|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
3-659 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 1030.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLSCNKKGNGYIEGKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDLPMLPSPLKLVVIKRSG 82
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 83 KQFNIVKKQMnrKDVEEIVIATDAGREGELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKNLKPGRGYENLYASALA 162
Cdd:PRK07726 81 KQFNVVKKLL--KQATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 163 RAQADWYVGINATRALTCK-----YNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEA---ISNGLKLIWQDNRT- 233
Cdd:PRK07726 159 RSRADWLVGINMTRAYTLLgrkagYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAhltPGERFTAKWQPSEPy 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 234 --NNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYESHKLLTYP 311
Cdd:PRK07726 239 qdEEGRLLDRPLAEQVVARIQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 312 RTDSRYITTDIIDTLRERVKACG-VGEYSKAAFKILKKPIKtnKSFVDNKKVSDHHAIIPTEQGVILSSLNDRERRIYDL 390
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISkVDPYLLLAPPVLDPSIR--SRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDL 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 391 VVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNGNFEEDGSnedisDQILPNVNKGDELKISSISQT 470
Cdd:PRK07726 397 IARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKEEDEEK-----EQPLPVLAKGDELKVEKGEVK 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 471 KGETKPPEPFDEGSLLSAMENPRKYMksENRKLLKTIEETGGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQLLD 550
Cdd:PRK07726 472 EGQTQPPKRFTEGTLLSAMENIARFV--QDKELKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQLID 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 551 LVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNSQEKFKHDNITGNRCPQCDKFMLEVNSKKGK 630
Cdd:PRK07726 550 ALPEELTSPDMTAKWEQALDQISEGQLSYQDFMQPLKQWLKQLVEQAKQSSEKYKFDNLTGPKCPDCGKPMLKVKGKNGK 629
|
650 660
....*....|....*....|....*....
gi 1160633851 631 MLVCQDRECGYRKSISKITNARCPNCHKK 659
Cdd:PRK07726 630 MLVCQDRECGKRKNVSKKTNARCPNCKKK 658
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
3-682 |
0e+00 |
|
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: 753.60 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLSCNKKGNGYIE-GKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDLPMLPSPLKLVVIKRS 81
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLEiGVGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 82 GKQFNIVKKQMNRKDVEEIVIATDAGREGELVARWIIEKSRV--KKPIKRLWISSVTDKAIKEGFKNLKPGRGYENLYAS 159
Cdd:TIGR01056 81 KKQFNVIKRILKENKVDEVVIATDPDREGELIAREILDYLKVtdKVTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 160 ALARAQADWYVGINATRALTCK-----YNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAISNG----LKLIWQD 230
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLgreagNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSATINKdeqeFTTEWQP 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 231 NRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYESHKLLTY 310
Cdd:TIGR01056 241 YKDEEERELHEFLAENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHKLITY 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 311 PRTDSRYITTDIIDTLRERVKAcgVGEYSKAAFKILKKPIKTNKSFVDNKKVSDHHAIIPTEQGVILSSLNDRERRIYDL 390
Cdd:TIGR01056 321 PRTDSRYLPEDEKEMLLEVLDA--LKVITPALLPIKKRDELTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEERNVYKL 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 391 VVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYnGNFEEDGSNEDisdQILPNVNKGDELKISSISQT 470
Cdd:TIGR01056 399 IAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALL-GKQEEDEETED---TTLPAFQKGDELDVETLELL 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 471 KGETKPPEPFDEGSLLSAMENPRKYMksENRKLLKTIEETGGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQLLD 550
Cdd:TIGR01056 475 EKQTKPPARYTEGTLLSAMTNPAAFV--QDKGLKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGKLLCL 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 551 LVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNSQEKFKHDNITGnrCPqcdkfmlevnskkgk 630
Cdd:TIGR01056 553 LLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPETIQKVAKEP--VS--------------- 615
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|..
gi 1160633851 631 mlvcqdreCGYRKSISKITNARCPNCHKKMELCGEGEGKIFVCRCGYKEKLS 682
Cdd:TIGR01056 616 --------CGGIAKCPAKDNGRLIDCKKFPECTEYGNGCEFTIPKKLREKSI 659
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
3-595 |
0e+00 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 637.91 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLscnkkgngyieGKKYIVTWALGHLVTLGDPEI-YNEKYKawrledlpMLPsplKLVVIKRS 81
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYL-----------GKDYVVTASVGHLRDLPKPELdVDVEND--------FEP---KYEVIPGK 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 82 GKQFNIVKKQMNRKDveEIVIATDAGREGELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKNLKPGrgYENLYASAL 161
Cdd:COG0550 59 KKQVKELKKLAKKAD--EVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRDI--DMNLVDAQQ 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 162 ARAQADWYVGINATRALTCKYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAI----SNGLKLIWQDNrtNNNR 237
Cdd:COG0550 135 ARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATfktgGGEFTAKLVKI--DGKK 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 238 IFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYEsHKLLTYPRTDSRY 317
Cdd:COG0550 213 ILDEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYE-VGLITYMRTDSVR 291
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 318 ITTDIIDTLRERVKACGVGEYskaafkILKKPIKTNKSfvdNKKVSDHHAIIPTEQGVILSSLNDRERRIYDLVVKRFLA 397
Cdd:COG0550 292 LSEDAVAAAREYIEALYGKEY------LPEKPRVYKTS---KNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLIWKRFLA 362
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 398 VLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNgnfEEDGSNEDISDQILPNVNKGDELKISSISQTKGETKPP 477
Cdd:COG0550 363 SQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYG---EGKDDEEEEEEKRLPPLKEGEKLKLKKIEPEQHFTKPP 439
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 478 EPFDEGSLLSAMENPrkymksenrkllktieetgGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQLLDLVPE--- 554
Cdd:COG0550 440 PRYTEASLVKAMEEL-------------------GIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLEEhfp 500
|
570 580 590 600
....*....|....*....|....*....|....*....|.
gi 1160633851 555 DLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVD 595
Cdd:COG0550 501 DLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
153-584 |
8.22e-143 |
|
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: 424.35 E-value: 8.22e-143
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 153 YENLYASALARAQADWYVGINATRALT--CKYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAISNGLKLIWQD 230
Cdd:pfam01131 3 DENLVDAQLARRELDWLIGFNLSRLLTlkLKGNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDGGGVFAN 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 231 NRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYESHKLLTY 310
Cdd:pfam01131 83 AKWKRGRIFDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEKHGLITY 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 311 PRTDSRYITTDiiDTLRERVKACGV--GEYSKAAFKILKKPikTNKSFVDNKKVSDHHAIIPTEQGVILSSLNDRERRIY 388
Cdd:pfam01131 163 PRTDSTYLSDD--ATLKAILEYLTKnyGKYLPYAPRLLKKT--KGKLTVGNAKVTAHEAIRPTGDIPVLPELSDDERKLY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 389 DLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNGNFEEDgsnedisDQILPNVNKGDELKISSIS 468
Cdd:pfam01131 239 ELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKED-------EEELPELKEGEELKVTQVE 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 469 QTKGETKPPEPFDEGSLLSAMENprkymksenrkllktieetGGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQL 548
Cdd:pfam01131 312 VEEKKTKPPPRYTEASLIKAMEK-------------------AGIGTPATRATIIETLLERGYVERKKKSLVPTELGKAL 372
|
410 420 430
....*....|....*....|....*....|....*...
gi 1160633851 549 LDLVP--EDLKSPTLTAQWEQKLSSISKGLLKKNSFIN 584
Cdd:pfam01131 373 VEALEkfPDLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
154-594 |
1.73e-108 |
|
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: 334.96 E-value: 1.73e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 154 ENLYASALARAQADWYVGINATRALTCKYNAQ--LSCGRVQTPTLSIISKREEEIKKFKPKTFYGIeaisnglkliwqdn 231
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRKgvLSAGRVQSPTLGLIVEREREIKAFVPEDYWEI-------------- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 232 rtnnnrifnkdkcdkilrsikgKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYEsHKLLTYP 311
Cdd:cd00186 67 ----------------------KEAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYE-AGLITYP 123
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 312 RTDSRYITTDIIDTLRERVKACGVGEYSKAAFKILKKPIKTNKsfvdnKKVSDHHAIIPT---EQGVILSSLNDRERRIY 388
Cdd:cd00186 124 RTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGRRNPKRGK-----KEQGAHEAIRPTkvaPTPELEANLSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 389 DLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNgnfEEDGSNEDisdqILPNVNKGDELKISSIS 468
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYP---EEKDDEEE----EPPPLKEGDELKLEEVE 271
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 469 QTKGETKPPEPFDEGSLLSAMENPrkymksenrkllktieetgGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQL 548
Cdd:cd00186 272 LEEKETQPPPRYTEASLIKLMEKR-------------------GIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAV 332
|
410 420 430 440
....*....|....*....|....*....|....*....|....*....
gi 1160633851 549 LDLVPE---DLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIV 594
Cdd:cd00186 333 IELLEKhfpELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
262-548 |
3.23e-72 |
|
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: 235.60 E-value: 3.23e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 262 KKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYEsHKLLTYPRTDSRYITTDIIDTLRERVKAcgvgEYSKA 341
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYE-KGLITYPRTDSTRLSEEAVLEARNYIQK----LYGKE 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 342 AFKILKKPIKTNKSFVDNKKVSDHHAIIPT---EQGVILSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDET 418
Cdd:smart00437 76 YLDLAVVLLKPRKPRKGKKAQGAHEAIRPTkpiFTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEK 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 419 FTAKGKIVISQGWKEVYNgnfEEDgsneDISDQILPNVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMENPrkymks 498
Cdd:smart00437 156 FKAKGKTLLFDGWLKVYP---EEK----KEEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKR------ 222
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 1160633851 499 enrkllktieetgGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQL 548
Cdd:smart00437 223 -------------GIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| RPOL9 |
smart00661 |
RNA polymerase subunit 9; |
653-701 |
3.47e-03 |
|
RNA polymerase subunit 9;
Pssm-ID: 197822 Cd Length: 52 Bit Score: 36.21 E-value: 3.47e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 1160633851 653 CPNCHKKMELCGEGEGKIFVCR-CGYKEKLSSFNKRKKKETNKASKKDVS 701
Cdd:smart00661 3 CPKCGNMLYPREGKEKRRFVCRkCGYEEPAEQKYVYKEKLKHSKDELTVI 52
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
3-659 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 1030.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLSCNKKGNGYIEGKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDLPMLPSPLKLVVIKRSG 82
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 83 KQFNIVKKQMnrKDVEEIVIATDAGREGELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKNLKPGRGYENLYASALA 162
Cdd:PRK07726 81 KQFNVVKKLL--KQATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 163 RAQADWYVGINATRALTCK-----YNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEA---ISNGLKLIWQDNRT- 233
Cdd:PRK07726 159 RSRADWLVGINMTRAYTLLgrkagYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAhltPGERFTAKWQPSEPy 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 234 --NNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYESHKLLTYP 311
Cdd:PRK07726 239 qdEEGRLLDRPLAEQVVARIQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 312 RTDSRYITTDIIDTLRERVKACG-VGEYSKAAFKILKKPIKtnKSFVDNKKVSDHHAIIPTEQGVILSSLNDRERRIYDL 390
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISkVDPYLLLAPPVLDPSIR--SRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDL 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 391 VVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNGNFEEDGSnedisDQILPNVNKGDELKISSISQT 470
Cdd:PRK07726 397 IARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKEEDEEK-----EQPLPVLAKGDELKVEKGEVK 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 471 KGETKPPEPFDEGSLLSAMENPRKYMksENRKLLKTIEETGGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQLLD 550
Cdd:PRK07726 472 EGQTQPPKRFTEGTLLSAMENIARFV--QDKELKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQLID 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 551 LVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNSQEKFKHDNITGNRCPQCDKFMLEVNSKKGK 630
Cdd:PRK07726 550 ALPEELTSPDMTAKWEQALDQISEGQLSYQDFMQPLKQWLKQLVEQAKQSSEKYKFDNLTGPKCPDCGKPMLKVKGKNGK 629
|
650 660
....*....|....*....|....*....
gi 1160633851 631 MLVCQDRECGYRKSISKITNARCPNCHKK 659
Cdd:PRK07726 630 MLVCQDRECGKRKNVSKKTNARCPNCKKK 658
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
3-682 |
0e+00 |
|
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: 753.60 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLSCNKKGNGYIE-GKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDLPMLPSPLKLVVIKRS 81
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLEiGVGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 82 GKQFNIVKKQMNRKDVEEIVIATDAGREGELVARWIIEKSRV--KKPIKRLWISSVTDKAIKEGFKNLKPGRGYENLYAS 159
Cdd:TIGR01056 81 KKQFNVIKRILKENKVDEVVIATDPDREGELIAREILDYLKVtdKVTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 160 ALARAQADWYVGINATRALTCK-----YNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAISNG----LKLIWQD 230
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLgreagNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSATINKdeqeFTTEWQP 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 231 NRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYESHKLLTY 310
Cdd:TIGR01056 241 YKDEEERELHEFLAENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHKLITY 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 311 PRTDSRYITTDIIDTLRERVKAcgVGEYSKAAFKILKKPIKTNKSFVDNKKVSDHHAIIPTEQGVILSSLNDRERRIYDL 390
Cdd:TIGR01056 321 PRTDSRYLPEDEKEMLLEVLDA--LKVITPALLPIKKRDELTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEERNVYKL 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 391 VVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYnGNFEEDGSNEDisdQILPNVNKGDELKISSISQT 470
Cdd:TIGR01056 399 IAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALL-GKQEEDEETED---TTLPAFQKGDELDVETLELL 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 471 KGETKPPEPFDEGSLLSAMENPRKYMksENRKLLKTIEETGGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQLLD 550
Cdd:TIGR01056 475 EKQTKPPARYTEGTLLSAMTNPAAFV--QDKGLKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGKLLCL 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 551 LVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNSQEKFKHDNITGnrCPqcdkfmlevnskkgk 630
Cdd:TIGR01056 553 LLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPETIQKVAKEP--VS--------------- 615
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|..
gi 1160633851 631 mlvcqdreCGYRKSISKITNARCPNCHKKMELCGEGEGKIFVCRCGYKEKLS 682
Cdd:TIGR01056 616 --------CGGIAKCPAKDNGRLIDCKKFPECTEYGNGCEFTIPKKLREKSI 659
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
3-595 |
0e+00 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 637.91 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLscnkkgngyieGKKYIVTWALGHLVTLGDPEI-YNEKYKawrledlpMLPsplKLVVIKRS 81
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYL-----------GKDYVVTASVGHLRDLPKPELdVDVEND--------FEP---KYEVIPGK 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 82 GKQFNIVKKQMNRKDveEIVIATDAGREGELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKNLKPGrgYENLYASAL 161
Cdd:COG0550 59 KKQVKELKKLAKKAD--EVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRDI--DMNLVDAQQ 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 162 ARAQADWYVGINATRALTCKYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAI----SNGLKLIWQDNrtNNNR 237
Cdd:COG0550 135 ARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATfktgGGEFTAKLVKI--DGKK 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 238 IFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYEsHKLLTYPRTDSRY 317
Cdd:COG0550 213 ILDEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYE-VGLITYMRTDSVR 291
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 318 ITTDIIDTLRERVKACGVGEYskaafkILKKPIKTNKSfvdNKKVSDHHAIIPTEQGVILSSLNDRERRIYDLVVKRFLA 397
Cdd:COG0550 292 LSEDAVAAAREYIEALYGKEY------LPEKPRVYKTS---KNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLIWKRFLA 362
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 398 VLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNgnfEEDGSNEDISDQILPNVNKGDELKISSISQTKGETKPP 477
Cdd:COG0550 363 SQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYG---EGKDDEEEEEEKRLPPLKEGEKLKLKKIEPEQHFTKPP 439
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 478 EPFDEGSLLSAMENPrkymksenrkllktieetgGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQLLDLVPE--- 554
Cdd:COG0550 440 PRYTEASLVKAMEEL-------------------GIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLEEhfp 500
|
570 580 590 600
....*....|....*....|....*....|....*....|.
gi 1160633851 555 DLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVD 595
Cdd:COG0550 501 DLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
1-652 |
0e+00 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 543.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 1 MNKTLVLAEKPSVGKDLARVLSCNKKGNGYIEGKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDLPMLPSPLKLVVIKR 80
Cdd:PRK08173 1 MSKALIIAEKPSVANDIARALGGFTKHDEYFESDEYVLSSAVGHLLEIAAPEEYEVKRGKWSFAHLPVIPPHFDLNPIAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 81 SGKQFNIVKKQMNRKDVEEIVIATDAGREGELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKNLKPGRGYENLYASA 160
Cdd:PRK08173 81 TESRLKVLTKLIKRKDVTRLINACDAGREGELIFRLIAQHAKAKKPVKRLWLQSMTPQAIRDGFANLRSDEDMQPLADAA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 161 LARAQADWYVGINATRALTCkYNAQ------LSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEA-------------IS 221
Cdd:PRK08173 161 RCRSEADWLVGINGTRAMTA-FNSKgggfflTTVGRVQTPTLSIVVEREEKIRRFVPRDYWEVRAefvaaagfyegrwFD 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 222 NGLKLIWQDNRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKySNGLYDLTELQRDANRIFGYSPKETLSIMQRL 301
Cdd:PRK08173 240 PKFKKDEFDPEKRASRLWSEAAAEAIVAACRGKPGTVTEESKPSTQL-SPLLFDLTSLQREANGRFGFSAKNTLGLAQAL 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 302 YESHKLLTYPRTDSRYITTDIIDTLRERVKA-CGVGEYSKAAFKILKKP-IKTNKSFVDNKKVSDHHAIIPTEQgvILSS 379
Cdd:PRK08173 319 YEKHKVLTYPRTDSRALPEDYLGTVKQTLEMlKESNNYLPHAKQILDKGwVKPNKRIFDNSKISDHFAIIPTLQ--APKS 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 380 LNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYngnfeedGSNEDISDQILPNVNKG 459
Cdd:PRK08173 397 LSEPEQKLYDLVVKRFLAVFFPAAEFLVTTRITEVAGHHFKTEGKVLVNPGWLAVY-------GKEAQGADANLVPVQKG 469
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 460 DELKISSISQTKGETKPPEPFDEGSLLSAMENPRKYMKSENrklLKTIEETGGLGTVATRADIIEKLYDKFLIEKKGKNI 539
Cdd:PRK08173 470 EKVKTDKIEAVALTTKPPARYNEATLLSAMEGAGKLVEDDE---LREAMAEKGLGTPATRAAIIEGLLGEKYLVREGREL 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 540 FTTSKGRQLLDLVP----EDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNsqekFKHDNITGNR-- 613
Cdd:PRK08173 547 IPTAKAFQLMTLLRglgvEELTSPELTGEWEYKLSQIERGKLSRDAFMQEIAQMTQQIVKRAKE----YDSDTIPGDYat 622
|
650 660 670 680
....*....|....*....|....*....|....*....|...
gi 1160633851 614 ----CPQCDKFMLEvNSKKgkmLVCQDreCGYrkSISKITNAR 652
Cdd:PRK08173 623 lqtpCPNCGGVVKE-NYRR---FACTK--CDF--SISKIPGGR 657
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
153-584 |
8.22e-143 |
|
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: 424.35 E-value: 8.22e-143
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 153 YENLYASALARAQADWYVGINATRALT--CKYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAISNGLKLIWQD 230
Cdd:pfam01131 3 DENLVDAQLARRELDWLIGFNLSRLLTlkLKGNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDGGGVFAN 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 231 NRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYESHKLLTY 310
Cdd:pfam01131 83 AKWKRGRIFDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEKHGLITY 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 311 PRTDSRYITTDiiDTLRERVKACGV--GEYSKAAFKILKKPikTNKSFVDNKKVSDHHAIIPTEQGVILSSLNDRERRIY 388
Cdd:pfam01131 163 PRTDSTYLSDD--ATLKAILEYLTKnyGKYLPYAPRLLKKT--KGKLTVGNAKVTAHEAIRPTGDIPVLPELSDDERKLY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 389 DLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNGNFEEDgsnedisDQILPNVNKGDELKISSIS 468
Cdd:pfam01131 239 ELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKED-------EEELPELKEGEELKVTQVE 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 469 QTKGETKPPEPFDEGSLLSAMENprkymksenrkllktieetGGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQL 548
Cdd:pfam01131 312 VEEKKTKPPPRYTEASLIKAMEK-------------------AGIGTPATRATIIETLLERGYVERKKKSLVPTELGKAL 372
|
410 420 430
....*....|....*....|....*....|....*...
gi 1160633851 549 LDLVP--EDLKSPTLTAQWEQKLSSISKGLLKKNSFIN 584
Cdd:pfam01131 373 VEALEkfPDLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
3-617 |
6.84e-135 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 422.83 E-value: 6.84e-135
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLSCN----KKGNGYIEGKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDLPMLPSPLKLVVI 78
Cdd:PRK14724 2 KTLVIAEKPSVAQDIVRALTPVagkfEKHDEHFESDSYVVTSAVGHLVEIQAPEEFDVKRGKWSFANLPVIPPYFDLKPV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 79 KRSGKQFNIVKKQMNRKDVEEIVIATDAGREGELVARWIIE-----KSRVKKPIKRLWISSVTDKAIKEGFKNLKPGRGY 153
Cdd:PRK14724 82 DKTKTRLNAVVKLAKRKDVTELVNACDAGREGELIFRLIEQyaggaKGGLGKPVKRLWLQSMTPQAIRDGFDNLRSDAQM 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 154 ENLYASALARAQADWYVGINATRALTCkYNAQ------LSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAISNG---- 223
Cdd:PRK14724 162 QGLASAARSRSEADWLVGINGTRAMTA-FNSRdggfflTTVGRVQTPTLSLVVEREEKIRKFVSRDYWEIHAGFHAeage 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 224 ---------LKLIWQDNRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKySNGLYDLTELQRDANRIFGYSPKET 294
Cdd:PRK14724 241 ylgkwfdpqWKKASDDPEARADRVWSEREARAIADAVRGKAATVTEESKPTTQA-SPLLFDLTSLQREANGKFGFSAKTT 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 295 LSIMQRLYESHKLLTYPRTDSRYITTDIIDTLR---ERVKACGVGEYSKAAFKILKKP-IKTNKSFVDNKKVSDHHAIIP 370
Cdd:PRK14724 320 LALAQSLYERHKALTYPRTDSRALPEDYLPVAKqtfEMLATSGMRHLAPFAQQALDGNyVRPSKRIFDNSKVSDHFAIIP 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 371 TEQGVilSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYN---GNFEEDGSNED 447
Cdd:PRK14724 400 TTQAP--SGLSEAEQKLYDLVVRRFMAVFFPSAEYQVTTRISQVVGHSFKTEGKVLVKPGWLAIYGkeaANEVEDAKDGD 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 448 ISDQILPnVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMENPRKYMksENRKLLKTIEETgGLGTVATRADIIEKLY 527
Cdd:PRK14724 478 KGQPLVP-VKPGEMVRTEFAEAKGLKTKPPARYSEATLLGAMESAGKQI--DDDELREAMQEK-GLGTPATRAAIIEGLL 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 528 DKFLIEKKGKNIFTTSKGRQLLDLVP----EDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKnsqeK 603
Cdd:PRK14724 554 TEKYMLREGRELIPTAKAFQLMTLLRglgvEELSRAELTGEWEYKLAQMEKGQLSREAFMQQIAAMTEKLVKKAK----E 629
|
650 660
....*....|....*....|
gi 1160633851 604 FKHDNITGN------RCPQC 617
Cdd:PRK14724 630 YDRDTIPGDyatlstPCPNC 649
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
5-660 |
4.71e-109 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 350.45 E-value: 4.71e-109
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 5 LVLAEKPSVGKDLARVLSCNK------KGNGYIE----GKKYIVTWALGHLVTLGDPEiyneKYKAWRLEDLPMLP--SP 72
Cdd:PRK07219 3 LIIAEKNNAARRIADILSGGKakkkrvNGVPYYEferkGEKWIVIGLSGHIVTVDFPE----EYGDWRDVDPAELIdaDP 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 73 LKLVVIKrsgKQFNIVKKQmnRKDVEEIVIATDAGREGELV---ARWIIEKSRvKKPIKRLWISSVTDKAIKEGFKNlkP 149
Cdd:PRK07219 79 VKKITKQ---NYINALKKL--AKDADEIIIATDYDREGELIgkeAYHILREVC-QVPVKRARFSSLTKKEIRKAFEN--P 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 150 GRGYENLYASALARAQADWYVGINATRALTC-----KYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAI-SNG 223
Cdd:PRK07219 151 DEIDFNLADAGEARQIIDLYWGAALTRFLSLsvrqlGRWDFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEALlDKE 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 224 LKLIWQDNR--TNNNRIFNKDKCDKILRSIKG-KNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQR 300
Cdd:PRK07219 231 AQYFYRDLIggHEAEKFWDEEEAEEIYEKLKGaKEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRAMEIAEK 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 301 LYEShKLLTYPRTDSRYITTDIidTLRERVKA-CGVGEYSKAAFKILKKPiktNKSFVDNKKVS-DHHAIIPTEqGVILS 378
Cdd:PRK07219 311 LYTA-GYISYPRTDNTVYPDDL--DPKELLKKlSKKKEYGPYAESILEQE---NIKPTEGKKETtDHPPIHPVD-VPKRE 383
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 379 SLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYngnfeedgSNEDISDQILPNVNK 458
Cdd:PRK07219 384 ELSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVY--------PYEKFDEKELPDLEE 455
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 459 GDELKISSISQTKGETKPPEPFDEGSLLSAMENprkymksenrkllktieetGGLGTVATRADIIEKLYDK-FLIEkkGK 537
Cdd:PRK07219 456 GEKLKVNKIEIEAKETQPPKRYTQSSLIKEMEK-------------------RGLGTKATRHDIIEKLYKRgYVIE--GD 514
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 538 NIFTTSKGRQL---LDLVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNS--------QEKFKH 606
Cdd:PRK07219 515 PPRPTDLGIAVieaLEKYAPEIVSEEMTAQLEADMQAIEDGKKKKEDVTEESREMLKEILSELKEKrkeigdhlAGSLKA 594
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1160633851 607 DNITGN---RCPQCDKFMLEVNSKKGKMLV-CQDR-ECGY-----RKSISKITNARCPNCHKKM 660
Cdd:PRK07219 595 ENRSLKtigKCPECGGDLIIIRTDKGSRFVgCSGYpDCRNtfplpSTGRIKVLDEVCEKCGLPV 658
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
154-594 |
1.73e-108 |
|
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: 334.96 E-value: 1.73e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 154 ENLYASALARAQADWYVGINATRALTCKYNAQ--LSCGRVQTPTLSIISKREEEIKKFKPKTFYGIeaisnglkliwqdn 231
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRKgvLSAGRVQSPTLGLIVEREREIKAFVPEDYWEI-------------- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 232 rtnnnrifnkdkcdkilrsikgKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYEsHKLLTYP 311
Cdd:cd00186 67 ----------------------KEAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYE-AGLITYP 123
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 312 RTDSRYITTDIIDTLRERVKACGVGEYSKAAFKILKKPIKTNKsfvdnKKVSDHHAIIPT---EQGVILSSLNDRERRIY 388
Cdd:cd00186 124 RTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGRRNPKRGK-----KEQGAHEAIRPTkvaPTPELEANLSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 389 DLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNgnfEEDGSNEDisdqILPNVNKGDELKISSIS 468
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYP---EEKDDEEE----EPPPLKEGDELKLEEVE 271
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 469 QTKGETKPPEPFDEGSLLSAMENPrkymksenrkllktieetgGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQL 548
Cdd:cd00186 272 LEEKETQPPPRYTEASLIKLMEKR-------------------GIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAV 332
|
410 420 430 440
....*....|....*....|....*....|....*....|....*....
gi 1160633851 549 LDLVPE---DLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIV 594
Cdd:cd00186 333 IELLEKhfpELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
2-618 |
1.60e-74 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 254.15 E-value: 1.60e-74
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 2 NKTLVLAEKPSVGKDLARVLS-----CNKKGNGYIE----GKKYIVTWALGHLVTL-----GDPeIYNEKYKawrledlp 67
Cdd:PRK05776 1 GYILVIAEKPKAARKIAEALSekpirCRIYGVPYWIvkrdGKKIVVAPAAGHLFGLhtkskGFP-VFDYEWK-------- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 68 mlpsPLkLVVIKRSG---KQFNIVKKQMnrKDVEEIVIATDAGREGELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGF 144
Cdd:PRK05776 72 ----PL-YEIDKGSKytkKYYELLSSLS--KYADEFINACDYDIEGSVIGYLIIKYLGDPKKAKRMKFSALTKSDIRRAF 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 145 KNLKPgRGYENLYAsALARAQADWYVGINATRALTCKYNAQ------LSCGRVQTPTLSIISKREEEIKKFKPKTFYGIE 218
Cdd:PRK05776 145 RNLET-LDYEMINA-GIARHELDWLWGINVSRALMSSVRDAsgkrviLSAGRVQSPTLKYVVEREIERNLFVPLPYFSVS 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 219 AI--SNGLKLiwqDNRTNNNRIFNKDKCDKILRSIKG-KNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETL 295
Cdd:PRK05776 223 IIieKNGYEF---TLKYENKKFETKEEAKEILEEIKKtGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGFSPYKTQ 299
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 296 SIMQRLYEShKLLTYPRTDSRYI--TTDIIDTLRERVKACGVGEYSKAAFKILKKPIKTNKSFVDNKKvsdHHAIIPTeq 373
Cdd:PRK05776 300 SIAEDLYLD-GLISYPRTNSQKLppTLNIRNILKGLSRSPQYRPLVNLLLKETKGVLKPVQGPKDDPA---HPAIYPT-- 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 374 GVILSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDE--TFTAKGKIVISQGWKEVYN-GNFEEDgsnedisd 450
Cdd:PRK05776 374 GEPPKNLSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPGFplVFSASGQRIEERGWLKYYPfHKFDEE-------- 445
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 451 qILPNVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMENprkymksenrkllktieetGGLGTVATRADIIEKLYDKF 530
Cdd:PRK05776 446 -ELPLLKKGERVKIVDVKVRKSYTKPPSRYSKASLLKWMES-------------------VGIGTEATRARIIETLFKRG 505
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 531 LIEKKGKNIFTTSKG----RQLLDLVPeDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNSQEKF-- 604
Cdd:PRK05776 506 YLTSNGKYIEVTPLGfgvaEVLEKYFP-DIVSVELTRDFEEKLEMIRTGKATREEVIEEAKETLNKLLEEFKKNKDEIge 584
|
650
....*....|....*....
gi 1160633851 605 KHDNITG-----NRCPQCD 618
Cdd:PRK05776 585 ELAKALGlikpvGKCKICG 603
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
5-718 |
6.69e-74 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 254.30 E-value: 6.69e-74
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 5 LVLAEKPSVGKDLARVLSCNKKGNGYIEGKKY----------IVTWALGHLVTLGDPEIYN--EKYKAWRLED--LPMLP 70
Cdd:PRK07220 3 LIITEKNIAARRIAQILAPKKPKKTRVSGVDVyryedngddtVVVGLSGHIVNIDFPKEYNnwQKVDARDLIDaeIITTP 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 71 SPLKLV-VIKRSGKqfnivkkqmnrkDVEEIVIATDAGREGELV---ARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKN 146
Cdd:PRK07220 83 TQKKIVtALKKLGK------------EADRVTIATDYDREGELIgveALNIIKKVNPDIKFDRVRYSAITKKEIERAFSN 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 147 LKPGRgyENLYASALARAQADWYVGINATR--ALTCKY--NAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEA-IS 221
Cdd:PRK07220 151 PVEVD--FNLADAGHSRQVIDLVWGAALTRyiSLAAGRlgKMFLSVGRVQSPTLALIVDREKEREAFVPTPYWEIYAtLE 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 222 NGLKLIwqDNRTNNNRIFNKDKCDKILRSIkGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIfGYSPKETLSIMQRL 301
Cdd:PRK07220 229 NNGETF--VAQHSTRRFWEKEEADRVFEKL-GKTAEVTEVEKGTKTDKPPTPFNTTEFISAANSI-GFSAANAMRIAESL 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 302 YeSHKLLTYPRTDSRyITTDIIDtLRERVKACGVGEYSKAAFKILKKP-IKTNKSfvdNKKVSDHHAIIPTEQGViLSSL 380
Cdd:PRK07220 305 Y-TNGYISYPRTDNT-VYPESLD-LREQIEIFAEGPFGEYAQKLLEKGeLVPTRG---KKETTDHPPIYPASLAK-KSEL 377
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 381 NDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYNGNFEEdgsnedisDQILPNVNKGD 460
Cdd:PRK07220 378 KEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYNAPE--------DRLLPELSEGE 449
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 461 ELKISSISQTKGETKPPEPFDEGSLLSAMENPrkymksenrkllktieetgGLGTVATRADIIEKLYDKFLIEkkGKNIF 540
Cdd:PRK07220 450 ELKVKKKEMLDKETQPPGRYGQGRLIKLMEDL-------------------GLGTKATRHEIISKLYSRAYIH--GNPIQ 508
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 541 TTSKG----RQLLDLVPEdLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNSQEKF--------KHDN 608
Cdd:PRK07220 509 PTNTAfavvDALEKYAPT-ITKPDMTSRLEEDMDKIAEGKIKEDAVLEESREMLEQVFDELDKNREKIreslreglREDK 587
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 609 ITGNrCPQCDKFMLEVNSKKGKMLV-CQDR-ECGYRKSISK-----ITNARCPNC---HKKMELCGEGEGKIFVCRCGYK 678
Cdd:PRK07220 588 IIGK-CPLCGSDLMVRRSKRGSRFIgCEGYpECTFSLPLPKsgqiiVTDKVCEAHglnHIRIINGGKRPWDLGCPQCNFI 666
|
730 740 750 760
....*....|....*....|....*....|....*....|...
gi 1160633851 679 EklssFNKRKKKETNKASKKDVSKYIKEQK---KSKDEPFNNA 718
Cdd:PRK07220 667 E----WQKKQKEEKAQQPKKEKPKSIKDIKgigKKTAEKLEEA 705
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
262-548 |
3.23e-72 |
|
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: 235.60 E-value: 3.23e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 262 KKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRLYEsHKLLTYPRTDSRYITTDIIDTLRERVKAcgvgEYSKA 341
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYE-KGLITYPRTDSTRLSEEAVLEARNYIQK----LYGKE 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 342 AFKILKKPIKTNKSFVDNKKVSDHHAIIPT---EQGVILSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDET 418
Cdd:smart00437 76 YLDLAVVLLKPRKPRKGKKAQGAHEAIRPTkpiFTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEK 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 419 FTAKGKIVISQGWKEVYNgnfEEDgsneDISDQILPNVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMENPrkymks 498
Cdd:smart00437 156 FKAKGKTLLFDGWLKVYP---EEK----KEEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKR------ 222
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 1160633851 499 enrkllktieetgGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQL 548
Cdd:smart00437 223 -------------GIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
1-662 |
2.37e-56 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 204.32 E-value: 2.37e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 1 MNKTLVLAEKPSVGKDLARVLscnkkgngyieGKKYIVTWALGHLVTLG------DPEiynekykawrlEDLPMlpsplK 74
Cdd:PRK06599 1 MAKKLVIVESPAKAKTIKKYL-----------GKDYKVLASFGHVRDLPkkkggvDPD-----------NDFAP-----K 53
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 75 LVVIKRSGKQFNIVKKQMnrKDVEEIVIATDAGREGELVArW-----IIEKSRVKKPIKRLWISSVTDKAIKEGFKNlkP 149
Cdd:PRK06599 54 YEIIEGKEKVVDALKKAA--KKADAVYLATDPDREGEAIA-WhiaevLKEAKLKDKNVKRVVFNEITKKAVQEAIEN--P 128
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 150 GRGYENLYASALARAQADWYVGINATRALTCKYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAI---SNG--- 223
Cdd:PRK06599 129 RDIDMDLVDAQQARRALDYLVGFKLSPLLWKKVRRGLSAGRVQSVALRLICEREDEIEAFIPQEYWTIEADlatSNGepf 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 224 -LKLI-WQDNRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQRL 301
Cdd:PRK06599 209 tAKLVeVNGKKLEKFSITNEEQAKALVKALEGQAYTVDKIEKKERKRNPPPPFITSTLQQEASRKLGFSAKKTMRIAQKL 288
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 302 YE-------SHKLLTYPRTDSRYITTDIIDTLRERVKACGVGEYskaafkILKKP-IKTNKSfvdnKKVSD-HHAIIPT- 371
Cdd:PRK06599 289 YEgidlgegTVGLITYMRTDSVRLSNEALDEARKYITKKYGKEY------LPAKPrVYKKKS----KNAQEaHEAIRPTs 358
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 372 -----EQgvILSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKI--IKAKIKDETFTAKGKIVISQGWKEVYNGNFEEDgs 444
Cdd:PRK06599 359 inrtpES--LKPYLTPDQFKLYELIWKRTVASQMAPAILDQTSvdIASENGKYVFRATGSVILFPGFLKVYGESKDDE-- 434
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 445 nEDISDQILPNVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMENPrkymksenrkllktieetgGLGTVATRADIIE 524
Cdd:PRK06599 435 -EEDDEKLLPPLKEGEKLKLDELLPEQHFTEPPPRYSEASLVKKLEEY-------------------GIGRPSTYASIIS 494
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 525 KLYDKFLIEKKGKNIFTTSKGRQLLDLVPE---DLKSPTLTAQWEQKLSSISKG------LLKK--NSFINDMKDYSKEI 593
Cdd:PRK06599 495 TLQDREYVELEKKRFIPTDLGRIVNDFLVEhfpKYVDYDFTAGLEDELDEIAEGkkdwkpVLREfwEPFISNLEKVEEDV 574
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 594 VDEIKNSQEkfkhdniTGNRCPQCDKFMLEVN-SKKGKMLVCQD-RECGYRKSISK-----------ITNARCPNCHKKM 660
Cdd:PRK06599 575 RTEKVTQEE-------TDETCPKCGGGPLVLKlGKNGKFLGCSGyPECKYTKNITRdedepieeeeiVEEEKCPKCGGPL 647
|
..
gi 1160633851 661 EL 662
Cdd:PRK06599 648 VL 649
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
3-147 |
1.01e-52 |
|
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: 179.35 E-value: 1.01e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLSCNKKGNG-------YIEGKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDlPMLPSPLKL 75
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGkgryyefYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLED-PLFPAPFKL 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1160633851 76 VVIKRSGKQFNIVKKQMNRKDveEIVIATDAGREGELVARWIIE--KSRVKKPIKRLWISSVTDKAIKEGFKNL 147
Cdd:cd03362 80 KVDKGKKKQFKVLKKLAKRAD--EIVIATDADREGELIGREILEyaKCVKRKPVKRAWFSSLTPKAIRRAFKNL 151
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
30-702 |
2.16e-46 |
|
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: 176.21 E-value: 2.16e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 30 YIEGKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEDLPMLPSPLKLVVIKRSGKQFNIVKKQMNRKDVEEIVIATDAGRE 109
Cdd:COG0551 2 EKEIAAALAAAKEAVKLVKKKKKKKKEGKKKGLAGALGLKKKLVDLLLKEKLKKLVENEKLIAELDIKDLKKLKKDKKKK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 110 GELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKNLKPGRGYENLYASALARAQADWYVGINATRALTCKYNAQLSCG 189
Cdd:COG0551 82 AKALAAALAAADDDAIEAAAAADEEEALKAAEALEAIRKAVVEEVKSRARKRAARAPADVAAAAAAAALARLLLLAAASR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 190 RVQTPTLSIISKREEEIKKFKPKTFYGIEAISNGLKLIWQDNRTNNNRIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKY 269
Cdd:COG0551 162 ALRLLLLLAAGRLRLLSAVAAGLLELEELLKEFEEEEEEEAAEEEEEEEEAKKKKEEDKKKKKKKKKKDKEEETKAIKKK 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 270 SNGLYDLTELQRDANRIFGYSPKETLSIMQRLYESHKLLTYPRTDSRYITTDIIDTLRERVKACGVGEYSKAAFKILKKP 349
Cdd:COG0551 242 KKAAEAVLAAKKAAKEAKAKKELPTTTTDALPEALATTSLTAAAAASALAAALLEEEGELLYTGGYIRYTRTPKSSEADA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 350 IKTNKSFVDNKKVSDHHAIIPTEQGVILSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQ 429
Cdd:COG0551 322 LAALEALKKIAEEPPDERAKKKKKKAKKKKASEAKETTDHPPIPPTTAAALLELLEDRKLLLELLVRRRFAAAADLAKVE 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 430 GWKEVYNGNFEEDGSNEDISDQILPNVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMENPRKYMKSENRKLLKTIEE 509
Cdd:COG0551 402 ELTKVEEADEEELVEAEGGLLEVLGEEEEDDEDEEEELLLPPLEEGEPLLLEELLLEKQTTTPPPRYTTELLLKKLEEEG 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 510 TGGLGTVATRADIIEKLYDKFLIEKKGKNIFTTSKGRQLLDLVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDY 589
Cdd:COG0551 482 GGGRGTTATIIILILKRRYVVLEEKKTTPTELLVEVVLLLLLPFPKLEDTTETAEEEEALLDKEEGKEDKVVEIREEEYP 561
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 590 SKEIVDEIKNSQEKFKH---DNITGNRCPQCDKFMLEVNSKKGKMLVCQD-RECGYRKSISK--ITNARCPNCHKKMELC 663
Cdd:COG0551 562 FFKKLLEIAEEEGEEELseeDEVLGEKCPKCGKPLVIKKGRYGKFLGCSNyPECKYTKPLPKpeVTGVKCPKCGKKLVLR 641
|
650 660 670 680
....*....|....*....|....*....|....*....|....
gi 1160633851 664 GEGEGKIF-VC----RCGYKEKLSSFNKRKKKETNKASKKDVSK 702
Cdd:COG0551 642 KSKKGKVFyGCsnypKCKFTEWDKPVKEPCPKCGSPLVEKKTKK 685
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
3-621 |
1.34e-45 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 175.37 E-value: 1.34e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSvgKdlArvlscnKKGNGYIeGKKYIVTWALGH---LVTLGDPEIYNEKYKAW-RL-----EDLPMLpspl 73
Cdd:PRK07561 2 KSLVIVESPA--K--A------KTINKYL-GSDYVVKASVGHirdLPTSASSVPAKEKGALWaRMgvdpdHDFEAL---- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 74 kLVVIKRSGKQFNIVKKQMnrKDVEEIVIATDAGREGELVArW----IIEKSrvKKPIKRLWISSVTDKAIKEGFKNlkP 149
Cdd:PRK07561 67 -YEVLPGKEKVVSELKKAA--KDADELYLATDPDREGEAIA-WhlleVLGGD--DVPVKRVVFNEITKNAIQEAFEN--P 138
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 150 GRGYENLYASALARAQADWYVGINATRALTCKYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAI---SNG--- 223
Cdd:PRK07561 139 RELDINLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEEYWDIHADlttPRGdaf 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 224 -LKLI-WQDNRTNNNRIFNKDKCDKILRSIKGKNAQVIEV--KKTYKKKY-----SnglydlTeLQRDANRIFGYSPKET 294
Cdd:PRK07561 219 eARLThLDGKKFAPVDLLNEAQAEAAVAALEGARYSVASVedKPTTRKPSapfttS------T-LQQEASRKLGFSVKKT 291
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 295 LSIMQRLYEShKLLTYPRTDSRYITTDIIDTLRERVKAcgvgEYSKaafKIL-KKPIK-TNKSfvdnkKVSD--HHAIIP 370
Cdd:PRK07561 292 MRIAQRLYEA-GYITYMRTDSTNLSQEAINAARGYIGD----NYGK---KYLpEKPRQySSKA-----KNAQeaHEAIRP 358
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 371 TEQGVI---LSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYngnfeEDGSNED 447
Cdd:PRK07561 359 SDVFRTpdqLKGLEGDAQRLYELIWKRFVASQMAPARYDSTTVTIAAGDAELRATGRVLRFDGFLKVY-----VEGRDDA 433
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 448 ISDQ--ILPNVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMEnprkymksenrKLlktieetgGLGTVATRADIIEK 525
Cdd:PRK07561 434 LDDEdrRLPALKVGDALTLEKLDPTQHFTKPPARYSEASLVKELE-----------KL--------GIGRPSTYASIIST 494
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 526 LYDKFLIEKKGKNIFTTSKGRQLLDLVPE---DLKSPTLTAQWEQKLSSISKGLLKKNSFINDM-KDYSKEIVDEIKNSQ 601
Cdd:PRK07561 495 IQDRGYVRLENRRFYPEKMGRIVTDRLEEffpRLVDYDFTARMEEELDDIANGEADWKPVLDDFyKDFSQQLEKAEELRE 574
|
650 660
....*....|....*....|...
gi 1160633851 602 E---KFKHDNITGNRCPQCDKFM 621
Cdd:PRK07561 575 EggmRPNQMVITDRDCPTCGRGM 597
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
3-147 |
2.71e-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: 155.85 E-value: 2.71e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLSC-NKKGNGYIEGKKYIVTWALGHLVTLGDPEIYNEKYKAWRLEdlpMLPSPLKLVVIKRS 81
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKgSKKKGFYGEGGGYVVTASVGHLLELPFPEEYVDWDKDWPLE---LFPFEPKYVVIPDK 77
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1160633851 82 GKQFNIVKKQMNRKDveEIVIATDAGREGELVARWIIEKSRV-KKPIKRLWISSVTDKAIKEGFKNL 147
Cdd:cd01028 78 KKQLKALKKLAKKAD--EIVLATDPDREGELIAWEILEVLKCdNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
5-619 |
3.59e-44 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 171.18 E-value: 3.59e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 5 LVLAEKPSVGKDLARVLScnkkGNGYIEGKK-----------YIVTWALGHLVTLGdpeiYNEKYKAWRLEDLPmlpsPL 73
Cdd:PRK14973 3 LIIAEKNIAANRIAQILA----GKTKVQVKKdggvstysfddTVVVGLRGHVVEVD----FEPGYTNWRSEEHT----PR 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 74 KLV---VIKRSGKQfNIVK-KQMNRKDVEEIVIATDAGREGELVARWIIEKSRVKKP---IKRLWISSVTDKAIKEGFKN 146
Cdd:PRK14973 71 SLIdadTIKKPTEK-KIVGlIQKLAKKADRVTIATDFDTEGELIGKEAYELVRAVNPkvpIDRARFSAITKEEIVTAFAE 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 147 lkPGRGYENLYASALARAQADWYVGINATR--ALTCKYNAQ--LSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAISN 222
Cdd:PRK14973 150 --PTDLDFALAAAGEARQIIDLIWGASLTRfiSLAAHRGGDniLSVGRVQSPTLAMIVDREKEIEAFVPEKYWMLSLATE 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 223 --GLKLIwqdNRTNNNRiFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIfGYSPKETLSIMQR 300
Cdd:PRK14973 228 kdGEGIE---ARHTHGR-FTDSAAAEAAYDATKEPLVVTEVKEGHKVDRAPTPFDTTTFIVAASRL-GFSAANAMRIAED 302
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 301 LYeSHKLLTYPRTDSRYITTDIidTLRERVKACGVGEYSKAAFKILK--KPIKTNksfvDNKKVSDHHAIIPTeqGVIL- 377
Cdd:PRK14973 303 LY-MNGYISYPRTDNTIYPKSL--DLNGVLATLAKGAFSKDVAWVKDnrRPVPTR----GKKSSTDHPPIHPT--GVATr 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 378 SSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDETFTAKGKIVISQGWKEVYngnfeedgSNEDISDQILPNVN 457
Cdd:PRK14973 374 EELGDDRWKLYELVVRRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVY--------PYSEAKENILPAFA 445
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 458 KGDELKISSISQTKGETKPPepfdegsllsamenPRkYMKSenrKLLKTIEETgGLGTVATRADIIEKLYDKFLIEkkGK 537
Cdd:PRK14973 446 LGEKLPILAVNLEEKETQPP--------------AR-YSQS---RLIQRMEEL-GLGTKSTRHEVIGKLVSRKYIE--GN 504
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 538 NIFTTSKGRQL---LDLVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSKEIVDEIKNSQEKFKHD------- 607
Cdd:PRK14973 505 PLRPTLVGRAVtesLEEHAGTITEPDMTQTLEEHMQQIKERKRTRDDVVTESRKMLHRAFDELEANEAVIGRDimertae 584
|
650
....*....|..
gi 1160633851 608 NITGNRCPQCDK 619
Cdd:PRK14973 585 ELTIGPCPVCGK 596
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
1-600 |
2.53e-42 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 164.94 E-value: 2.53e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 1 MNKTLVLAEKPSVGKDLARVLscnkkgngyieGKKYIVTWALGHLVTL------GDPEiynekykawrlEDLPMlpsplK 74
Cdd:PRK08780 1 MSKHLVIVESPAKAKTINKYL-----------GKDFTVLASYGHVRDLvpkegaVDPE-----------NGFAM-----R 53
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 75 LVVIKRSGKQFNIVKKQMNRKDveEIVIATDAGREGELVARWIIEKSRVK-----KPIKRLWISSVTDKAIKEGFknLKP 149
Cdd:PRK08780 54 YDLIDKNEKHVEAIAKAAKSAD--DLYLATDPDREGEAISWHLAEILKERgllkdKPMQRVVFTEITPRAIKEAM--AKP 129
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 150 GRGYENLYASALARAQADWYVGINATRALTCKYNAQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAISN------G 223
Cdd:PRK08780 130 RDIASDLVDAQQARRALDYLVGFNLSPLLWRKIQRGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAhpsqpfN 209
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 224 LKLIWQD-NRTNNNRIFNKDKC---DKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFGYSPKETLSIMQ 299
Cdd:PRK08780 210 AKLIKLDgQKFEQFTITDGDTAeaaRLRIQQAAQGTLHVTDVESKERKRNPAPPFTTSTLQQEASRKLGFTTRRTMQVAQ 289
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 300 RLYE--------SHKLLTYPRTDSRYITTDIIDTLRERVKacgvGEYSKAAFkilkkPIKTNKSFVDNKKVSD-HHAIIP 370
Cdd:PRK08780 290 KLYEgvdlgdegSVGLITYMRTDSVNLSQDALAEIRDVIA----RDYGTASL-----PDQPNTYKTKSKNAQEaHEAVRP 360
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 371 T------EQgvILSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIK-AKIKDETFTAKGKIVISQGWKEVYNGNFEEDG 443
Cdd:PRK08780 361 TsalrtpAQ--VARFLSDDQRRLYELIWKRAVACQMIPATLNTVSVDlAAGSEHVFRATGSTVVVPGFLAVYEEGKDDKS 438
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 444 SNEDISDQILPNVNKGDELKISSISQTKGETKPPEPFDEGSllsamenprkymksenrkLLKTIEETgGLGTVATRADII 523
Cdd:PRK08780 439 AEDEDEGRKLPPMKEGDNVPLERIRAEQHFTEPPPRYTEAS------------------LVKALEEY-GIGRPSTYASII 499
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 524 EKLYDKFLIEKKGKNIFTTSKGRQLLDLVPEDLKSPT---LTAQWEQKLSSISKGllkKNSFINDMKDY---SKEIVDEI 597
Cdd:PRK08780 500 STLQFRKYVEMEGRRFRPTDVGRAVNKFLTGHFTRYVdydFTARLEDDLDAVSRG---EKEWIPLMEKFwgpFKELVEEK 576
|
...
gi 1160633851 598 KNS 600
Cdd:PRK08780 577 KDS 579
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
1-662 |
1.38e-35 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 144.58 E-value: 1.38e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 1 MNKTLVLAEKPSVGKDLARVLscnkkgngyieGKKYIVTWALGHLVTLGDPE----IYNE---KYKawrledlpMLPspl 73
Cdd:PRK06319 1 MKKSLIIVESPAKIKTLQKLL-----------GEGFIFASSLGHIVDLPAKEfgidIENDfepDYQ--------ILP--- 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 74 klvvikrsGKQFNIVKKQMNRKDVEEIVIATDAGREGELVArWIIEKSRVKKP-IKRLWISSVTDKAIKEGFKNlkPGRG 152
Cdd:PRK06319 59 --------DKEEVINKICKLAKKCDVVYLSPDPDREGEAIA-WHIANQLPKNTkIQRISFNAITKGAVTEALKH--PREI 127
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 153 YENLYASALARAQADWYVGINATRALTCKYN--AQLSCGRVQTPTLSIISKREEEIKKFKPKTFYGIEAI---------- 220
Cdd:PRK06319 128 DMALVNAQQARRLLDRIVGYKISPILSRKLQrrSGVSAGRVQSVALKLVVDREKAIEAFVPVEYWNIRVHlkdpktqktf 207
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 221 ------SNGLKliWQ----DNRTNNN--RIFNKDKCDKILRSIKGKNAQVIEVKKTYKKKYSNGLYDLTELQRDANRIFG 288
Cdd:PRK06319 208 wahlysVDGKK--WEkeipEGKTEDEvlLINSKEKADHIVELLESATYTVTRVESKEKRRNAYPPFITSTLQQEASRHFR 285
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 289 YSPKETLSIMQRLYE--------SHKLLTYPRTDSRYITTDIIDTLRERVKACGVGEYskaafkILKKPiktnKSFVDNK 360
Cdd:PRK06319 286 FSSSRTMNIAQTLYEgvdldsegATGLITYMRTDSVRTDPEALKQVRKYIEGTFGKEF------LPSSP----NVYTTKK 355
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 361 KVSD-HHAIIPTEQGV----ILSSLNDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIKDET-FTAKGKIVISQGWKEV 434
Cdd:PRK06319 356 MAQDaHEAIRPTDITLtpekLRSKLTEDQYKLYSLIWKRFVASQMIPAIYDTLAIRITTNKGIdLRATGSLLKFKGFLAV 435
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 435 YNGNFEEDGSNEDisDQILPNVNKGDELKISSISQTKGETKPPEPFDEGSLLSAMEnprkymKSenrkllktieetgGLG 514
Cdd:PRK06319 436 YEEKRDDEGDEEE--NIHLPKLHEQDVLTKEELSAEQAFTKPLPRFTEASLVKELE------KS-------------GIG 494
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 515 TVATRADIIEKLYDKFLIEKKGKNIFTTSKGR---QLLDLVPEDLKSPTLTAQWEQKLSSISKGLLKKNSFINDMKDYSK 591
Cdd:PRK06319 495 RPSTYATIMNKIQSREYTLKENQRLRPTELGKiisQFLETNFPRIMDIGFTALMEDELELIADNKKPWKLLLQEFWELFL 574
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 592 EIVDEIKnsQEKFKHDNITGNRCPQCDKFML-EVNSKKGKMLVCQDR-ECGYRKSISKIT------------NARCPNCH 657
Cdd:PRK06319 575 PVVVTAE--KEAFIPRIVTEIDCPKCHKGKLvKIWAKNRYFYGCSEYpECDYKTSEEELTfnkedyaedtpwDSPCPLCG 652
|
....*
gi 1160633851 658 KKMEL 662
Cdd:PRK06319 653 GEMKV 657
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
127-215 |
6.00e-31 |
|
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: 116.14 E-value: 6.00e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 127 IKRLWISSVTDKAIKEGFKNLKPGrgYENLYASALARAQADWYVGINATRALTCKYNAQ-LSCGRVQTPTLSIISKREEE 205
Cdd:smart00436 1 IKRIEFSEITKKAIREALKNPREI--DENLVNAQLARRILDRLIGFNLSRLLTKKLRNGvLSAGRVQTPTLGLIVERERE 78
|
90
....*....|
gi 1160633851 206 IKKFKPKTFY 215
Cdd:smart00436 79 IKNFVPKPYW 88
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
96-574 |
3.28e-23 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 105.41 E-value: 3.28e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 96 DVEEIVIATDAGREGELVA---RWIIEK--SRVKKPIKRLWISSVTDKAIKEGFKNLKPGRGYENLYASALARAQAD--- 167
Cdd:PTZ00407 124 NVTEIILATDPDREGELIAvhaLQTIKRlyPKLKVPFSRAYMHSITEDGIRKAMRERHVEACDYDLANAAETRHAMDrif 203
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 168 WYVGINATRALtckyNAQL-SCGRVQTPTLSIISKREEEIKKF--KPKTFYGIEAISN--------------------GL 224
Cdd:PTZ00407 204 GFLGSSVVRAA----NSQMrSIGRVQTPALILINEREDKIKAFleSNKSTFEVQAMCQfpsphgttfsqvvtitpdrkGG 279
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 225 KLIWQDNRTNNNRI--FNKDKCDKILRSikgKNAQVIEVKKTYKKKYSnglydLTELQRDANRIFGYSPKETLSIMQRLY 302
Cdd:PTZ00407 280 ASHWATEAEARRCLeqWKLNNCTGFSVP---LEPKPQPSVVPPPQPFT-----MATAIAKANRQLKYSSEMVSGCLQDLF 351
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 303 E-SHklLTYPRTDSRYIT----TDIIDTLRE----------RVKACGVGEYSKAAFKILKKPIKTNK---SFVDNkkVSD 364
Cdd:PTZ00407 352 QlGH--ITYPRTDSTRIDesalPDIYAAVKKefgkeflyrlEDRTVSAQEGKGSKKTGKKRSTKQKKgadTPVGN--VED 427
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 365 -HHAIIPTEQGVILSSL--NDRERRIYDLVVKRFLAVLYPPFEYEQKIIKAKIK----DE-TFTAKGKIVISQGWKEVYN 436
Cdd:PTZ00407 428 aHEAIRPTNIDTTGESLslSPPTRAVYDLVRRNTLAVFMIPMKTEKIVATVKFTsgsgEKlEFELQGKRVVEPGWTRAFH 507
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 437 GNFE----------------EDG-------SNE------DISDQILPNVNKGD-ELKISSISQTKgeTKPPEPFDEGSLL 486
Cdd:PTZ00407 508 KGDKgttgpaeetdeditavEEGapvvpslSQEefkaimNLRSQLGSGVQKGFfELRSPQVRENR--PVPPLPHSEGTLI 585
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 487 SAMENprkymksenrkllktieetGGLGTVATRADIIEKLYDK--FLIEKKGKnIFTTSKGRQLLDLVPEDLKSPT---L 561
Cdd:PTZ00407 586 EELKN-------------------NGVGRPSTYPMIVKTLLARgyIAVNPKGR-CETTPVGRMLVETAKSTFPSIVdigF 645
|
570
....*....|...
gi 1160633851 562 TAQWEQKLSSISK 574
Cdd:PTZ00407 646 TAAFEKKLDRIAK 658
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
3-146 |
7.20e-09 |
|
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: 54.49 E-value: 7.20e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLscnkkgngyieGKKYIVTWALGHLVTLGDPEIYNekykawRLEDLPMLPsplKLVVIKRSG 82
Cdd:cd03363 1 KKLVIVESPAKAKTIKKYL-----------GKEYEVLASVGHIRDLPKKGLGV------DGEDDGFEP---KYVVIPGKK 60
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1160633851 83 KQFNIVKKQmnRKDVEEIVIATDAGREGELVARWIIEKSRVKKPIKRLWISSVTDKAIKEGFKN 146
Cdd:cd03363 61 KVVKELKKL--AKKADEIYLATDPDREGEAIAWHLAEVLKLKKNVKRVVFNEITKEAIKEALKN 122
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
4-135 |
8.72e-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: 47.74 E-value: 8.72e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 4 TLVLAEKPSVGKDLARVLScnkkgngyieGKKYIVTWALGHLVTLgdpeiynekykawrledlpmlpsplklvVIKRSGK 83
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALG----------GGFQAVVAVLGHLLSL----------------------------EKGPKKK 42
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 1160633851 84 QFNIVKKQmnRKDVEEIVIATDAGREGELVARWIIEKSR-VKKPIKRLWISSV 135
Cdd:pfam01751 43 ALKALKEL--ALKAKEVILATDPDREGEAIALKLLELKElLENAGGRVEFSEL 93
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
3-132 |
8.60e-05 |
|
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173773 [Multi-domain] Cd Length: 83 Bit Score: 41.64 E-value: 8.60e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1160633851 3 KTLVLAEKPSVGKDLARVLscnkkgngyieGKKYIVTWALGHLvtlgdpeiynekykawrledlpmlpsplklvvikrSG 82
Cdd:cd00188 1 KKLIIVEGPSDALALAQAG-----------GYGGAVVALGGHA-----------------------------------LN 34
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 1160633851 83 KQFNIVKKQMnrKDVEEIVIATDAGREGELVARWIIEK-SRVKKPIKRLWI 132
Cdd:cd00188 35 KTRELLKRLL--GEAKEVIIATDADREGEAIALRLLELlKSLGKKVRRLLL 83
|
|
| RPOL9 |
smart00661 |
RNA polymerase subunit 9; |
653-701 |
3.47e-03 |
|
RNA polymerase subunit 9;
Pssm-ID: 197822 Cd Length: 52 Bit Score: 36.21 E-value: 3.47e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|
gi 1160633851 653 CPNCHKKMELCGEGEGKIFVCR-CGYKEKLSSFNKRKKKETNKASKKDVS 701
Cdd:smart00661 3 CPKCGNMLYPREGKEKRRFVCRkCGYEEPAEQKYVYKEKLKHSKDELTVI 52
|
|
| |
