|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
1-674 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 674.18 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNPQYFDGYIVCNNDTVSWAIGHLLKLIPPELKTPEYKSWSKNTLPLQLRPLQYIVIPKTE 80
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 81 KQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDNRAFYGLYQKALARS 160
Cdd:PRK07726 81 KQFNVVKKLLKQATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALARS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 161 AGDYLFGLNMTRAYTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDTIISpMLVPPEdAP 240
Cdd:PRK07726 161 RADWLVGINMTRAYTLLGRKAGYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHLTPGERFTA-KWQPSE-PY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 241 VDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREEYRAITYN 320
Cdd:PRK07726 239 QDEEGRLLDRPLAEQVVARIQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 321 RSDCRYLSEEQFSQSPATLAMLSSFFPELGKIFSHIDSGRKSRAFNDKKISAHTAIIPTPTPTGLDQMNEDEMRVYKAIV 400
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISKVDPYLLLAPPVLDPSIRSRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDLIA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 401 AQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILLADRDEETLPDCKLfdaiTSLTKGQQLVCSSVNSRKET 480
Cdd:PRK07726 399 RRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKEEDEEKEQPL----PVLAKGDELKVEKGEVKEGQ 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 481 STPPPLYTEASLLEDLRRVARYVEDPRIRQLLldrdegkeEERGGIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGLS 560
Cdd:PRK07726 475 TQPPKRFTEGTLLSAMENIARFVQDKELKKTL--------KETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQ 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 561 FIHALPEVMTRPDMTALWhEQQ-SMIETGEISIDDFLDELEQFIFQQVSDV-------DISGLAVAEyqC-TCGGRYVRR 631
Cdd:PRK07726 547 LIDALPEELTSPDMTAKW-EQAlDQISEGQLSYQDFMQPLKQWLKQLVEQAkqssekyKFDNLTGPK--CpDCGKPMLKV 623
|
650 660 670 680
....*....|....*....|....*....|....*....|...
gi 486247088 632 RTDKGFFWGCSKYPDCRNTVPDRGgvpdfsrsefeRKVRCPVC 674
Cdd:PRK07726 624 KGKNGKMLVCQDRECGKRKNVSKK-----------TNARCPNC 655
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
1-648 |
9.73e-179 |
|
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: 526.72 E-value: 9.73e-179
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNPQYFDGYIVCNND-TVSWAIGHLLKLIPPELKTPEYKSWSKNTLPLQLRPLQYIVIPKT 79
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLEIGVGgFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 80 EKQFNVLSGLITR--ADMIIHAGDPDEEGQLLIEEILSYC--GNKAPVKRVLINDLNKDAVRQAMRNLQDNRAFYGLYQK 155
Cdd:TIGR01056 81 KKQFNVIKRILKEnkVDEVVIATDPDREGELIAREILDYLkvTDKVTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 156 ALARSAGDYLFGLNMTRAYTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEfIDTDTIISPMLVP 235
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLGREAGNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSAT-INKDEQEFTTEWQ 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 236 PEDapvDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREEYR 315
Cdd:TIGR01056 240 PYK---DEEERELHEFLAENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 316 AITYNRSDCRYLSEEQFSQSPATLAMLSSFFPELGKIFShIDSGRKSRAFNDKKISAHTAIIPTPTPTGLDQMNEDEMRV 395
Cdd:TIGR01056 317 LITYPRTDSRYLPEDEKEMLLEVLDALKVITPALLPIKK-RDELTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEERNV 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 396 YKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL--ADRDEE----TLPdcklfdaitSLTKGQQL 469
Cdd:TIGR01056 396 YKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALLgkQEEDEEtedtTLP---------AFQKGDEL 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 470 VCSSVNSRKETSTPPPLYTEASLLEDLRRVARYVEDPRIRQLLldrdegkeEERGGIGTPATRGHILNVLQVRGFIAVKN 549
Cdd:TIGR01056 467 DVETLELLEKQTKPPARYTEGTLLSAMTNPAAFVQDKGLKKTL--------KETKGLGTEATRADIIENLFKRGFIQKKK 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 550 KKVVPTELGLSFIHALPEVMTRPDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQVSDVDISGL---AVAEYQCTCGG 626
Cdd:TIGR01056 539 NKIYITKNGKLLCLLLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPEtiqKVAKEPVSCGG 618
|
650 660
....*....|....*....|..
gi 486247088 627 RYVRRRTDKGFFWGCSKYPDCR 648
Cdd:TIGR01056 619 IAKCPAKDNGRLIDCKKFPECT 640
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-607 |
4.76e-134 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 407.17 E-value: 4.76e-134
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGnpqyfDGYIVcnndtvSWAIGHLLKLIPPELKTPEYKSWskntLPlqlrplQYIVIPKTE 80
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLG-----KDYVV------TASVGHLRDLPKPELDVDVENDF----EP------KYEVIPGKK 59
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 81 KQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDNraFYGLYQKALARS 160
Cdd:COG0550 60 KQVKELKKLAKKADEVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRDI--DMNLVDAQQARR 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 161 AGDYLFGLNMTRAYTIAAREKghneiLSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDTIISPMLVPPedap 240
Cdd:COG0550 138 ILDRLVGYNLSPLLWKKVKRG-----LSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFKTGGGEFTAKLVKI---- 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 241 vdDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREEyRAITYN 320
Cdd:COG0550 209 --DGKKILDEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEV-GLITYM 285
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 321 RSDCRYLSEEQFSQSPATLAML--SSFFPElgkifshidsgrKSRAFN--DKKISAHTAIIPTPTPTGLDQMNEDEMRVY 396
Cdd:COG0550 286 RTDSVRLSEDAVAAAREYIEALygKEYLPE------------KPRVYKtsKNAQEAHEAIRPTGVTRTPESLSGDEFKLY 353
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 397 KAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGW-------SILLADRDEETLPDcklfdaitsLTKGQQL 469
Cdd:COG0550 354 DLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFlkvygegKDDEEEEEEKRLPP---------LKEGEKL 424
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 470 VCSSVNSRKETSTPPPLYTEASLLEDLrrvaryvedprirqllldrdegkeEERgGIGTPATRGHILNVLQVRGFIAVKN 549
Cdd:COG0550 425 KLKKIEPEQHFTKPPPRYTEASLVKAM------------------------EEL-GIGRPSTYASIIETLQDRGYVEREG 479
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 486247088 550 KKVVPTELGLSFIHALPEVMTR---PDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQV 607
Cdd:COG0550 480 KRLVPTELGFIVIDLLEEHFPDlvdYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELV 540
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
149-597 |
1.40e-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: 341.92 E-value: 1.40e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 149 FYGLYQKALARSAGDYLFGLNMTRAYTIAareKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDti 228
Cdd:pfam01131 3 DENLVDAQLARRELDWLIGFNLSRLLTLK---LKGNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDGG-- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 229 ispmlvPPEDAPVDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQ 308
Cdd:pfam01131 78 ------GVFANAKWKRGRIFDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQ 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 309 KLREEYRAITYNRSDCRYLSEEqfSQSPATLAMLSSFFPELGKIFSHIDSGRKSRA-FNDKKISAHTAIIPTPTPTGLDQ 387
Cdd:pfam01131 152 KLYEKHGLITYPRTDSTYLSDD--ATLKAILEYLTKNYGKYLPYAPRLLKKTKGKLtVGNAKVTAHEAIRPTGDIPVLPE 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 388 MNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL---ADRDEETLPDcklfdaitsLT 464
Cdd:pfam01131 230 LSDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYpyeKKEDEEELPE---------LK 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 465 KGQQLVCSSVNSRKETSTPPPLYTEASLLEDLrrvaryvedprirqllldrdegkeeERGGIGTPATRGHILNVLQVRGF 544
Cdd:pfam01131 301 EGEELKVTQVEVEEKKTKPPPRYTEASLIKAM-------------------------EKAGIGTPATRATIIETLLERGY 355
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|....*
gi 486247088 545 IAVKNKKVVPTELGLSFIHALPEVMT--RPDMTALWHEQQSMIETGEISIDDFLD 597
Cdd:pfam01131 356 VERKKKSLVPTELGKALVEALEKFPDlvDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
150-607 |
9.06e-85 |
|
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: 273.33 E-value: 9.06e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 150 YGLYQKALARSAGDYLFGLNMTRAYTIAAREKGhneILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQaefidtdtii 229
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRKG---VLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK---------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 230 spmlvppedapvddkgriiseqycdeairsckgqQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQK 309
Cdd:cd00186 68 ----------------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQK 113
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 310 LREE-YraITYNRSDCRYLSEEQFsqspatLAMLSSFFPELGK--IFSHIDSGRKSRAFNDKKISAHTAIIPT---PTPT 383
Cdd:cd00186 114 LYEAgL--ITYPRTDSTRLSEEAI------LEAREYIQAIYGKeyLYPAPLLGRRNPKRGKKEQGAHEAIRPTkvaPTPE 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 384 GLDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL-ADRDEETLPDCKLFdaits 462
Cdd:cd00186 186 LEANLSEDEFKLYELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYpEEKDDEEEEPPPLK----- 260
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 463 ltKGQQLVCSSVNSRKETSTPPPLYTEASLLedlrrvaryvedprirqllldrdegKEEERGGIGTPATRGHILNVLQVR 542
Cdd:cd00186 261 --EGDELKLEEVELEEKETQPPPRYTEASLI-------------------------KLMEKRGIGRPSTYASIIETLLDR 313
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 486247088 543 GFIAVKNKKVVPTELGLSFIHALPE---VMTRPDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQV 607
Cdd:cd00186 314 GYVEKEKKKLIPTELGFAVIELLEKhfpELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
271-560 |
1.23e-52 |
|
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: 183.22 E-value: 1.23e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 271 ESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREE-YraITYNRSDCRYLSEEQFSQSpatLAMLSSFFPEL 349
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKgL--ITYPRTDSTRLSEEAVLEA---RNYIQKLYGKE 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 350 GKIFSHIDSGRKSRAFNDKKISAHTAIIPT---PTPTGLDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFL 426
Cdd:smart00437 76 YLDLAVVLLKPRKPRKGKKAQGAHEAIRPTkpiFTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEK 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 427 FRQRAIRPVSPGWSILLA---DRDEETLPDCKlfdaitsltKGQQLVCSSVNS-RKETStPPPLYTEASLLedlrrvary 502
Cdd:smart00437 156 FKAKGKTLLFDGWLKVYPeekKEEEIELPTLK---------KGDELKVEEVEVeEKETK-PPARYTEASLI--------- 216
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*...
gi 486247088 503 vedprirqllldrdegKEEERGGIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGLS 560
Cdd:smart00437 217 ----------------KLMEKRGIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIA 258
|
|
| Toprim_Crpt |
pfam13342 |
C-terminal repeat of topoisomerase; |
692-749 |
1.48e-13 |
|
C-terminal repeat of topoisomerase;
Pssm-ID: 463851 [Multi-domain] Cd Length: 60 Bit Score: 65.58 E-value: 1.48e-13
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 486247088 692 CGFRLWGTQFGKELTLAQATDLLMKGHTREIKGLKKKDGAKFDAVLNLNRDGSVVPTF 749
Cdd:pfam13342 2 CGFSIGKTIAGKKLSEEQVKELLTKGKTGLIKGFKSKKGKKFDAYLVLDDDEKVEFDF 59
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
1-674 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 674.18 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNPQYFDGYIVCNNDTVSWAIGHLLKLIPPELKTPEYKSWSKNTLPLQLRPLQYIVIPKTE 80
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 81 KQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDNRAFYGLYQKALARS 160
Cdd:PRK07726 81 KQFNVVKKLLKQATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALARS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 161 AGDYLFGLNMTRAYTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDTIISpMLVPPEdAP 240
Cdd:PRK07726 161 RADWLVGINMTRAYTLLGRKAGYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHLTPGERFTA-KWQPSE-PY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 241 VDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREEYRAITYN 320
Cdd:PRK07726 239 QDEEGRLLDRPLAEQVVARIQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 321 RSDCRYLSEEQFSQSPATLAMLSSFFPELGKIFSHIDSGRKSRAFNDKKISAHTAIIPTPTPTGLDQMNEDEMRVYKAIV 400
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISKVDPYLLLAPPVLDPSIRSRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDLIA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 401 AQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILLADRDEETLPDCKLfdaiTSLTKGQQLVCSSVNSRKET 480
Cdd:PRK07726 399 RRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKEEDEEKEQPL----PVLAKGDELKVEKGEVKEGQ 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 481 STPPPLYTEASLLEDLRRVARYVEDPRIRQLLldrdegkeEERGGIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGLS 560
Cdd:PRK07726 475 TQPPKRFTEGTLLSAMENIARFVQDKELKKTL--------KETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQ 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 561 FIHALPEVMTRPDMTALWhEQQ-SMIETGEISIDDFLDELEQFIFQQVSDV-------DISGLAVAEyqC-TCGGRYVRR 631
Cdd:PRK07726 547 LIDALPEELTSPDMTAKW-EQAlDQISEGQLSYQDFMQPLKQWLKQLVEQAkqssekyKFDNLTGPK--CpDCGKPMLKV 623
|
650 660 670 680
....*....|....*....|....*....|....*....|...
gi 486247088 632 RTDKGFFWGCSKYPDCRNTVPDRGgvpdfsrsefeRKVRCPVC 674
Cdd:PRK07726 624 KGKNGKMLVCQDRECGKRKNVSKK-----------TNARCPNC 655
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
1-648 |
9.73e-179 |
|
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: 526.72 E-value: 9.73e-179
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNPQYFDGYIVCNND-TVSWAIGHLLKLIPPELKTPEYKSWSKNTLPLQLRPLQYIVIPKT 79
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLEIGVGgFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 80 EKQFNVLSGLITR--ADMIIHAGDPDEEGQLLIEEILSYC--GNKAPVKRVLINDLNKDAVRQAMRNLQDNRAFYGLYQK 155
Cdd:TIGR01056 81 KKQFNVIKRILKEnkVDEVVIATDPDREGELIAREILDYLkvTDKVTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 156 ALARSAGDYLFGLNMTRAYTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEfIDTDTIISPMLVP 235
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLGREAGNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSAT-INKDEQEFTTEWQ 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 236 PEDapvDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREEYR 315
Cdd:TIGR01056 240 PYK---DEEERELHEFLAENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHK 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 316 AITYNRSDCRYLSEEQFSQSPATLAMLSSFFPELGKIFShIDSGRKSRAFNDKKISAHTAIIPTPTPTGLDQMNEDEMRV 395
Cdd:TIGR01056 317 LITYPRTDSRYLPEDEKEMLLEVLDALKVITPALLPIKK-RDELTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEERNV 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 396 YKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL--ADRDEE----TLPdcklfdaitSLTKGQQL 469
Cdd:TIGR01056 396 YKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALLgkQEEDEEtedtTLP---------AFQKGDEL 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 470 VCSSVNSRKETSTPPPLYTEASLLEDLRRVARYVEDPRIRQLLldrdegkeEERGGIGTPATRGHILNVLQVRGFIAVKN 549
Cdd:TIGR01056 467 DVETLELLEKQTKPPARYTEGTLLSAMTNPAAFVQDKGLKKTL--------KETKGLGTEATRADIIENLFKRGFIQKKK 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 550 KKVVPTELGLSFIHALPEVMTRPDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQVSDVDISGL---AVAEYQCTCGG 626
Cdd:TIGR01056 539 NKIYITKNGKLLCLLLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPEtiqKVAKEPVSCGG 618
|
650 660
....*....|....*....|..
gi 486247088 627 RYVRRRTDKGFFWGCSKYPDCR 648
Cdd:TIGR01056 619 IAKCPAKDNGRLIDCKKFPECT 640
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-607 |
4.76e-134 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 407.17 E-value: 4.76e-134
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGnpqyfDGYIVcnndtvSWAIGHLLKLIPPELKTPEYKSWskntLPlqlrplQYIVIPKTE 80
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLG-----KDYVV------TASVGHLRDLPKPELDVDVENDF----EP------KYEVIPGKK 59
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 81 KQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDNraFYGLYQKALARS 160
Cdd:COG0550 60 KQVKELKKLAKKADEVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRDI--DMNLVDAQQARR 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 161 AGDYLFGLNMTRAYTIAAREKghneiLSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDTIISPMLVPPedap 240
Cdd:COG0550 138 ILDRLVGYNLSPLLWKKVKRG-----LSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFKTGGGEFTAKLVKI---- 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 241 vdDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREEyRAITYN 320
Cdd:COG0550 209 --DGKKILDEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEV-GLITYM 285
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 321 RSDCRYLSEEQFSQSPATLAML--SSFFPElgkifshidsgrKSRAFN--DKKISAHTAIIPTPTPTGLDQMNEDEMRVY 396
Cdd:COG0550 286 RTDSVRLSEDAVAAAREYIEALygKEYLPE------------KPRVYKtsKNAQEAHEAIRPTGVTRTPESLSGDEFKLY 353
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 397 KAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGW-------SILLADRDEETLPDcklfdaitsLTKGQQL 469
Cdd:COG0550 354 DLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFlkvygegKDDEEEEEEKRLPP---------LKEGEKL 424
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 470 VCSSVNSRKETSTPPPLYTEASLLEDLrrvaryvedprirqllldrdegkeEERgGIGTPATRGHILNVLQVRGFIAVKN 549
Cdd:COG0550 425 KLKKIEPEQHFTKPPPRYTEASLVKAM------------------------EEL-GIGRPSTYASIIETLQDRGYVEREG 479
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 486247088 550 KKVVPTELGLSFIHALPEVMTR---PDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQV 607
Cdd:COG0550 480 KRLVPTELGFIVIDLLEEHFPDlvdYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELV 540
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
149-597 |
1.40e-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: 341.92 E-value: 1.40e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 149 FYGLYQKALARSAGDYLFGLNMTRAYTIAareKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDti 228
Cdd:pfam01131 3 DENLVDAQLARRELDWLIGFNLSRLLTLK---LKGNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDGG-- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 229 ispmlvPPEDAPVDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQ 308
Cdd:pfam01131 78 ------GVFANAKWKRGRIFDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQ 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 309 KLREEYRAITYNRSDCRYLSEEqfSQSPATLAMLSSFFPELGKIFSHIDSGRKSRA-FNDKKISAHTAIIPTPTPTGLDQ 387
Cdd:pfam01131 152 KLYEKHGLITYPRTDSTYLSDD--ATLKAILEYLTKNYGKYLPYAPRLLKKTKGKLtVGNAKVTAHEAIRPTGDIPVLPE 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 388 MNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL---ADRDEETLPDcklfdaitsLT 464
Cdd:pfam01131 230 LSDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYpyeKKEDEEELPE---------LK 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 465 KGQQLVCSSVNSRKETSTPPPLYTEASLLEDLrrvaryvedprirqllldrdegkeeERGGIGTPATRGHILNVLQVRGF 544
Cdd:pfam01131 301 EGEELKVTQVEVEEKKTKPPPRYTEASLIKAM-------------------------EKAGIGTPATRATIIETLLERGY 355
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|....*
gi 486247088 545 IAVKNKKVVPTELGLSFIHALPEVMT--RPDMTALWHEQQSMIETGEISIDDFLD 597
Cdd:pfam01131 356 VERKKKSLVPTELGKALVEALEKFPDlvDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
3-742 |
2.24e-99 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 326.24 E-value: 2.24e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 3 LWIAEKPELGKLIAQVLG----NPQYF--DGYIVcnndtvSWAIGHLLKLIPPELKTPEYKSWSKNTLPL-----QLRPl 71
Cdd:PRK08173 5 LIIAEKPSVANDIARALGgftkHDEYFesDEYVL------SSAVGHLLEIAAPEEYEVKRGKWSFAHLPVipphfDLNP- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 72 qyivIPKTEKQFNVLSGLITRAD--MIIHAGDPDEEGQLLIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDNRAF 149
Cdd:PRK08173 78 ----IAKTESRLKVLTKLIKRKDvtRLINACDAGREGELIFRLIAQHAKAKKPVKRLWLQSMTPQAIRDGFANLRSDEDM 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 150 YGLYQKALARSAGDYLFGLNMTRAYTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDTI- 228
Cdd:PRK08173 154 QPLADAARCRSEADWLVGINGTRAMTAFNSKGGGFFLTTVGRVQTPTLSIVVEREEKIRRFVPRDYWEVRAEFVAAAGFy 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 229 ----ISPMLVPPEDAPVDDKGRIISEQYCDEAIRSCKGQQASVSlAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVL 304
Cdd:PRK08173 234 egrwFDPKFKKDEFDPEKRASRLWSEAAAEAIVAACRGKPGTVT-EESKPSTQLSPLLFDLTSLQREANGRFGFSAKNTL 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 305 EITQKLREEYRAITYNRSDCRYLSEEQFSQSPATLAML---SSFFPELGKIfshIDSG---RKSRAFNDKKISAHTAIIP 378
Cdd:PRK08173 313 GLAQALYEKHKVLTYPRTDSRALPEDYLGTVKQTLEMLkesNNYLPHAKQI---LDKGwvkPNKRIFDNSKISDHFAIIP 389
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 379 TPT-PTGLdqmNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL---ADRDEETLPdc 454
Cdd:PRK08173 390 TLQaPKSL---SEPEQKLYDLVVKRFLAVFFPAAEFLVTTRITEVAGHHFKTEGKVLVNPGWLAVYgkeAQGADANLV-- 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 455 klfdaitSLTKGQQLVCSSVNSRKETSTPPPLYTEASLLEDLRRVARYVEDPRIRQLLLDRdegkeeergGIGTPATRGH 534
Cdd:PRK08173 465 -------PVQKGEKVKTDKIEAVALTTKPPARYNEATLLSAMEGAGKLVEDDELREAMAEK---------GLGTPATRAA 528
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 535 ILNVLQVRGFIAVKNKKVVPTELGLSFIHALP----EVMTRPDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQVSDv 610
Cdd:PRK08173 529 IIEGLLGEKYLVREGRELIPTAKAFQLMTLLRglgvEELTSPELTGEWEYKLSQIERGKLSRDAFMQEIAQMTQQIVKR- 607
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 611 disglaVAEYQctcggryvrrrtdkgffwgcskypdcRNTVPDrggvpDFSrsefERKVRCPVCGSGMKISPKAYNCsnE 690
Cdd:PRK08173 608 ------AKEYD--------------------------SDTIPG-----DYA----TLQTPCPNCGGVVKENYRRFAC--T 644
|
730 740 750 760 770
....*....|....*....|....*....|....*....|....*....|..
gi 486247088 691 RCGFRLWGTQFGKELTLAQATDLLMKGHTREIKGLKKKDGAKFDAVLNLNRD 742
Cdd:PRK08173 645 KCDFSISKIPGGRQFEIAEVEELLRKKEIGPLSGFRSKMGRPFSAILKLSDE 696
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
150-607 |
9.06e-85 |
|
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: 273.33 E-value: 9.06e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 150 YGLYQKALARSAGDYLFGLNMTRAYTIAAREKGhneILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQaefidtdtii 229
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRKG---VLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK---------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 230 spmlvppedapvddkgriiseqycdeairsckgqQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQK 309
Cdd:cd00186 68 ----------------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQK 113
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 310 LREE-YraITYNRSDCRYLSEEQFsqspatLAMLSSFFPELGK--IFSHIDSGRKSRAFNDKKISAHTAIIPT---PTPT 383
Cdd:cd00186 114 LYEAgL--ITYPRTDSTRLSEEAI------LEAREYIQAIYGKeyLYPAPLLGRRNPKRGKKEQGAHEAIRPTkvaPTPE 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 384 GLDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL-ADRDEETLPDCKLFdaits 462
Cdd:cd00186 186 LEANLSEDEFKLYELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYpEEKDDEEEEPPPLK----- 260
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 463 ltKGQQLVCSSVNSRKETSTPPPLYTEASLLedlrrvaryvedprirqllldrdegKEEERGGIGTPATRGHILNVLQVR 542
Cdd:cd00186 261 --EGDELKLEEVELEEKETQPPPRYTEASLI-------------------------KLMEKRGIGRPSTYASIIETLLDR 313
|
410 420 430 440 450 460
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 486247088 543 GFIAVKNKKVVPTELGLSFIHALPE---VMTRPDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQV 607
Cdd:cd00186 314 GYVEKEKKKLIPTELGFAVIELLEKhfpELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
3-742 |
8.52e-78 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 269.90 E-value: 8.52e-78
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 3 LWIAEKPELGKLIAQVL----GNPQYFDGYIVCNNDTVSWAIGHLLKLIPPELKTPEYKSWSKNTLPL-----QLRPlqy 73
Cdd:PRK14724 4 LVIAEKPSVAQDIVRALtpvaGKFEKHDEHFESDSYVVTSAVGHLVEIQAPEEFDVKRGKWSFANLPVippyfDLKP--- 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 74 ivIPKTEKQFNVLSGLITRADM--IIHAGDPDEEGQLLIEEILSYCGNKA-----PVKRVLINDLNKDAVRQAMRNLQDN 146
Cdd:PRK14724 81 --VDKTKTRLNAVVKLAKRKDVteLVNACDAGREGELIFRLIEQYAGGAKgglgkPVKRLWLQSMTPQAIRDGFDNLRSD 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 147 RAFYGLYQKALARSAGDYLFGLNMTRAYTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDT- 225
Cdd:PRK14724 159 AQMQGLASAARSRSEADWLVGINGTRAMTAFNSRDGGFFLTTVGRVQTPTLSLVVEREEKIRKFVSRDYWEIHAGFHAEa 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 226 ----DTIISPMLVPPEDAPVDDKGRIISEQYCDEAIRSCKGQQASVSlAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAE 301
Cdd:PRK14724 239 geylGKWFDPQWKKASDDPEARADRVWSEREARAIADAVRGKAATVT-EESKPTTQASPLLFDLTSLQREANGKFGFSAK 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 302 KVLEITQKLREEYRAITYNRSDCRYLSEEQFSQSPATLAMLS-SFFPELGKIFSH-IDSG--RKS-RAFNDKKISAHTAI 376
Cdd:PRK14724 318 TTLALAQSLYERHKALTYPRTDSRALPEDYLPVAKQTFEMLAtSGMRHLAPFAQQaLDGNyvRPSkRIFDNSKVSDHFAI 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 377 IPT-PTPTGLdqmNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILLADRDEETLPDCK 455
Cdd:PRK14724 398 IPTtQAPSGL---SEAEQKLYDLVVRRFMAVFFPSAEYQVTTRISQVVGHSFKTEGKVLVKPGWLAIYGKEAANEVEDAK 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 456 LFDAITSLT---KGQQLVCSSVNSRKETSTPPPLYTEASLLEDLRRVARYVEDPRIRQLLLDRdegkeeergGIGTPATR 532
Cdd:PRK14724 475 DGDKGQPLVpvkPGEMVRTEFAEAKGLKTKPPARYSEATLLGAMESAGKQIDDDELREAMQEK---------GLGTPATR 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 533 GHILNVLQVRGFIAVKNKKVVPTELGLSFIHALP----EVMTRPDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQVS 608
Cdd:PRK14724 546 AAIIEGLLTEKYMLREGRELIPTAKAFQLMTLLRglgvEELSRAELTGEWEYKLAQMEKGQLSREAFMQQIAAMTEKLVK 625
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 609 DVDisglavaEYQctcggryvrrrtdkgffwgcskypdcRNTVPdrGGVPDFSrseferkVRCPVCGSGMKISPKAYNCS 688
Cdd:PRK14724 626 KAK-------EYD--------------------------RDTIP--GDYATLS-------TPCPNCGGVVKENYRRYACT 663
|
730 740 750 760 770
....*....|....*....|....*....|....*....|....*....|....*....
gi 486247088 689 -----NERCGFRLWGTQFGKELTLAQATDLLMKGHTREIKGLKKKDGAKFDAVLNLNRD 742
Cdd:PRK14724 664 gangaGEGCGFSFTKSPAGRTFETAEAEQLLRDRRIGPLEGFRSKAGWPFTAEVVIKRD 722
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
1-686 |
3.83e-71 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 248.76 E-value: 3.83e-71
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVL-----------GNPQY-FDGyivcNNDT--VSWAIGHLLKLIPPElktpEYKSWSKntlpL 66
Cdd:PRK07219 1 TELIIAEKNNAARRIADILsggkakkkrvnGVPYYeFER----KGEKwiVIGLSGHIVTVDFPE----EYGDWRD----V 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 67 QLRPLQYIVIPKTEKQ---FNVLSGLITRADMIIHAGDPDEEGQLLIEE---ILSYCGNKaPVKRVLINDLNKDAVRQAM 140
Cdd:PRK07219 69 DPAELIDADPVKKITKqnyINALKKLAKDADEIIIATDYDREGELIGKEayhILREVCQV-PVKRARFSSLTKKEIRKAF 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 141 RNLQDNRafYGLYQKALARSAGDYLFGLNMTRAYTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQA 220
Cdd:PRK07219 148 ENPDEID--FNLADAGEARQIIDLYWGAALTRFLSLSVRQLGRWDFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEA 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 221 EFIDTDTIISpmlvpPEDAPVDDKGRIISEQYCDEAIRSCKGQ-QASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFT 299
Cdd:PRK07219 226 LLDKEAQYFY-----RDLIGGHEAEKFWDEEEAEEIYEKLKGAkEATVSSVKKRERTISPPAPFNTTEFLREASKIFGIS 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 300 AEKVLEITQKLreeYRA--ITYNRSDC-RYLSEEQFSQSPATLAMLSSFFPELGKIfshIDSGRKSRAFNDKKISAHTAI 376
Cdd:PRK07219 301 PKRAMEIAEKL---YTAgyISYPRTDNtVYPDDLDPKELLKKLSKKKEYGPYAESI---LEQENIKPTEGKKETTDHPPI 374
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 377 IPTPTPTGlDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSIL--LADRDEETLPDc 454
Cdd:PRK07219 375 HPVDVPKR-EELSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVypYEKFDEKELPD- 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 455 klfdaitsLTKGQQLVCSSV-NSRKETsTPPPLYTEASLLedlrrvaryvedprirqllldrdegKEEERGGIGTPATRG 533
Cdd:PRK07219 453 --------LEEGEKLKVNKIeIEAKET-QPPKRYTQSSLI-------------------------KEMEKRGLGTKATRH 498
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 534 HILNVLQVRGFIaVKNKKVVPTELGLSFIHAL----PEVMtRPDMTALWHEQQSMIETGEISIDDFLDELEQFIFQQVSD 609
Cdd:PRK07219 499 DIIEKLYKRGYV-IEGDPPRPTDLGIAVIEALekyaPEIV-SEEMTAQLEADMQAIEDGKKKKEDVTEESREMLKEILSE 576
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 610 VDIS----GLAVAEY------------QCT-CGGRYVRRRTDKG-FFWGCSKYPDCRNTVPdrggVPDFSRSEFERKVrC 671
Cdd:PRK07219 577 LKEKrkeiGDHLAGSlkaenrslktigKCPeCGGDLIIIRTDKGsRFVGCSGYPDCRNTFP----LPSTGRIKVLDEV-C 651
|
730
....*....|....*.
gi 486247088 672 PVCGSGM-KISPKAYN 686
Cdd:PRK07219 652 EKCGLPViKILRGKQT 667
|
|
| topA_arch |
TIGR01057 |
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ... |
5-647 |
2.44e-67 |
|
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These enzymes are involved in the control of DNA topology. DNA topoisomerase I belongs to the type I topoisomerases, which are ATP-independent. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273420 [Multi-domain] Cd Length: 618 Bit Score: 233.95 E-value: 2.44e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 5 IAEKPELGKLIAQVLGNPQYF----DG---YIVCNND---TVSWAIGHLLKLIPPElktpeykSWSKNTLPLQLRPLqYI 74
Cdd:TIGR01057 1 IAEKPKVAAKIAGALSDGRVLkkseYGvpyWEVRRDGkkiIVASAVGHLFGLHPKS-------RGGYPVFDIEWVPI-FE 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 75 VIPKTE---KQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQdnRAFYG 151
Cdd:TIGR01057 73 FDKGKGyvsKYIKALSKLAKGADEYINACDYDIEGEVIGFKALKYFCGVERAKRMKFSTLTKQDIRRAYANPE--EIDYG 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 152 LYQKALARSAGDYLFGLNMTRAYTIAARE-KGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDTIIs 230
Cdd:TIGR01057 151 MVDAGMARHILDWYWGINLSRALMEAIRAaAGRWVILSAGRVQGPTLAFLVEREREINLFVPKPYWVIKATLEKGGGVF- 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 231 pmlvppeDApVDDKGRIISEQYCDEAIRSCKGQQ-ASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQK 309
Cdd:TIGR01057 230 -------DA-RPEKWKIWSEEEAKSIKEELKKSPwAAVEEVRSERSILKPPPPFDLGTLQREAYRIFGFSPKKTQSIAQE 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 310 LREEyRAITYNRSDCRYLSEE-QFSQSPATLAMLssffPELGKIFSHIDSGRKSRAFNDKKIS-AHTAIIPT---PTPtg 384
Cdd:TIGR01057 302 LYEE-ALISYPRTSSQKLPPSiNYRAILDNLAKG----PLYREAAERLLETGVLKPVEGKKEDpAHPAIHPTgeiPSQ-- 374
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 385 ldQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGW--SILLADRDEETLPDcklfdaits 462
Cdd:TIGR01057 375 --ELSKDEKKVYDLIVRRFLAAFSEEAIREKSKVLLRIGQEKFRLSGLRVVKLGWleYYHYSKFEEKELPP--------- 443
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 463 LTKGQQLVCSSVNSRKETSTPPPLYTEASLLedlrrvaryvedprirqllldrdegKEEERGGIGTPATRGHILNVLQVR 542
Cdd:TIGR01057 444 LDRGDKIKVVRVDVRVKETQPPARYDKASLI-------------------------REMESRGLGTKATRARIIETLYKR 498
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 543 GFIAVKNKKVVpTELGLSFIHAL----PEVMTrPDMTALWHEQQSMIETGEISIDDFLDE--------LEQF-------- 602
Cdd:TIGR01057 499 GYIEGKKSIKV-TPLGEAVIETLqrycPEIIS-EELTRRFESKLEDIMSGRITKDEVIDEakkrlrkiLEEFkkrlddig 576
|
650 660 670 680
....*....|....*....|....*....|....*....|....*...
gi 486247088 603 --IFQQVSDVDISGlavaeyQC-TCGGRYVRRRTDKGFFWGCSKYPDC 647
Cdd:TIGR01057 577 ieLGKSLGSVEVVG------KCpKCGGKLVSKYAKKGRFVGCSNYPEC 618
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
3-654 |
8.56e-62 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 219.86 E-value: 8.56e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 3 LWIAEKPELGKLIAQVLGnpqyfDGYIVCNNDTVSW--------------AIGHLLKLIPPELKTPEYK-SWskntlplq 67
Cdd:PRK05776 4 LVIAEKPKAARKIAEALS-----EKPIRCRIYGVPYwivkrdgkkivvapAAGHLFGLHTKSKGFPVFDyEW-------- 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 68 lRPLqYIVIPK---TEKQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQ 144
Cdd:PRK05776 71 -KPL-YEIDKGskyTKKYYELLSSLSKYADEFINACDYDIEGSVIGYLIIKYLGDPKKAKRMKFSALTKSDIRRAFRNLE 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 145 dnRAFYGLYQKALARSAGDYLFGLNMTRAYTIAARE-KGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFI 223
Cdd:PRK05776 149 --TLDYEMINAGIARHELDWLWGINVSRALMSSVRDaSGKRVILSAGRVQSPTLKYVVEREIERNLFVPLPYFSVSIIIE 226
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 224 DTDTIISpmlVPPEDAPVDDKG---RIISEqycdeaIRscKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTA 300
Cdd:PRK05776 227 KNGYEFT---LKYENKKFETKEeakEILEE------IK--KTGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGFSP 295
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 301 EKVLEITQKLREEyRAITYNRSDcrylseeqfSQS-PATL---AML-----SSFFPELGKIFSHIDSGRKSRAFNDKKIS 371
Cdd:PRK05776 296 YKTQSIAEDLYLD-GLISYPRTN---------SQKlPPTLnirNILkglsrSPQYRPLVNLLLKETKGVLKPVQGPKDDP 365
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 372 AHTAIIPTPTPTGldQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFL--FRQRAIRPVSPGWSIL--LADRD 447
Cdd:PRK05776 366 AHPAIYPTGEPPK--NLSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPGFPlvFSASGQRIEERGWLKYypFHKFD 443
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 448 EETLPDcklfdaitsLTKGQQLVCSSVNSRKETSTPPPLYTEASLLedlrrvaryvedprirqllldrdegKEEERGGIG 527
Cdd:PRK05776 444 EEELPL---------LKKGERVKIVDVKVRKSYTKPPSRYSKASLL-------------------------KWMESVGIG 489
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 528 TPATRGHILNVLQVRGFIAVKNKKVVPTELGLSFIHAL----PEVMTrPDMTALWHEQQSMIETGEISIDDFLDE----L 599
Cdd:PRK05776 490 TEATRARIIETLFKRGYLTSNGKYIEVTPLGFGVAEVLekyfPDIVS-VELTRDFEEKLEMIRTGKATREEVIEEaketL 568
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 486247088 600 EQFIFQQVSDVDISGLAVAEY--------QCT-CGG--------RYVRRRTDKgfFWGCSKYPDCRNTVPDR 654
Cdd:PRK05776 569 NKLLEEFKKNKDEIGEELAKAlglikpvgKCKiCGReaykdglcKYHYEAKKR--LVKAYEEWKERTGYDHK 638
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
72-680 |
3.26e-57 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 207.02 E-value: 3.26e-57
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 72 QYIVIPKTEKQFNVLSGLITRADMIIHAGDPDEEGQL----LIEEILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQD-N 146
Cdd:PRK06599 53 KYEIIEGKEKVVDALKKAAKKADAVYLATDPDREGEAiawhIAEVLKEAKLKDKNVKRVVFNEITKKAVQEAIENPRDiD 132
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 147 RAFYGLYQkalARSAGDYLFGLNM--------TRAytiaarekghneiLSVGRVQTPVLGLVVRRYEENRDYKKYDYWCV 218
Cdd:PRK06599 133 MDLVDAQQ---ARRALDYLVGFKLspllwkkvRRG-------------LSAGRVQSVALRLICEREDEIEAFIPQEYWTI 196
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 219 QAEFID-TDTIISPMLVPPEDAPVDdKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYG 297
Cdd:PRK06599 197 EADLATsNGEPFTAKLVEVNGKKLE-KFSITNEEQAKALVKALEGQAYTVDKIEKKERKRNPPPPFITSTLQQEASRKLG 275
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 298 FTAEKVLEITQKLRE------EYRA-ITYNRSDCRYLSEEqfsqspaTLAMLSSFFPEL-GKIFShidsGRKSRAFNDKK 369
Cdd:PRK06599 276 FSAKKTMRIAQKLYEgidlgeGTVGlITYMRTDSVRLSNE-------ALDEARKYITKKyGKEYL----PAKPRVYKKKS 344
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 370 IS---AHTAIIPTP---TPTGLDQ-MNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEF-NING-FLFRQRAIRPVSPGW- 439
Cdd:PRK06599 345 KNaqeAHEAIRPTSinrTPESLKPyLTPDQFKLYELIWKRTVASQMAPAILDQTSVDIaSENGkYVFRATGSVILFPGFl 424
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 440 SILLADRDEETLPDCKLFDAitsLTKGQQLVCSSVNSRKETSTPPPLYTEASLLEDLrrvaryvedprirqllldrdegk 519
Cdd:PRK06599 425 KVYGESKDDEEEDDEKLLPP---LKEGEKLKLDELLPEQHFTEPPPRYSEASLVKKL----------------------- 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 520 eEERGgIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGL---SF-IHALPEVMTRpDMTALWHEQQSMIETGEIS---- 591
Cdd:PRK06599 479 -EEYG-IGRPSTYASIISTLQDREYVELEKKRFIPTDLGRivnDFlVEHFPKYVDY-DFTAGLEDELDEIAEGKKDwkpv 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 592 IDDFLDELEQFIF---QQVSDVDISGLAVAEyqcTC----GGRYVRRRTDKGFFWGCSKYPDCRNTVP---DRGGVPDFS 661
Cdd:PRK06599 556 LREFWEPFISNLEkveEDVRTEKVTQEETDE---TCpkcgGGPLVLKLGKNGKFLGCSGYPECKYTKNitrDEDEPIEEE 632
|
650
....*....|....*....
gi 486247088 662 RSEFERKvrCPVCGSGMKI 680
Cdd:PRK06599 633 EIVEEEK--CPKCGGPLVL 649
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
271-560 |
1.23e-52 |
|
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: 183.22 E-value: 1.23e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 271 ESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREE-YraITYNRSDCRYLSEEQFSQSpatLAMLSSFFPEL 349
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKgL--ITYPRTDSTRLSEEAVLEA---RNYIQKLYGKE 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 350 GKIFSHIDSGRKSRAFNDKKISAHTAIIPT---PTPTGLDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFL 426
Cdd:smart00437 76 YLDLAVVLLKPRKPRKGKKAQGAHEAIRPTkpiFTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEK 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 427 FRQRAIRPVSPGWSILLA---DRDEETLPDCKlfdaitsltKGQQLVCSSVNS-RKETStPPPLYTEASLLedlrrvary 502
Cdd:smart00437 156 FKAKGKTLLFDGWLKVYPeekKEEEIELPTLK---------KGDELKVEEVEVeEKETK-PPARYTEASLI--------- 216
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|....*...
gi 486247088 503 vedprirqllldrdegKEEERGGIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGLS 560
Cdd:smart00437 217 ----------------KLMEKRGIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIA 258
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
1-732 |
2.34e-51 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 191.51 E-value: 2.34e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVL--GNPQ--------YFDgYIVCNNDTVSWAI-GHLLKLIPPElktpEYKSWSKnTLPLQLR 69
Cdd:PRK07220 1 MHLIITEKNIAARRIAQILapKKPKktrvsgvdVYR-YEDNGDDTVVVGLsGHIVNIDFPK----EYNNWQK-VDARDLI 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 70 PLQYIVIPKTEKQFNVLSGLITRADMIIHAGDPDEEGQLLIEE---ILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDn 146
Cdd:PRK07220 75 DAEIITTPTQKKIVTALKKLGKEADRVTIATDYDREGELIGVEalnIIKKVNPDIKFDRVRYSAITKKEIERAFSNPVE- 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 147 rAFYGLYQKALARSAGDYLFGLNMTRAYTIAAREKGhNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTD 226
Cdd:PRK07220 154 -VDFNLADAGHSRQVIDLVWGAALTRYISLAAGRLG-KMFLSVGRVQSPTLALIVDREKEREAFVPTPYWEIYATLENNG 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 227 TIISpmlvppedapVDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLqVKMNRQYGFTAEKVLEI 306
Cdd:PRK07220 232 ETFV----------AQHSTRRFWEKEEADRVFEKLGKTAEVTEVEKGTKTDKPPTPFNTTEF-ISAANSIGFSAANAMRI 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 307 TQKLREE-YraITYNRSD-------------CRYLSEEQFSQSPATLAMLSSFFPELGKifshidsgrksrafndKKISA 372
Cdd:PRK07220 301 AESLYTNgY--ISYPRTDntvypesldlreqIEIFAEGPFGEYAQKLLEKGELVPTRGK----------------KETTD 362
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 373 HTAIIPTPTPTGlDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSILL--ADRDEET 450
Cdd:PRK07220 363 HPPIYPASLAKK-SELKEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYpyNAPEDRL 441
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 451 LPdcklfdaitSLTKGQQL-VCSSVNSRKETStPPPLYTEASL---LEDLrrvaryvedprirqllldrdegkeeergGI 526
Cdd:PRK07220 442 LP---------ELSEGEELkVKKKEMLDKETQ-PPGRYGQGRLiklMEDL----------------------------GL 483
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 527 GTPATRGHILNVLQVRGFIavKNKKVVPTELGLSFIHAL----PEVmTRPDMTALWHEQQSMIETGEISIDDFLDELEQF 602
Cdd:PRK07220 484 GTKATRHEIISKLYSRAYI--HGNPIQPTNTAFAVVDALekyaPTI-TKPDMTSRLEEDMDKIAEGKIKEDAVLEESREM 560
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 603 IFQQVSDVDISGLAVAEY------------QC-TCGGRYVRRRTDKGF-FWGCSKYPDCRNTVP-DRGG---VPDfsrse 664
Cdd:PRK07220 561 LEQVFDELDKNREKIRESlreglredkiigKCpLCGSDLMVRRSKRGSrFIGCEGYPECTFSLPlPKSGqiiVTD----- 635
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 486247088 665 ferkVRCPVCG-SGMKI---SPKAYNCSNERCGFRLWgtQFGKELTLAQATDLLMKGHTREIKGLKKKDGAK 732
Cdd:PRK07220 636 ----KVCEAHGlNHIRIingGKRPWDLGCPQCNFIEW--QKKQKEEKAQQPKKEKPKSIKDIKGIGKKTAEK 701
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
1-143 |
6.22e-42 |
|
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: 149.69 E-value: 6.22e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNPQ-------YFDGYIVCNNDTVSWAIGHLLKLIPPELKTPEYKSWSKNTlPLQLRPLQY 73
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSkkkgkgrYYEFYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLED-PLFPAPFKL 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 486247088 74 IVIPKTEKQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGN--KAPVKRVLINDLNKDAVRQAMRNL 143
Cdd:cd03362 80 KVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKCvkRKPVKRAWFSSLTPKAIRRAFKNL 151
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
1-652 |
5.04e-41 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 161.50 E-value: 5.04e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNpqyfdGYIVcnndtVSwAIGHLLKLIPpelKTPEYKSWSKNTLPLQL--------RPLq 72
Cdd:PRK07561 2 KSLVIVESPAKAKTINKYLGS-----DYVV-----KA-SVGHIRDLPT---SASSVPAKEKGALWARMgvdpdhdfEAL- 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 73 YIVIPKTEKQFNVLSGLITRADMIIHAGDPDEEGQ-----LLieEILSycGNKAPVKRVLINDLNKDAVRQAM---RNLQ 144
Cdd:PRK07561 67 YEVLPGKEKVVSELKKAAKDADELYLATDPDREGEaiawhLL--EVLG--GDDVPVKRVVFNEITKNAIQEAFenpRELD 142
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 145 DNR--AfyglYQkalARSAGDYLFGlnmtraYTIA-------AREkghneiLSVGRVQTPVLGLVVRRYEENRDYKKYDY 215
Cdd:PRK07561 143 INLvnA----QQ---ARRFLDRLVG------YMVSpllwkkiARG------LSAGRVQSVAVRLIVEREREIEAFVPEEY 203
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 216 WCVQAEFIDTDTIISPM-LVPPEDAPVdDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNR 294
Cdd:PRK07561 204 WDIHADLTTPRGDAFEArLTHLDGKKF-APVDLLNEAQAEAAVAALEGARYSVASVEDKPTTRKPSAPFTTSTLQQEASR 282
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 295 QYGFTAEKVLEITQKLREE-YraITYNRSDCRYLSEEQFSqspATLAMLSSFF-----PElgkifshidsgrKSRAFNDK 368
Cdd:PRK07561 283 KLGFSVKKTMRIAQRLYEAgY--ITYMRTDSTNLSQEAIN---AARGYIGDNYgkkylPE------------KPRQYSSK 345
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 369 -KIS--AHTAIIPTP---TPTGLDQMNEDEMRVYKAI----VA-QylvqfMPDKTFDSAVVEFNINGFLFRQRAIRPVSP 437
Cdd:PRK07561 346 aKNAqeAHEAIRPSDvfrTPDQLKGLEGDAQRLYELIwkrfVAsQ-----MAPARYDSTTVTIAAGDAELRATGRVLRFD 420
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 438 GWSILL-------ADRDEETLPDcklfdaitsLTKGQQLVCSSVNSRKETSTPPPLYTEASLLEDLrrvaryvedprirq 510
Cdd:PRK07561 421 GFLKVYvegrddaLDDEDRRLPA---------LKVGDALTLEKLDPTQHFTKPPARYSEASLVKEL-------------- 477
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 511 llldrdegkeEERgGIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGLSFIHALPEVMTR---PDMTALWHEQQSMIET 587
Cdd:PRK07561 478 ----------EKL-GIGRPSTYASIISTIQDRGYVRLENRRFYPEKMGRIVTDRLEEFFPRlvdYDFTARMEEELDDIAN 546
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 588 GEIsidDFLDELEQFIF---QQVSDV---------DISGLAVAEYQCTCGGRYVRRRTDK-GFFWGCSKY---PDCRNTV 651
Cdd:PRK07561 547 GEA---DWKPVLDDFYKdfsQQLEKAeelreeggmRPNQMVITDRDCPTCGRGMGIRTGKtGVFLGCSGYalkERCKTTR 623
|
.
gi 486247088 652 P 652
Cdd:PRK07561 624 N 624
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
1-648 |
6.73e-37 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 148.84 E-value: 6.73e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNPQYF----DG----YIVcnNDTVSWAI-GHLLklippELK-TPEYKSW-SKNTLPLQLR 69
Cdd:PRK14973 1 MHLIIAEKNIAANRIAQILAGKTKVqvkkDGgvstYSF--DDTVVVGLrGHVV-----EVDfEPGYTNWrSEEHTPRSLI 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 70 PLQYIVIPKTEKQFNVLSGLITRADMIIHAGDPDEEGQLLIEE---ILSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDn 146
Cdd:PRK14973 74 DADTIKKPTEKKIVGLIQKLAKKADRVTIATDFDTEGELIGKEayeLVRAVNPKVPIDRARFSAITKEEIVTAFAEPTD- 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 147 rAFYGLYQKALARSAGDYLFGLNMTRAYTIAAREKGHNeILSVGRVQTPVLGLVVRRYEENRDYKKYDYWcvqaefidtd 226
Cdd:PRK14973 153 -LDFALAAAGEARQIIDLIWGASLTRFISLAAHRGGDN-ILSVGRVQSPTLAMIVDREKEIEAFVPEKYW---------- 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 227 tiispML-VPPEDAPVDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKS----RRPPLPFSLLDLQVKMNRqYGFTAE 301
Cdd:PRK14973 221 -----MLsLATEKDGEGIEARHTHGRFTDSAAAEAAYDATKEPLVVTEVKEghkvDRAPTPFDTTTFIVAASR-LGFSAA 294
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 302 KVLEITQKLreeYRA--ITYNRSD-CRYLSEEQFSQSPATLAMlSSFFPELGKIFSHidsgRKSRAFNDKKISA-HTAII 377
Cdd:PRK14973 295 NAMRIAEDL---YMNgyISYPRTDnTIYPKSLDLNGVLATLAK-GAFSKDVAWVKDN----RRPVPTRGKKSSTdHPPIH 366
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 378 PTPTPTGlDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIRPVSPGWSIL--LADRDEETLPdck 455
Cdd:PRK14973 367 PTGVATR-EELGDDRWKLYELVVRRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVypYSEAKENILP--- 442
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 456 lfdaitSLTKGQQLVCSSVNSRKETSTPPPLYTEASLLEdlrrvaryvedpRIRQLlldrdegkeeergGIGTPATRGHI 535
Cdd:PRK14973 443 ------AFALGEKLPILAVNLEEKETQPPARYSQSRLIQ------------RMEEL-------------GLGTKSTRHEV 491
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 536 LNVLQVRGFIavKNKKVVPTELGLSFIHALPE---VMTRPDMTALWHEQQSMIETGEISIDDFL-----------DELEQ 601
Cdd:PRK14973 492 IGKLVSRKYI--EGNPLRPTLVGRAVTESLEEhagTITEPDMTQTLEEHMQQIKERKRTRDDVVtesrkmlhrafDELEA 569
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|.
gi 486247088 602 FifQQVSDVDISGLAVAEY---QC-TCGGRYVRRRTDKGFFWGCSKYPDCR 648
Cdd:PRK14973 570 N--EAVIGRDIMERTAEELtigPCpVCGKDLRIKHIGSSQFIGCSGYPDCT 618
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
72-680 |
1.02e-36 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 148.43 E-value: 1.02e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 72 QYIVIPKTEKQFNVLSGLITRADMIIHAGDPDEEGqlliEEILSYCGNKAP----VKRVLINDLNKDAVRQAMRNLQD-N 146
Cdd:PRK06319 53 DYQILPDKEEVINKICKLAKKCDVVYLSPDPDREG----EAIAWHIANQLPkntkIQRISFNAITKGAVTEALKHPREiD 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 147 RAFYGLYQkalARSAGDYLFGLNMTrayTIAAREKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFID-- 224
Cdd:PRK06319 129 MALVNAQQ---ARRLLDRIVGYKIS---PILSRKLQRRSGVSAGRVQSVALKLVVDREKAIEAFVPVEYWNIRVHLKDpk 202
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 225 TDTIISPMLV----------PPEDAPVDDKGRIISEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNR 294
Cdd:PRK06319 203 TQKTFWAHLYsvdgkkwekeIPEGKTEDEVLLINSKEKADHIVELLESATYTVTRVESKEKRRNAYPPFITSTLQQEASR 282
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 295 QYGFTAEKVLEITQKLREEYRA--------ITYNRSDCRYLSEEQFSQSPATLAML--SSFFPELGKIFShidsgrksra 364
Cdd:PRK06319 283 HFRFSSSRTMNIAQTLYEGVDLdsegatglITYMRTDSVRTDPEALKQVRKYIEGTfgKEFLPSSPNVYT---------- 352
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 365 fnDKKIS--AHTAIIPTP---TPTGLD-QMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNIN-GFLFRQRAirpvsp 437
Cdd:PRK06319 353 --TKKMAqdAHEAIRPTDitlTPEKLRsKLTEDQYKLYSLIWKRFVASQMIPAIYDTLAIRITTNkGIDLRATG------ 424
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 438 gwSIL-----LA----DRDEETLPDCKLfdAITSLTKGQQLVCSSVNSRKETSTPPPLYTEASLLedlrrvaryvedpri 508
Cdd:PRK06319 425 --SLLkfkgfLAvyeeKRDDEGDEEENI--HLPKLHEQDVLTKEELSAEQAFTKPLPRFTEASLV--------------- 485
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 509 rqllldrdegKEEERGGIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGLSFIHAL----PEVMTrPDMTALWHEQQSM 584
Cdd:PRK06319 486 ----------KELEKSGIGRPSTYATIMNKIQSREYTLKENQRLRPTELGKIISQFLetnfPRIMD-IGFTALMEDELEL 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 585 IETGEIS----IDDFLD---------ELEQFIFQQVSDVDISglavaeyQCTcGGRYVRRRTDKGFFWGCSKYPDCrntv 651
Cdd:PRK06319 555 IADNKKPwkllLQEFWElflpvvvtaEKEAFIPRIVTEIDCP-------KCH-KGKLVKIWAKNRYFYGCSEYPEC---- 622
|
650 660 670 680
....*....|....*....|....*....|....*....|..
gi 486247088 652 pdrggvpDFSRSE-------------FERKVRCPVCGSGMKI 680
Cdd:PRK06319 623 -------DYKTSEeeltfnkedyaedTPWDSPCPLCGGEMKV 657
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
3-602 |
1.46e-36 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 147.60 E-value: 1.46e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 3 LWIAEKPELGKLIAQVLGnPQYfdgyivcnndTVSWAIGHLLKLIPPELKT-PEYKSwskntlplqlrPLQYIVIPKTEK 81
Cdd:PRK08780 5 LVIVESPAKAKTINKYLG-KDF----------TVLASYGHVRDLVPKEGAVdPENGF-----------AMRYDLIDKNEK 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 82 QFNVLSGLITRADMIIHAGDPDEEGQLL---IEEILSYCG--NKAPVKRVLINDLNKDAVRQAMRNLQDNRAfyGLYQKA 156
Cdd:PRK08780 63 HVEAIAKAAKSADDLYLATDPDREGEAIswhLAEILKERGllKDKPMQRVVFTEITPRAIKEAMAKPRDIAS--DLVDAQ 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 157 LARSAGDYLFGLNMTRAYTiaareKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWCVQAEFIDTDTIISPMLV-- 234
Cdd:PRK08780 141 QARRALDYLVGFNLSPLLW-----RKIQRGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAHPSQPFNAKLIkl 215
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 235 ---PPEDAPVDDKGRiisEQYCDEAIRSCKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLR 311
Cdd:PRK08780 216 dgqKFEQFTITDGDT---AEAARLRIQQAAQGTLHVTDVESKERKRNPAPPFTTSTLQQEASRKLGFTTRRTMQVAQKLY 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 312 E--------EYRAITYNRSDCRYLSEEQFSQSPATLA--MLSSFFPELGKIFshidsgrKSRAFNDKKisAHTAIIPTP- 380
Cdd:PRK08780 293 EgvdlgdegSVGLITYMRTDSVNLSQDALAEIRDVIArdYGTASLPDQPNTY-------KTKSKNAQE--AHEAVRPTSa 363
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 381 --TPTGLDQ-MNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNIN-GFLFRQRAIRPVSPGW-SILLADRDEETLPDCK 455
Cdd:PRK08780 364 lrTPAQVARfLSDDQRRLYELIWKRAVACQMIPATLNTVSVDLAAGsEHVFRATGSTVVVPGFlAVYEEGKDDKSAEDED 443
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 456 LFDAITSLTKGQQLVCSSVNSRKETSTPPPLYTEASLLEDLrrvaryvedprirqllldrdegkeeERGGIGTPATRGHI 535
Cdd:PRK08780 444 EGRKLPPMKEGDNVPLERIRAEQHFTEPPPRYTEASLVKAL-------------------------EEYGIGRPSTYASI 498
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 536 LNVLQVRGFIAVKNKKVVPTELGLSFIHALPEVMTRP---DMTALWHEQQSMIETGEisiDDFLDELEQF 602
Cdd:PRK08780 499 ISTLQFRKYVEMEGRRFRPTDVGRAVNKFLTGHFTRYvdyDFTARLEDDLDAVSRGE---KEWIPLMEKF 565
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
1-143 |
1.09e-35 |
|
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: 131.58 E-value: 1.09e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNPQYFDG-YIVCNNDTVSWAIGHLLKLIPPELKTPEYKSWSkntLPLQLRPLQYIVIPKT 79
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKKKGfYGEGGGYVVTASVGHLLELPFPEEYVDWDKDWP---LELFPFEPKYVVIPDK 77
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 486247088 80 EKQFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCGN-KAPVKRVLINDLNKDAVRQAMRNL 143
Cdd:cd01028 78 KKQLKALKKLAKKADEIVLATDPDREGELIAWEILEVLKCdNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
123-216 |
3.46e-24 |
|
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: 96.88 E-value: 3.46e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 123 VKRVLINDLNKDAVRQAMRNLQDNraFYGLYQKALARSAGDYLFGLNMTRAYTIAAREKGhneiLSVGRVQTPVLGLVVR 202
Cdd:smart00436 1 IKRIEFSEITKKAIREALKNPREI--DENLVNAQLARRILDRLIGFNLSRLLTKKLRNGV----LSAGRVQTPTLGLIVE 74
|
90
....*....|....
gi 486247088 203 RYEENRDYKKYDYW 216
Cdd:smart00436 75 REREIKNFVPKPYW 88
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
34-697 |
8.76e-21 |
|
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: 97.63 E-value: 8.76e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 34 DTVSWAIGHLLKLIPPELKTPEYKSWSKNTLPLQLRPLQYIVIPKTEKQFNVLSGLITRADmiihAGDPDEEGQLLIEEI 113
Cdd:COG0551 32 KGLAGALGLKKKLVDLLLKEKLKKLVENEKLIAELDIKDLKKLKKDKKKKAKALAAALAAA----DDDAIEAAAAADEEE 107
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 114 LSYCGNKAPVKRVLINDLNKDAVRQAMRNLQDNRAFYGLYQKALARSAGdylfglnmtRAYTIAAREKGHNEILSVGRVQ 193
Cdd:COG0551 108 ALKAAEALEAIRKAVVEEVKSRARKRAARAPADVAAAAAAAALARLLLL---------AAASRALRLLLLLAAGRLRLLS 178
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 194 TPVLGLVVRRYEENRDYKKYDYWcvQAEFIDTDTIISPMLVPPEDAPVDDKGRIISEQYCDEAIRSCKGQQASVSLAESE 273
Cdd:COG0551 179 AVAAGLLELEELLKEFEEEEEEE--AAEEEEEEEEAKKKKEEDKKKKKKKKKKDKEEETKAIKKKKKAAEAVLAAKKAAK 256
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 274 IKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLREEYRAITYNRSDCRYLSEEQFSQSPATLAMLSSFFPELGKIF 353
Cdd:COG0551 257 EAKAKKELPTTTTDALPEALATTSLTAAAAASALAAALLEEEGELLYTGGYIRYTRTPKSSEADALAALEALKKIAEEPP 336
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 354 SHIDSGRKSRAFNDKKISAHTAIIPTPTPTGLDQMNEDEMRVYKAIVAQYLVQFMPDKTFDSAVVEFNINGFLFRQRAIR 433
Cdd:COG0551 337 DERAKKKKKKAKKKKASEAKETTDHPPIPPTTAAALLELLEDRKLLLELLVRRRFAAAADLAKVEELTKVEEADEEELVE 416
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 434 PVSPGWSILLADRDEETLPdcKLFDAITSLTKGQQLVCSSVNSRKETSTPPPLYTEASLLEdlrrvaryvedprirqlll 513
Cdd:COG0551 417 AEGGLLEVLGEEEEDDEDE--EEELLLPPLEEGEPLLLEELLLEKQTTTPPPRYTTELLLK------------------- 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 514 drdegKEEERGGIGTPATRGHILNVLQVRGFIAVKNKKVVPTELGL--SFIHALPEVMTRPDMTALWHEQQSMIETGEIS 591
Cdd:COG0551 476 -----KLEEEGGGGRGTTATIIILILKRRYVVLEEKKTTPTELLVEvvLLLLLPFPKLEDTTETAEEEEALLDKEEGKED 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 592 IDDFLDELEQFIFQQVSDVDISGLA--------VAEYQC-TCGGRYVRRRTDKGFFWGCSKYPDCRNTVPDRGGVpdfsr 662
Cdd:COG0551 551 KVVEIREEEYPFFKKLLEIAEEEGEeelseedeVLGEKCpKCGKPLVIKKGRYGKFLGCSNYPECKYTKPLPKPE----- 625
|
650 660 670 680
....*....|....*....|....*....|....*....|.
gi 486247088 663 sefERKVRCPVCGSGM-KISPKA----YNCSNE-RCGFRLW 697
Cdd:COG0551 626 ---VTGVKCPKCGKKLvLRKSKKgkvfYGCSNYpKCKFTEW 663
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
96-550 |
3.10e-18 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 89.61 E-value: 3.10e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 96 IIHAGDPDEEGQLLIEEILS-----YCGNKAPVKRVLINDLNKDAVRQAMRNLQDNRAFYGLYQKALARSAGDYLFGL-- 168
Cdd:PTZ00407 128 IILATDPDREGELIAVHALQtikrlYPKLKVPFSRAYMHSITEDGIRKAMRERHVEACDYDLANAAETRHAMDRIFGFlg 207
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 169 -NMTRAytiaarekGHNEILSVGRVQTPVLGLVVRRYEENRDY--KKYDYWCVQA--EF-IDTDTIISPMLVPPED---A 239
Cdd:PTZ00407 208 sSVVRA--------ANSQMRSIGRVQTPALILINEREDKIKAFleSNKSTFEVQAmcQFpSPHGTTFSQVVTITPDrkgG 279
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 240 PVDDKGRIISEQYCDE-AIRSCkgQQASVSLAESEIKSRR-PPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLReEYRAI 317
Cdd:PTZ00407 280 ASHWATEAEARRCLEQwKLNNC--TGFSVPLEPKPQPSVVpPPQPFTMATAIAKANRQLKYSSEMVSGCLQDLF-QLGHI 356
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 318 TYNRSDCRYLSEEQFSQSPATLAMlssffpELGKIFSHIDSGRKSRAFNDKKIS-----------------------AHT 374
Cdd:PTZ00407 357 TYPRTDSTRIDESALPDIYAAVKK------EFGKEFLYRLEDRTVSAQEGKGSKktgkkrstkqkkgadtpvgnvedAHE 430
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 375 AIIPTPTPTGLDQMN-EDEMR-VYKAIVAQYLVQFM-PDKT----FDSAVVEFNINGFLFRQRAIRPVSPGWSILLADRD 447
Cdd:PTZ00407 431 AIRPTNIDTTGESLSlSPPTRaVYDLVRRNTLAVFMiPMKTekivATVKFTSGSGEKLEFELQGKRVVEPGWTRAFHKGD 510
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 448 EETL-PDCKLFDAITSLTKGQQLVCS----------------------------SVNSRKETSTPPPLYTEASLLEDLRr 498
Cdd:PTZ00407 511 KGTTgPAEETDEDITAVEEGAPVVPSlsqeefkaimnlrsqlgsgvqkgffelrSPQVRENRPVPPLPHSEGTLIEELK- 589
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|..
gi 486247088 499 varyvedprirqllldrdegkeeeRGGIGTPATRGHILNVLQVRGFIAVKNK 550
Cdd:PTZ00407 590 ------------------------NNGVGRPSTYPMIVKTLLARGYIAVNPK 617
|
|
| TopG2 |
COG1110 |
Reverse gyrase [Replication, recombination and repair]; |
84-599 |
5.34e-17 |
|
Reverse gyrase [Replication, recombination and repair];
Pssm-ID: 440727 [Multi-domain] Cd Length: 1219 Bit Score: 85.80 E-value: 5.34e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 84 NVLSGLITRADMIIHAGDPDEEGQLL---IEEILS-YCGNkapVKRVLINDLNKDAVRQAMRNLqdnRAFYGLYQKA-LA 158
Cdd:COG1110 742 EALRELATEVDEVLIGTDPDTEGEKIgwdVYNLLRpYAKN---IKRIEFHEVTRKAILEALKNP---REIDENLVEAqIV 815
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 159 RSAGDYLFGLNMTRAYTiaarEKGHNEILSVGRVQTPVLGLVVRRYEENRDYKKYDYWcVQAEFIDTDTIISPMLVPPED 238
Cdd:COG1110 816 RRIEDRWIGFTLSQKLW----KVFGNRNLSAGRVQTPVLGWIIERYEESRKSKKYLII-LTLENGRLELSIEDLKEAEEV 890
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 239 APVDDkgriiseqycdeairscKGQQASVSLAESEIKSRRPPLPFSLLDLQVKMNRQYGFTAEKVLEITQKLReEYRAIT 318
Cdd:COG1110 891 RKALE-----------------KEVKVKVKKVEEEEEELNPLPPYTTDTLLRDASRRLGLSAEETMRLAQDLF-ESGLIT 952
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 319 YNRSDCRYLSEeqfsqspATLAMLSSFfpeLGKIFShiDSGRKSRAFNDkkISAHTAIIPT------------------- 379
Cdd:COG1110 953 YHRTDSTRVSD-------AGIAVAKEY---ISERFG--EEYFKPRRWGE--GGAHEAIRPTrpldaedlrrlieegviel 1018
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 380 PTPtgldqMNEDEMRVYKAIVAQYLVQFMPdktfdSAVVEFN-------INGF-LFRQRAIRPVSPGWSILLadrdeetl 451
Cdd:COG1110 1019 PIP-----LTRRHLRLYDLIFRRFMASQMR-----PAKVEKVklrvsleLPGGeIEEERIVEIIEDGFLLIY-------- 1080
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 452 pdcKLFDAITSLTKGQQLVcSSVNSRKETSTPPplYTEASLLEDLRRVaryvedprirqllldrdegkeeergGIGTPAT 531
Cdd:COG1110 1081 ---PPIKVEPELKEGEYKV-TEVKIRKVPKVPL--YTQGDLVREMKER-------------------------GIGRPST 1129
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 486247088 532 RGHILNVLQVRGFIAV--KNKKVVPTELGLSFIHALPEV---MTRPDMTALWHEQQSMIETGEISIDDFLDEL 599
Cdd:COG1110 1130 YAKIVETLLRRGYVVEskKGKKLVPTKLGIEVYNYLSENfpdLVSEERTRELEEKMDEIEEGEADYQDVLEEL 1202
|
|
| Toprim_Crpt |
pfam13342 |
C-terminal repeat of topoisomerase; |
692-749 |
1.48e-13 |
|
C-terminal repeat of topoisomerase;
Pssm-ID: 463851 [Multi-domain] Cd Length: 60 Bit Score: 65.58 E-value: 1.48e-13
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 486247088 692 CGFRLWGTQFGKELTLAQATDLLMKGHTREIKGLKKKDGAKFDAVLNLNRDGSVVPTF 749
Cdd:pfam13342 2 CGFSIGKTIAGKKLSEEQVKELLTKGKTGLIKGFKSKKGKKFDAYLVLDDDEKVEFDF 59
|
|
| zf-C4_Topoisom |
pfam01396 |
Topoisomerase DNA binding C4 zinc finger; |
624-653 |
7.10e-07 |
|
Topoisomerase DNA binding C4 zinc finger;
Pssm-ID: 307520 [Multi-domain] Cd Length: 39 Bit Score: 46.10 E-value: 7.10e-07
10 20 30
....*....|....*....|....*....|
gi 486247088 624 CGGRYVRRRTDKGFFWGCSKYPDCRNTVPD 653
Cdd:pfam01396 7 CGGDLVLKRGRFGKFVGCSNYPECRFTRPL 36
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
1-142 |
6.01e-06 |
|
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: 46.02 E-value: 6.01e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGnpqyfDGYIVcnndtVSwAIGHLLKLIPPELK-TPEYKSWSKNtlplqlrplqYIVIPKT 79
Cdd:cd03363 1 KKLVIVESPAKAKTIKKYLG-----KEYEV-----LA-SVGHIRDLPKKGLGvDGEDDGFEPK----------YVVIPGK 59
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 486247088 80 EKQFNVLSGLITRADMIIHAGDPDEEGQLL---IEEILsycGNKAPVKRVLINDLNKDAVRQAMRN 142
Cdd:cd03363 60 KKVVKELKKLAKKADEIYLATDPDREGEAIawhLAEVL---KLKKNVKRVVFNEITKEAIKEALKN 122
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
2-131 |
4.29e-05 |
|
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: 42.73 E-value: 4.29e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 2 RLWIAEKPELGKLIAQVLGnpqyfdgyivCNNDTVSWAIGHLLKLIPPELKtpeykswskntlplqlrplqyivipkteK 81
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALG----------GGFQAVVAVLGHLLSLEKGPKK----------------------------K 42
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 486247088 82 QFNVLSGLITRADMIIHAGDPDEEGQLLIEEILSYCG-NKAPVKRVLINDL 131
Cdd:pfam01751 43 ALKALKELALKAKEVILATDPDREGEAIALKLLELKElLENAGGRVEFSEL 93
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
1-120 |
9.20e-04 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 38.40 E-value: 9.20e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 486247088 1 MRLWIAEKPELGKLIAQVLGNpqyfdgyivcnNDTVSWAIGHLLKlippelktpeykswskntlplqlrplqyivipktE 80
Cdd:smart00493 1 KVLIIVEGPADAIALEKAGGK-----------RGNVVALGGHLLS----------------------------------K 35
|
90 100 110 120
....*....|....*....|....*....|....*....|
gi 486247088 81 KQFNVLSGLITRADMIIhAGDPDEEGQLLIEEILSYCGNK 120
Cdd:smart00493 36 EQIKLLKKLAKKAEVIL-ATDPDREGEAIAWELAELLKPA 74
|
|
| |
