELLTKGKTG-LIKGFKSKKGKKFDAYLVLDDDEKVEFDFE 60
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
3-140 |
2.87e-07 |
|
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: 48.89 E-value: 2.87e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 3 TVIVAEKPSQAKAYAEAFSIKNRTksyieldrcstfpagafLTWGIGHLIqlkypkeykqpintwdlnNLPFLPtcfeyk 82
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALGGGFQA-----------------VVAVLGHLL------------------SLEKGP------ 39
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....*...
gi 1081115590 83 vdskKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRNKEIKRLWINSL 140
Cdd:pfam01751 40 ----KKKALKALKELALKAKEVILATDPDREGEAIALKLLELKELLENAGGRVEFSEL 93
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
100-651 |
1.15e-05 |
|
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: 48.71 E-value: 1.15e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 100 KADTIINACDVDREGSNIFYLILEHAGIRNKEIKRLWINSLEKEEIKKGFNQLKDNRKDVLMFQEAKARMLSDYLIGMNL 179
Cdd:COG0551 82 AKALAAALAAADDDAIEAAAAADEEEALKAAEALEAIRKAVVEEVKSRARKRAARAPADVAAAAAAAALARLLLLAAASR 161
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 180 SPLYSIKLSKIADFNTIFGVGRVQTPTLSMIYHRQIEIENFKSEPFFEVHADCSKDSQQFTAKMKLKEKDKAIVDKIFED 259
Cdd:COG0551 162 ALRLLLLLAAGRLRLLSAVAAGLLELEELLKEFEEEEEEEAAEEEEEEEEAKKKKEEDKKKKKKKKKKDKEEETKAIKKK 241
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 260 IKLKDYATVKDIKRTQKQKQAPKLHSLSTLQTKANKL------WRYSPKETLAIVQKLYELKLVSYPRTDCQYITEQEFQ 333
Cdd:COG0551 242 KKAAEAVLAAKKAAKEAKAKKELPTTTTDALPEALATtsltaaAAASALAAALLEEEGELLYTGGYIRYTRTPKSSEADA 321
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 334 YLDQNLESYLNMFNISSELIDNRSMRKRFVNNSAVQEHYAIILTKTADVEKVNMLSDKERNIYEEIYNTTIAMFLKEYIY 413
Cdd:COG0551 322 LAALEALKKIAEEPPDERAKKKKKKAKKKKASEAKETTDHPPIPPTTAAALLELLEDRKLLLELLVRRRFAAAADLAKVE 401
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 414 EETDVELIIDDHYFYSRGKVDKQLGWKELFNQKENTESILPEMNIGEMIKAKPFIYEGMTQPPSLYTEGQLInlmkncgk 493
Cdd:COG0551 402 ELTKVEEADEEELVEAEGGLLEVLGEEEEDDEDEEEELLLPPLEEGEPLLLEELLLEKQTTTPPPRYTTELL-------- 473
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410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 494 lledEDTEILKEVEGIGTEATRADVIEKLKHHDYITTKKNQVMLTDKGRLLARSVQGTLLSSPEMTAkweaslkkissEE 573
Cdd:COG0551 474 ----LKKLEEEGGGGRGTTATIIILILKRRYVVLEEKKTTPTELLVEVVLLLLLPFPKLEDTTETAE-----------EE 538
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490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 574 QTLDNFIKNTIKYILHQIKQIDSDFKKNQLVDNKGQSVVKIDDPNVIG-DCPKCkESVVKKIKGKKGVFYACQNK-KCKF 651
Cdd:COG0551 539 EALLDKEEGKEDKVVEIREEEYPFFKKLLEIAEEEGEEELSEEDEVLGeKCPKC-GKPLVIKKGRYGKFLGCSNYpECKY 617
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| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
68-151 |
2.31e-04 |
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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: 41.39 E-value: 2.31e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1081115590 68 DLNNLPFLPtcfEYKVDSKKYAQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIrNKEIKRLWINSLEKEEIKK 147
Cdd:cd03363 43 DGEDDGFEP---KYVVIPGKKKVVKELKKLAKKADEIYLATDPDREGEAIAWHLAEVLKL-KKNVKRVVFNEITKEAIKE 118
|
....
gi 1081115590 148 GFNQ 151
Cdd:cd03363 119 ALKN 122
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| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
89-137 |
1.52e-03 |
|
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: 38.18 E-value: 1.52e-03
10 20 30 40
....*....|....*....|....*....|....*....|....*....
gi 1081115590 89 AQYNTVKELCMKADTIINACDVDREGSNIFYLILEHAGIRNKEIKRLWI 137
Cdd:cd00188 35 KTRELLKRLLGEAKEVIIATDADREGEAIALRLLELLKSLGKKVRRLLL 83
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