|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
2-646 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 961.93 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNINEKRNGYFENNKYIVTWALGHLVTNATPEQYDASYKEWKLNDLPIIPNKMKTIVISKTR 81
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 82 KQFSTVQSLINnnKVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFNKLQDGRKFNNLYHAALA 161
Cdd:PRK07726 81 KQFNVVKKLLK--QATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 162 RSEADWIVGINATRALTTK-----YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMKLNAA---GLTFHCTKPQSH 233
Cdd:PRK07726 159 RSRADWLVGINMTRAYTLLgrkagYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHLTpgeRFTAKWQPSEPY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 234 PD-------KTVLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKLVTYP 306
Cdd:PRK07726 239 QDeegrlldRPLAEQVVARIQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 307 RTDSNYLTDDMVDTLKDRLKAIMAT-SLKDMAKAQMSQTFssKQRFVNNNKVSDHHAIIPTEVRPDINQLSQRESKIYMM 385
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISKVdPYLLLAPPVLDPSI--RSRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDL 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 386 IAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIYENK---ESINTQIDQLQKGTKLNVTKILIEEHETT 462
Cdd:PRK07726 397 IARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKeedEEKEQPLPVLAKGDELKVEKGEVKEGQTQ 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 463 APPYFNEGSLLKAMESPQKFFDlsDKKHDKTLKDTGGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQK 542
Cdd:PRK07726 477 PPKRFTEGTLLSAMENIARFVQ--DKELKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQLIDALPEE 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 543 LTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKESEQNYKHDNLTTTECPTCGKFMIKVKTKNGQMLVCQ 622
Cdd:PRK07726 555 LTSPDMTAKWEQALDQISEGQLSYQDFMQPLKQWLKQLVEQAKQSSEKYKFDNLTGPKCPDCGKPMLKVKGKNGKMLVCQ 634
|
650 660
....*....|....*....|....
gi 499621861 623 DPQCKTKKNVQRKTNARCPNCHKK 646
Cdd:PRK07726 635 DRECGKRKNVSKKTNARCPNCKKK 658
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
2-666 |
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: 594.51 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNINEKRNGYFE-NNKYIVTWALGHLVTNATPEQYDASYKEWKLNDLPIIPNKMKTIVISKT 80
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLEiGVGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 81 RKQFSTVQSLINNNKVKDIIIATDAGREGELVARLILDKAH--NKKPTKRLWISSVTNKAIKEGFNKLQDGRKFNNLYHA 158
Cdd:TIGR01056 81 KKQFNVIKRILKENKVDEVVIATDPDREGELIAREILDYLKvtDKVTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 159 ALARSEADWIVGINATRALTTK-----YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYY----TMKLNAAGLTfhcTK 229
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLgreagNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYevsaTINKDEQEFT---TE 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 230 PQSHPDKT-------VLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKL 302
Cdd:TIGR01056 238 WQPYKDEEerelhefLAENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHKL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 303 VTYPRTDSNYLTDDMVDTLKDRLKAImatslKDMAKAQMSQTF---SSKQRFVNNNKVSDHHAIIPTEVRPDINQLSQRE 379
Cdd:TIGR01056 318 ITYPRTDSRYLPEDEKEMLLEVLDAL-----KVITPALLPIKKrdeLTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEE 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 380 SKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY----ENKESINTQIDQLQKGTKLNVTKIL 455
Cdd:TIGR01056 393 RNVYKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALLgkqeEDEETEDTTLPAFQKGDELDVETLE 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 456 IEEHETTAPPYFNEGSLLKAMESPQKFfdLSDKKHDKTLKDTGGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQI 535
Cdd:TIGR01056 473 LLEKQTKPPARYTEGTLLSAMTNPAAF--VQDKGLKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGKLL 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 536 LELAPQKLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKESEQNYKHDNLTTTEcptcgkfmikvktkn 615
Cdd:TIGR01056 551 CLLLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPETIQKVAKEPVS--------------- 615
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|.
gi 499621861 616 gqmlvcqdpqCKTKKNVQRKTNARCPNCHKKMTLFGRGKDAVYRCVCGHTE 666
Cdd:TIGR01056 616 ----------CGGIAKCPAKDNGRLIDCKKFPECTEYGNGCEFTIPKKLRE 656
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
2-582 |
0e+00 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 536.99 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNinekrngyfenNKYIVTWALGHLVTNATPE-QYDAsYKEWKlndlpiipnkMKTIVISKT 80
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLG-----------KDYVVTASVGHLRDLPKPElDVDV-ENDFE----------PKYEVIPGK 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 81 RKQFSTVQSLINnnKVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFNKLQDgrKFNNLYHAAL 160
Cdd:COG0550 59 KKQVKELKKLAK--KADEVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRD--IDMNLVDAQQ 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 161 ARSEADWIVGINATRALTTKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYT--MKLNAAGLTF----HCTKPQSHP 234
Cdd:COG0550 135 ARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTieATFKTGGGEFtaklVKIDGKKIL 214
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 235 DKTVLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERhKLVTYPRTDSNYLT 314
Cdd:COG0550 215 DEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEV-GLITYMRTDSVRLS 293
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 315 DDMVDTLKDRLKAIMAtslkdmakaqmSQTFSSKQRFVN--NNKVSDHHAIIPTEVRPDINQLSQRESKIYMMIAQRYLE 392
Cdd:COG0550 294 EDAVAAAREYIEALYG-----------KEYLPEKPRVYKtsKNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLIWKRFLA 362
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 393 NLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY-----ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPYF 467
Cdd:COG0550 363 SQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYgegkdDEEEEEEKRLPPLKEGEKLKLKKIEPEQHFTKPPPRY 442
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 468 NEGSLLKAMESPqkffdlsdkkhdktlkdtgGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQ---KLT 544
Cdd:COG0550 443 TEASLVKAMEEL-------------------GIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLEEhfpDLV 503
|
570 580 590
....*....|....*....|....*....|....*...
gi 499621861 545 SPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVN 582
Cdd:COG0550 504 DYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
154-570 |
8.03e-122 |
|
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: 369.65 E-value: 8.03e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 154 NLYHAALARSEADWIVGINATRALTTK--YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYT----MKLNAAGLTFHC 227
Cdd:pfam01131 5 NLVDAQLARRELDWLIGFNLSRLLTLKlkGNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTieatLKDGGGVFANAK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 228 TKPQSHPDKTVLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKLVTYPR 307
Cdd:pfam01131 85 WKRGRIFDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEKHGLITYPR 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 308 TDSNYLTDDmvDTLKDRLKAIMATSLKDMAKAQMSQTFSSKQRFVNNNKVSDHHAIIPTEVRPDINQLSQRESKIYMMIA 387
Cdd:pfam01131 165 TDSTYLSDD--ATLKAILEYLTKNYGKYLPYAPRLLKKTKGKLTVGNAKVTAHEAIRPTGDIPVLPELSDDERKLYELIV 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 388 QRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY-ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPY 466
Cdd:pfam01131 243 RRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYpYEKKEDEEELPELKEGEELKVTQVEVEEKKTKPPPR 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 467 FNEGSLLKAMESpqkffdlsdkkhdktlkdtGGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQ--KLT 544
Cdd:pfam01131 323 YTEASLIKAMEK-------------------AGIGTPATRATIIETLLERGYVERKKKSLVPTELGKALVEALEKfpDLV 383
|
410 420
....*....|....*....|....*.
gi 499621861 545 SPLLTAEWEEKLLLIEQGKYNASQFI 570
Cdd:pfam01131 384 DPELTAELEEKLDEIAEGKLDWKDVL 409
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
154-581 |
5.50e-97 |
|
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: 304.53 E-value: 5.50e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 154 NLYHAALARSEADWIVGINATRALTTK--YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTmklnaagltfhctkpq 231
Cdd:cd00186 2 NLVNAQLARRILDRLVGFNLSRLLTKKlrRKGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWE---------------- 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 232 shpdktvlesIKKAIdgqsghIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHkLVTYPRTDSN 311
Cdd:cd00186 66 ----------IKEAV------VVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAG-LITYPRTDST 128
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 312 YLTDDMVDTLKDRLKAIMAtSLKDMAKAQMSQTFSSKqrfvNNNKVSDHHAIIPTEVRP---DINQLSQRESKIYMMIAQ 388
Cdd:cd00186 129 RLSEEAILEAREYIQAIYG-KEYLYPAPLLGRRNPKR----GKKEQGAHEAIRPTKVAPtpeLEANLSEDEFKLYELIWR 203
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 389 RYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY-ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPYF 467
Cdd:cd00186 204 RFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYpEEKDDEEEEPPPLKEGDELKLEEVELEEKETQPPPRY 283
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 468 NEGSLLKAMESPqkffdlsdkkhdktlkdtgGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQ---KLT 544
Cdd:cd00186 284 TEASLIKLMEKR-------------------GIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAVIELLEKhfpELV 344
|
410 420 430
....*....|....*....|....*....|....*..
gi 499621861 545 SPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVV 581
Cdd:cd00186 345 DPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
261-535 |
1.66e-60 |
|
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: 204.02 E-value: 1.66e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 261 KKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYErHKLVTYPRTDSNYLTDDMVdtlkDRLKAIMATSLKDMAKAQ 340
Cdd:smart00437 5 KKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYE-KGLITYPRTDSTRLSEEAV----LEARNYIQKLYGKEYLDL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 341 MSQTFSSKQRFVNNNKVSDHHAIIPT---EVRPDINQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFK 417
Cdd:smart00437 80 AVVLLKPRKPRKGKKAQGAHEAIRPTkpiFTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 418 DKVTTKLGFKAIY-ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESPqkffdlsdkkhdktlkd 496
Cdd:smart00437 160 GKTLLFDGWLKVYpEEKKEEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKR----------------- 222
|
250 260 270
....*....|....*....|....*....|....*....
gi 499621861 497 tgGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQI 535
Cdd:smart00437 223 --GIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
2-646 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 961.93 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNINEKRNGYFENNKYIVTWALGHLVTNATPEQYDASYKEWKLNDLPIIPNKMKTIVISKTR 81
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 82 KQFSTVQSLINnnKVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFNKLQDGRKFNNLYHAALA 161
Cdd:PRK07726 81 KQFNVVKKLLK--QATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 162 RSEADWIVGINATRALTTK-----YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMKLNAA---GLTFHCTKPQSH 233
Cdd:PRK07726 159 RSRADWLVGINMTRAYTLLgrkagYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHLTpgeRFTAKWQPSEPY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 234 PD-------KTVLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKLVTYP 306
Cdd:PRK07726 239 QDeegrlldRPLAEQVVARIQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 307 RTDSNYLTDDMVDTLKDRLKAIMAT-SLKDMAKAQMSQTFssKQRFVNNNKVSDHHAIIPTEVRPDINQLSQRESKIYMM 385
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISKVdPYLLLAPPVLDPSI--RSRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDL 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 386 IAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIYENK---ESINTQIDQLQKGTKLNVTKILIEEHETT 462
Cdd:PRK07726 397 IARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKeedEEKEQPLPVLAKGDELKVEKGEVKEGQTQ 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 463 APPYFNEGSLLKAMESPQKFFDlsDKKHDKTLKDTGGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQK 542
Cdd:PRK07726 477 PPKRFTEGTLLSAMENIARFVQ--DKELKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQLIDALPEE 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 543 LTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKESEQNYKHDNLTTTECPTCGKFMIKVKTKNGQMLVCQ 622
Cdd:PRK07726 555 LTSPDMTAKWEQALDQISEGQLSYQDFMQPLKQWLKQLVEQAKQSSEKYKFDNLTGPKCPDCGKPMLKVKGKNGKMLVCQ 634
|
650 660
....*....|....*....|....
gi 499621861 623 DPQCKTKKNVQRKTNARCPNCHKK 646
Cdd:PRK07726 635 DRECGKRKNVSKKTNARCPNCKKK 658
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
2-666 |
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: 594.51 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNINEKRNGYFE-NNKYIVTWALGHLVTNATPEQYDASYKEWKLNDLPIIPNKMKTIVISKT 80
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLEiGVGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 81 RKQFSTVQSLINNNKVKDIIIATDAGREGELVARLILDKAH--NKKPTKRLWISSVTNKAIKEGFNKLQDGRKFNNLYHA 158
Cdd:TIGR01056 81 KKQFNVIKRILKENKVDEVVIATDPDREGELIAREILDYLKvtDKVTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 159 ALARSEADWIVGINATRALTTK-----YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYY----TMKLNAAGLTfhcTK 229
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLgreagNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYevsaTINKDEQEFT---TE 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 230 PQSHPDKT-------VLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKL 302
Cdd:TIGR01056 238 WQPYKDEEerelhefLAENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHKL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 303 VTYPRTDSNYLTDDMVDTLKDRLKAImatslKDMAKAQMSQTF---SSKQRFVNNNKVSDHHAIIPTEVRPDINQLSQRE 379
Cdd:TIGR01056 318 ITYPRTDSRYLPEDEKEMLLEVLDAL-----KVITPALLPIKKrdeLTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEE 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 380 SKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY----ENKESINTQIDQLQKGTKLNVTKIL 455
Cdd:TIGR01056 393 RNVYKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWKALLgkqeEDEETEDTTLPAFQKGDELDVETLE 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 456 IEEHETTAPPYFNEGSLLKAMESPQKFfdLSDKKHDKTLKDTGGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQI 535
Cdd:TIGR01056 473 LLEKQTKPPARYTEGTLLSAMTNPAAF--VQDKGLKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGKLL 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 536 LELAPQKLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKESEQNYKHDNLTTTEcptcgkfmikvktkn 615
Cdd:TIGR01056 551 CLLLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPETIQKVAKEPVS--------------- 615
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|.
gi 499621861 616 gqmlvcqdpqCKTKKNVQRKTNARCPNCHKKMTLFGRGKDAVYRCVCGHTE 666
Cdd:TIGR01056 616 ----------CGGIAKCPAKDNGRLIDCKKFPECTEYGNGCEFTIPKKLRE 656
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
2-582 |
0e+00 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 536.99 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNinekrngyfenNKYIVTWALGHLVTNATPE-QYDAsYKEWKlndlpiipnkMKTIVISKT 80
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLG-----------KDYVVTASVGHLRDLPKPElDVDV-ENDFE----------PKYEVIPGK 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 81 RKQFSTVQSLINnnKVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFNKLQDgrKFNNLYHAAL 160
Cdd:COG0550 59 KKQVKELKKLAK--KADEVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRD--IDMNLVDAQQ 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 161 ARSEADWIVGINATRALTTKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYT--MKLNAAGLTF----HCTKPQSHP 234
Cdd:COG0550 135 ARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTieATFKTGGGEFtaklVKIDGKKIL 214
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 235 DKTVLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERhKLVTYPRTDSNYLT 314
Cdd:COG0550 215 DEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEV-GLITYMRTDSVRLS 293
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 315 DDMVDTLKDRLKAIMAtslkdmakaqmSQTFSSKQRFVN--NNKVSDHHAIIPTEVRPDINQLSQRESKIYMMIAQRYLE 392
Cdd:COG0550 294 EDAVAAAREYIEALYG-----------KEYLPEKPRVYKtsKNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLIWKRFLA 362
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 393 NLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY-----ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPYF 467
Cdd:COG0550 363 SQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYgegkdDEEEEEEKRLPPLKEGEKLKLKKIEPEQHFTKPPPRY 442
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 468 NEGSLLKAMESPqkffdlsdkkhdktlkdtgGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQ---KLT 544
Cdd:COG0550 443 TEASLVKAMEEL-------------------GIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLEEhfpDLV 503
|
570 580 590
....*....|....*....|....*....|....*...
gi 499621861 545 SPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVN 582
Cdd:COG0550 504 DYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
2-623 |
2.15e-152 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 464.14 E-value: 2.15e-152
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNINEKRNGYFENNKYIVTWALGHLVTNATPEQYDASYKEWKLNDLPIIPNKMKTIVISKTR 81
Cdd:PRK08173 3 KALIIAEKPSVANDIARALGGFTKHDEYFESDEYVLSSAVGHLLEIAAPEEYEVKRGKWSFAHLPVIPPHFDLNPIAKTE 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 82 KQFSTVQSLINNNKVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFNKLQDGRKFNNLYHAALA 161
Cdd:PRK08173 83 SRLKVLTKLIKRKDVTRLINACDAGREGELIFRLIAQHAKAKKPVKRLWLQSMTPQAIRDGFANLRSDEDMQPLADAARC 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 162 RSEADWIVGINATRALTTkYDAQ------LSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMK---LNAAGL--------T 224
Cdd:PRK08173 163 RSEADWLVGINGTRAMTA-FNSKgggfflTTVGRVQTPTLSIVVEREEKIRRFVPRDYWEVRaefVAAAGFyegrwfdpK 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 225 FhcTKPQSHPDKTV--------LESIKKAIDGQSGHIASISKTHKKAYPqQLYNLTDLQQDAYKRFHLGPKETLNTLQTL 296
Cdd:PRK08173 242 F--KKDEFDPEKRAsrlwseaaAEAIVAACRGKPGTVTEESKPSTQLSP-LLFDLTSLQREANGRFGFSAKNTLGLAQAL 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 297 YERHKLVTYPRTDSNYLTDDMVDTLKDRLKAIMATS-LKDMAKAQMSQTFSSKQ-RFVNNNKVSDHHAIIPTEVRPdiNQ 374
Cdd:PRK08173 319 YEKHKVLTYPRTDSRALPEDYLGTVKQTLEMLKESNnYLPHAKQILDKGWVKPNkRIFDNSKISDHFAIIPTLQAP--KS 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 375 LSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY----ENKESINTQIdqlQKGTKLN 450
Cdd:PRK08173 397 LSEPEQKLYDLVVKRFLAVFFPAAEFLVTTRITEVAGHHFKTEGKVLVNPGWLAVYgkeaQGADANLVPV---QKGEKVK 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 451 VTKILIEEHETTAPPYFNEGSLLKAMESPQKFFDlsdkkhDKTLKD---TGGIGTVATRADIIEKLFNMNAIEaRDGKIK 527
Cdd:PRK08173 474 TDKIEAVALTTKPPARYNEATLLSAMEGAGKLVE------DDELREamaEKGLGTPATRAAIIEGLLGEKYLV-REGREL 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 528 V-TSKGKQILEL----APQKLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKEseqnYKHDNLT----- 597
Cdd:PRK08173 547 IpTAKAFQLMTLlrglGVEELTSPELTGEWEYKLSQIERGKLSRDAFMQEIAQMTQQIVKRAKE----YDSDTIPgdyat 622
|
650 660
....*....|....*....|....*..
gi 499621861 598 -TTECPTCGKfmiKVKtKNGQMLVCQD 623
Cdd:PRK08173 623 lQTPCPNCGG---VVK-ENYRRFACTK 645
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
154-570 |
8.03e-122 |
|
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: 369.65 E-value: 8.03e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 154 NLYHAALARSEADWIVGINATRALTTK--YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYT----MKLNAAGLTFHC 227
Cdd:pfam01131 5 NLVDAQLARRELDWLIGFNLSRLLTLKlkGNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTieatLKDGGGVFANAK 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 228 TKPQSHPDKTVLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKLVTYPR 307
Cdd:pfam01131 85 WKRGRIFDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEKHGLITYPR 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 308 TDSNYLTDDmvDTLKDRLKAIMATSLKDMAKAQMSQTFSSKQRFVNNNKVSDHHAIIPTEVRPDINQLSQRESKIYMMIA 387
Cdd:pfam01131 165 TDSTYLSDD--ATLKAILEYLTKNYGKYLPYAPRLLKKTKGKLTVGNAKVTAHEAIRPTGDIPVLPELSDDERKLYELIV 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 388 QRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY-ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPY 466
Cdd:pfam01131 243 RRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYpYEKKEDEEELPELKEGEELKVTQVEVEEKKTKPPPR 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 467 FNEGSLLKAMESpqkffdlsdkkhdktlkdtGGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQ--KLT 544
Cdd:pfam01131 323 YTEASLIKAMEK-------------------AGIGTPATRATIIETLLERGYVERKKKSLVPTELGKALVEALEKfpDLV 383
|
410 420
....*....|....*....|....*.
gi 499621861 545 SPLLTAEWEEKLLLIEQGKYNASQFI 570
Cdd:pfam01131 384 DPELTAELEEKLDEIAEGKLDWKDVL 409
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
1-605 |
1.01e-114 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 368.90 E-value: 1.01e-114
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 1 MKSLIIAEKPSVGRDIANTLNIN----EKRNGYFENNKYIVTWALGHLVTNATPEQYDASYKEWKLNDLPIIPNKMKTIV 76
Cdd:PRK14724 1 TKTLVIAEKPSVAQDIVRALTPVagkfEKHDEHFESDSYVVTSAVGHLVEIQAPEEFDVKRGKWSFANLPVIPPYFDLKP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 77 ISKTRKQFSTVQSLINNNKVKDIIIATDAGREGELVARLILDKAHNK-----KPTKRLWISSVTNKAIKEGFNKLQDGRK 151
Cdd:PRK14724 81 VDKTKTRLNAVVKLAKRKDVTELVNACDAGREGELIFRLIEQYAGGAkgglgKPVKRLWLQSMTPQAIRDGFDNLRSDAQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 152 FNNLYHAALARSEADWIVGINATRALT--TKYDAQLSL---GRVQTPTIQLVQMRQNEINHFKPQTYYTMKlnaagLTFH 226
Cdd:PRK14724 161 MQGLASAARSRSEADWLVGINGTRAMTafNSRDGGFFLttvGRVQTPTLSLVVEREEKIRKFVSRDYWEIH-----AGFH 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 227 C--------------TKPQSHPD--------KTVLESIKKAIDGQSGHIASISKTHKKAYPqQLYNLTDLQQDAYKRFHL 284
Cdd:PRK14724 236 AeageylgkwfdpqwKKASDDPEaradrvwsEREARAIADAVRGKAATVTEESKPTTQASP-LLFDLTSLQREANGKFGF 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 285 GPKETLNTLQTLYERHKLVTYPRTDSNYLTDDMVDTLKDRLKAIMATSLKDMA----KAQMSQTFSSKQRFVNNNKVSDH 360
Cdd:PRK14724 315 SAKTTLALAQSLYERHKALTYPRTDSRALPEDYLPVAKQTFEMLATSGMRHLApfaqQALDGNYVRPSKRIFDNSKVSDH 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 361 HAIIPTEVRPdiNQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIYeNKESINTQI 440
Cdd:PRK14724 395 FAIIPTTQAP--SGLSEAEQKLYDLVVRRFMAVFFPSAEYQVTTRISQVVGHSFKTEGKVLVKPGWLAIY-GKEAANEVE 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 441 DQ-----------LQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESPQKFFD---LSDKKHDKtlkdtgGIGTVATR 506
Cdd:PRK14724 472 DAkdgdkgqplvpVKPGEMVRTEFAEAKGLKTKPPARYSEATLLGAMESAGKQIDddeLREAMQEK------GLGTPATR 545
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 507 ADIIEKLFNMNAIeARDGKIKV-TSKGKQILE----LAPQKLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVV 581
Cdd:PRK14724 546 AAIIEGLLTEKYM-LREGRELIpTAKAFQLMTllrgLGVEELSRAELTGEWEYKLAQMEKGQLSREAFMQQIAAMTEKLV 624
|
650 660
....*....|....*....|....*.
gi 499621861 582 NEIKESEQNYKHDNLTT--TECPTCG 605
Cdd:PRK14724 625 KKAKEYDRDTIPGDYATlsTPCPNCG 650
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
154-581 |
5.50e-97 |
|
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: 304.53 E-value: 5.50e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 154 NLYHAALARSEADWIVGINATRALTTK--YDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTmklnaagltfhctkpq 231
Cdd:cd00186 2 NLVNAQLARRILDRLVGFNLSRLLTKKlrRKGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWE---------------- 65
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 232 shpdktvlesIKKAIdgqsghIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHkLVTYPRTDSN 311
Cdd:cd00186 66 ----------IKEAV------VVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAG-LITYPRTDST 128
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 312 YLTDDMVDTLKDRLKAIMAtSLKDMAKAQMSQTFSSKqrfvNNNKVSDHHAIIPTEVRP---DINQLSQRESKIYMMIAQ 388
Cdd:cd00186 129 RLSEEAILEAREYIQAIYG-KEYLYPAPLLGRRNPKR----GKKEQGAHEAIRPTKVAPtpeLEANLSEDEFKLYELIWR 203
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 389 RYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIY-ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPYF 467
Cdd:cd00186 204 RFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYpEEKDDEEEEPPPLKEGDELKLEEVELEEKETQPPPRY 283
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 468 NEGSLLKAMESPqkffdlsdkkhdktlkdtgGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQ---KLT 544
Cdd:cd00186 284 TEASLIKLMEKR-------------------GIGRPSTYASIIETLLDRGYVEKEKKKLIPTELGFAVIELLEKhfpELV 344
|
410 420 430
....*....|....*....|....*....|....*..
gi 499621861 545 SPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVV 581
Cdd:cd00186 345 DPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
4-660 |
7.06e-88 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 293.45 E-value: 7.06e-88
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 4 LIIAEKPSVGRDIANTLN------INEKRNGYFE----NNKYIVTWALGHLVTNATPEQYdasyKEWKLNDLPIIPNKmk 73
Cdd:PRK07219 3 LIIAEKNNAARRIADILSggkakkKRVNGVPYYEferkGEKWIVIGLSGHIVTVDFPEEY----GDWRDVDPAELIDA-- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 74 TIVISKTRKQF-STVQSLinNNKVKDIIIATDAGREGELVARLILDKAH--NKKPTKRLWISSVTNKAIKEGFNKLqDGR 150
Cdd:PRK07219 77 DPVKKITKQNYiNALKKL--AKDADEIIIATDYDREGELIGKEAYHILRevCQVPVKRARFSSLTKKEIRKAFENP-DEI 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 151 KFNnLYHAALARSEADWIVGINATRALT-----TKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMK--LNAAGL 223
Cdd:PRK07219 154 DFN-LADAGEARQIIDLYWGAALTRFLSlsvrqLGRWDFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEalLDKEAQ 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 224 TFHCTKPQSHP-----DKTVLESIKKAIDGQ-SGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLY 297
Cdd:PRK07219 233 YFYRDLIGGHEaekfwDEEEAEEIYEKLKGAkEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRAMEIAEKLY 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 298 ERhKLVTYPRTDSNYLTDDMvdTLKDRLKAIMATS-LKDMAKAQMSQTFSSKQRfvNNNKVSDHHAIIPTEVRPDiNQLS 376
Cdd:PRK07219 313 TA-GYISYPRTDNTVYPDDL--DPKELLKKLSKKKeYGPYAESILEQENIKPTE--GKKETTDHPPIHPVDVPKR-EELS 386
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 377 QRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIYENKESINTQIDQLQKGTKLNVTKILI 456
Cdd:PRK07219 387 DDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDLEEGEKLKVNKIEI 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 457 EEHETTAPPYFNEGSLLKAMEspqkffdlsdkKHdktlkdtgGIGTVATRADIIEKLFNMN-AIEarDGKIKVTSKGKQI 535
Cdd:PRK07219 467 EAKETQPPKRYTQSSLIKEME-----------KR--------GLGTKATRHDIIEKLYKRGyVIE--GDPPRPTDLGIAV 525
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 536 LELAPQ---KLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKESEQ---NYKHDNLTTT--------EC 601
Cdd:PRK07219 526 IEALEKyapEIVSEEMTAQLEADMQAIEDGKKKKEDVTEESREMLKEILSELKEKRKeigDHLAGSLKAEnrslktigKC 605
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499621861 602 PTCGKFMIKVKTKNGQMLV-CQD-PQCKTKKNVQRK-----TNARCPNCHKKMTLFGRGKDA-VYRC 660
Cdd:PRK07219 606 PECGGDLIIIRTDKGSRFVgCSGyPDCRNTFPLPSTgrikvLDEVCEKCGLPVIKILRGKQTfVVGC 672
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
1-589 |
6.48e-68 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 235.66 E-value: 6.48e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 1 MKSLIIAEKPSVGRDIANTLNINEKR---NG--YFE----NNKYIVTWALGHLVTNATPEQ----YDAsykEWKlndlP- 66
Cdd:PRK05776 1 GYILVIAEKPKAARKIAEALSEKPIRcriYGvpYWIvkrdGKKIVVAPAAGHLFGLHTKSKgfpvFDY---EWK----Pl 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 67 --IIPNKmktiviSKTRKQFSTVQSLINNnkVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFN 144
Cdd:PRK05776 74 yeIDKGS------KYTKKYYELLSSLSKY--ADEFINACDYDIEGSVIGYLIIKYLGDPKKAKRMKFSALTKSDIRRAFR 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 145 KLQdgRKFNNLYHAALARSEADWIVGINATRALT------TKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMKL 218
Cdd:PRK05776 146 NLE--TLDYEMINAGIARHELDWLWGINVSRALMssvrdaSGKRVILSAGRVQSPTLKYVVEREIERNLFVPLPYFSVSI 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 219 NAAG------LTFHCTKPQSHPD-KTVLESIKKaidGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLN 291
Cdd:PRK05776 224 IIEKngyeftLKYENKKFETKEEaKEILEEIKK---TGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGFSPYKTQS 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 292 TLQTLYERhKLVTYPRTDSNYLTDDMvdTLKDRLKAIMA-TSLKDMAKAQMSQTfssKQRFVNNNKVSD---HHAIIPTE 367
Cdd:PRK05776 301 IAEDLYLD-GLISYPRTNSQKLPPTL--NIRNILKGLSRsPQYRPLVNLLLKET---KGVLKPVQGPKDdpaHPAIYPTG 374
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 368 VRPdiNQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDK--VTTKLGFKAIYENKESINTQIDQLQK 445
Cdd:PRK05776 375 EPP--KNLSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPGFPLVFSASgqRIEERGWLKYYPFHKFDEEELPLLKK 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 446 GTKLNVTKILIEEHETTAPPYFNEGSLLKAMESpqkffdlsdkkhdktlkdtGGIGTVATRADIIEKLFNMNAIEARDGK 525
Cdd:PRK05776 453 GERVKIVDVKVRKSYTKPPSRYSKASLLKWMES-------------------VGIGTEATRARIIETLFKRGYLTSNGKY 513
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 499621861 526 IKVTSKGKQILEL----APQkLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKESEQ 589
Cdd:PRK05776 514 IEVTPLGFGVAEVlekyFPD-IVSVELTRDFEEKLEMIRTGKATREEVIEEAKETLNKLLEEFKKNKD 580
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
261-535 |
1.66e-60 |
|
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: 204.02 E-value: 1.66e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 261 KKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYErHKLVTYPRTDSNYLTDDMVdtlkDRLKAIMATSLKDMAKAQ 340
Cdd:smart00437 5 KKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYE-KGLITYPRTDSTRLSEEAV----LEARNYIQKLYGKEYLDL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 341 MSQTFSSKQRFVNNNKVSDHHAIIPT---EVRPDINQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFK 417
Cdd:smart00437 80 AVVLLKPRKPRKGKKAQGAHEAIRPTkpiFTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 418 DKVTTKLGFKAIY-ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESPqkffdlsdkkhdktlkd 496
Cdd:smart00437 160 GKTLLFDGWLKVYpEEKKEEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKR----------------- 222
|
250 260 270
....*....|....*....|....*....|....*....
gi 499621861 497 tgGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQI 535
Cdd:smart00437 223 --GIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
1-652 |
1.04e-52 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 193.54 E-value: 1.04e-52
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 1 MKSLIIAEKPSVGRDIantlninEKrngyFENNKYIVTWALGH---LVTNAT---PEQ-YDASYKewklndlpIIPNKMK 73
Cdd:PRK06599 2 AKKLVIVESPAKAKTI-------KK----YLGKDYKVLASFGHvrdLPKKKGgvdPDNdFAPKYE--------IIEGKEK 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 74 tiVISKTRKQFStvqslinnnKVKDIIIATDAGREGEL----VARLILDKAHNKKPTKRLWISSVTNKAIKEGfnkLQDG 149
Cdd:PRK06599 63 --VVDALKKAAK---------KADAVYLATDPDREGEAiawhIAEVLKEAKLKDKNVKRVVFNEITKKAVQEA---IENP 128
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 150 RKFN-NLYHAALARSEADWIVGINATRALTTKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMKL---NAAGLTF 225
Cdd:PRK06599 129 RDIDmDLVDAQQARRALDYLVGFKLSPLLWKKVRRGLSAGRVQSVALRLICEREDEIEAFIPQEYWTIEAdlaTSNGEPF 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 226 HCT-------KPQSH--PDKTVLESIKKAIDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTL 296
Cdd:PRK06599 209 TAKlvevngkKLEKFsiTNEEQAKALVKALEGQAYTVDKIEKKERKRNPPPPFITSTLQQEASRKLGFSAKKTMRIAQKL 288
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 297 YE-------RHKLVTYPRTDSNYLTDDMVDtlkdrlkaimatslkdMAKAQMSQTF------SSKQRFVNNNK-VSD-HH 361
Cdd:PRK06599 289 YEgidlgegTVGLITYMRTDSVRLSNEALD----------------EARKYITKKYgkeylpAKPRVYKKKSKnAQEaHE 352
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 362 AIIPTEVR--PDI--NQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKL--GFKAIY----- 430
Cdd:PRK06599 353 AIRPTSINrtPESlkPYLTPDQFKLYELIWKRTVASQMAPAILDQTSVDIASENGKYVFRATGSVILfpGFLKVYgeskd 432
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 431 ENKESINTQIDQLQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESPqkffdlsdkkhdktlkdtgGIGTVATRADII 510
Cdd:PRK06599 433 DEEEDDEKLLPPLKEGEKLKLDELLPEQHFTEPPPRYSEASLVKKLEEY-------------------GIGRPSTYASII 493
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 511 EKLFNMNAIEARDGKIKVTSKGK---QILELAPQKLTSPLLTAEWEEKLLLIEQGKynaSQFISEMKAFT---NQVVNEI 584
Cdd:PRK06599 494 STLQDREYVELEKKRFIPTDLGRivnDFLVEHFPKYVDYDFTAGLEDELDEIAEGK---KDWKPVLREFWepfISNLEKV 570
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 585 KESEQNYKHDNLTTTE-CPTC--GKFMIKVkTKNGQMLVCQD-PQCKTKKNVQR-----------KTNARCPNCHKKMTL 649
Cdd:PRK06599 571 EEDVRTEKVTQEETDEtCPKCggGPLVLKL-GKNGKFLGCSGyPECKYTKNITRdedepieeeeiVEEEKCPKCGGPLVL 649
|
....*..
gi 499621861 650 ----FGR 652
Cdd:PRK06599 650 kkgrYGK 656
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
2-146 |
2.50e-48 |
|
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: 167.03 E-value: 2.50e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNINEKRNG-------YFENNKYIVTWALGHLVTNATPEQYDASYKEWKLNDlPIIPNKMKT 74
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGkgryyefYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLED-PLFPAPFKL 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 499621861 75 IVISKTRKQFSTVQSLINNNKVkdIIIATDAGREGELVARLILDKAHN--KKPTKRLWISSVTNKAIKEGFNKL 146
Cdd:cd03362 80 KVDKGKKKQFKVLKKLAKRADE--IVIATDADREGELIGREILEYAKCvkRKPVKRAWFSSLTPKAIRRAFKNL 151
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
1-631 |
2.74e-44 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 171.13 E-value: 2.74e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 1 MKSLIIAEKPSVGRDIantlninekrNGYFENNkYIVTWALGH---LVTNATPEQydASYKEWKLNDLPIIPN---KMKT 74
Cdd:PRK07561 1 GKSLVIVESPAKAKTI----------NKYLGSD-YVVKASVGHirdLPTSASSVP--AKEKGALWARMGVDPDhdfEALY 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 75 IVISKTRKQFSTVQSLINnnKVKDIIIATDAGREGELVA---RLILDKahNKKPTKRLWISSVTNKAIKEGFnklQDGRK 151
Cdd:PRK07561 68 EVLPGKEKVVSELKKAAK--DADELYLATDPDREGEAIAwhlLEVLGG--DDVPVKRVVFNEITKNAIQEAF---ENPRE 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 152 FN-NLYHAALARSEADWIVGINATRALTTKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTY--------------YTM 216
Cdd:PRK07561 141 LDiNLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEEYwdihadlttprgdaFEA 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 217 KL-NAAGLTFhctKPQSHPDKTVLESIKKAIDGQSGHIASISK--THKKAYPQqlYNLTDLQQDAYKRFHLGPKETLNTL 293
Cdd:PRK07561 221 RLtHLDGKKF---APVDLLNEAQAEAAVAALEGARYSVASVEDkpTTRKPSAP--FTTSTLQQEASRKLGFSVKKTMRIA 295
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 294 QTLYERhKLVTYPRTDSNYLTDDmvdtlkdrlkAImatslkDMAKAQMSQTF-----SSKQRFVnNNKVSD----HHAII 364
Cdd:PRK07561 296 QRLYEA-GYITYMRTDSTNLSQE----------AI------NAARGYIGDNYgkkylPEKPRQY-SSKAKNaqeaHEAIR 357
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 365 PTEV--RPD-INQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIYEnkESINTQID 441
Cdd:PRK07561 358 PSDVfrTPDqLKGLEGDAQRLYELIWKRFVASQMAPARYDSTTVTIAAGDAELRATGRVLRFDGFLKVYV--EGRDDALD 435
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 442 -------QLQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESPqkffdlsdkkhdktlkdtgGIGTVATRADIIeklf 514
Cdd:PRK07561 436 dedrrlpALKVGDALTLEKLDPTQHFTKPPARYSEASLVKELEKL-------------------GIGRPSTYASII---- 492
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 515 nmnaieardGKIK----VTSKGKQileLAPQK---LTSPLL------------TAEWEEKLLLIEQGKYNASQFISEM-K 574
Cdd:PRK07561 493 ---------STIQdrgyVRLENRR---FYPEKmgrIVTDRLeeffprlvdydfTARMEEELDDIANGEADWKPVLDDFyK 560
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499621861 575 AFTNQvVNEIKESEQ----NYKHDNLTTTECPTCGKFMiKVKT-KNGQMLVC----QDPQCKTKKN 631
Cdd:PRK07561 561 DFSQQ-LEKAEELREeggmRPNQMVITDRDCPTCGRGM-GIRTgKTGVFLGCsgyaLKERCKTTRN 624
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
4-628 |
1.58e-42 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 164.93 E-value: 1.58e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 4 LIIAEKPSVGRDIANTL---NINEKR------NGYFENNKYIVTWAL-GHLVTNATPEQYDasykEW-KLNDLPIIPNKM 72
Cdd:PRK07220 3 LIITEKNIAARRIAQILapkKPKKTRvsgvdvYRYEDNGDDTVVVGLsGHIVNIDFPKEYN----NWqKVDARDLIDAEI 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 73 KTIVISKtrKQFSTVQSLinNNKVKDIIIATDAGREGELV---ARLILDKAHNKKPTKRLWISSVTNKAIKEGFNKLQDg 149
Cdd:PRK07220 79 ITTPTQK--KIVTALKKL--GKEADRVTIATDYDREGELIgveALNIIKKVNPDIKFDRVRYSAITKKEIERAFSNPVE- 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 150 RKFNnLYHAALARSEADWIVGINATR--ALTTKY--DAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTM--KLNAAGL 223
Cdd:PRK07220 154 VDFN-LADAGHSRQVIDLVWGAALTRyiSLAAGRlgKMFLSVGRVQSPTLALIVDREKEREAFVPTPYWEIyaTLENNGE 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 224 TF---HCTkpQSHPDKTVLESIKKAIdGQSGHIASISKTHKKAYPQQLYNLTDLQQdAYKRFHLGPKETLNTLQTLYErH 300
Cdd:PRK07220 233 TFvaqHST--RRFWEKEEADRVFEKL-GKTAEVTEVEKGTKTDKPPTPFNTTEFIS-AANSIGFSAANAMRIAESLYT-N 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 301 KLVTYPRTDsNYLTDDMVDtLKDRLKAIMATSLKD-----MAKAQMSQTFSSKQrfvnnnkVSDHHAIIPTEvRPDINQL 375
Cdd:PRK07220 308 GYISYPRTD-NTVYPESLD-LREQIEIFAEGPFGEyaqklLEKGELVPTRGKKE-------TTDHPPIYPAS-LAKKSEL 377
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 376 SQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIYENKESINTQIDQLQKGTKLNVTKIL 455
Cdd:PRK07220 378 KEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYNAPEDRLLPELSEGEELKVKKKE 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 456 IEEHETTAPPYFNEGSLLKAMEspqkffDLsdkkhdktlkdtgGIGTVATRADIIEKLFNMNAIEArdGKIKVTSKGKQI 535
Cdd:PRK07220 458 MLDKETQPPGRYGQGRLIKLME------DL-------------GLGTKATRHEIISKLYSRAYIHG--NPIQPTNTAFAV 516
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 536 LE----LAPQkLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVV-------NEIKESEQNYKHDNLTTTECPTC 604
Cdd:PRK07220 517 VDalekYAPT-ITKPDMTSRLEEDMDKIAEGKIKEDAVLEESREMLEQVFdeldknrEKIRESLREGLREDKIIGKCPLC 595
|
650 660
....*....|....*....|....*.
gi 499621861 605 GK-FMIKVKTKNGQMLVCQD-PQCKT 628
Cdd:PRK07220 596 GSdLMVRRSKRGSRFIGCEGyPECTF 621
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
2-146 |
3.73e-41 |
|
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: 146.99 E-value: 3.73e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTL-NINEKRNGYFENNKYIVTWALGHLVTNATPEQYDasyKEWKLNDLPIIPNKMKTIVISKT 80
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILgKGSKKKGFYGEGGGYVVTASVGHLLELPFPEEYV---DWDKDWPLELFPFEPKYVVIPDK 77
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 499621861 81 RKQFSTVQSLInnNKVKDIIIATDAGREGELVARLILDKAHN-KKPTKRLWISSVTNKAIKEGFNKL 146
Cdd:cd01028 78 KKQLKALKKLA--KKADEIVLATDPDREGELIAWEILEVLKCdNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
71-590 |
2.05e-39 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 155.69 E-value: 2.05e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 71 KMKTIVISKTRKQFSTVQSLINnnKVKDIIIATDAGREGELV----ARLILDKAHNK-KPTKRLWISSVTNKAIKEGFNK 145
Cdd:PRK08780 51 AMRYDLIDKNEKHVEAIAKAAK--SADDLYLATDPDREGEAIswhlAEILKERGLLKdKPMQRVVFTEITPRAIKEAMAK 128
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 146 LQDGRKfnNLYHAALARSEADWIVGINATRALTTKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMKLNAAGLTF 225
Cdd:PRK08780 129 PRDIAS--DLVDAQQARRALDYLVGFNLSPLLWRKIQRGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAHPSQ 206
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 226 HCTKPQSHPD---------------KTVLESIKKAIDGQSgHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPKETL 290
Cdd:PRK08780 207 PFNAKLIKLDgqkfeqftitdgdtaEAARLRIQQAAQGTL-HVTDVESKERKRNPAPPFTTSTLQQEASRKLGFTTRRTM 285
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 291 NTLQTLYE--------RHKLVTYPRTDSNYLTDDMVDTLKDRL-KAIMATSLKDMAkaqmsQTFSSKQRfvnnNKVSDHH 361
Cdd:PRK08780 286 QVAQKLYEgvdlgdegSVGLITYMRTDSVNLSQDALAEIRDVIaRDYGTASLPDQP-----NTYKTKSK----NAQEAHE 356
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 362 AIIPT-------EVRPdinQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVG-QHTFTFKDKVTTKLGFKAIY-EN 432
Cdd:PRK08780 357 AVRPTsalrtpaQVAR---FLSDDQRRLYELIWKRAVACQMIPATLNTVSVDLAAGsEHVFRATGSTVVVPGFLAVYeEG 433
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 433 KESINTQIDQ-------LQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESpqkffdlsdkkhdktlkdtGGIGTVAT 505
Cdd:PRK08780 434 KDDKSAEDEDegrklppMKEGDNVPLERIRAEQHFTEPPPRYTEASLVKALEE-------------------YGIGRPST 494
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 506 RADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQKLTSPL---LTAEWEEKLLLIEQGKynaSQFISEMKAFTNQVVN 582
Cdd:PRK08780 495 YASIISTLQFRKYVEMEGRRFRPTDVGRAVNKFLTGHFTRYVdydFTARLEDDLDAVSRGE---KEWIPLMEKFWGPFKE 571
|
....*...
gi 499621861 583 EIKESEQN 590
Cdd:PRK08780 572 LVEEKKDS 579
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
29-686 |
2.01e-35 |
|
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: 143.08 E-value: 2.01e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 29 YFENNKYIVTWALGHLVTNATPEQYDASYKEWKLNDLPIIPNKMKTIVISKTRKQFSTVQSLINNNKVKDIIIATDAGRE 108
Cdd:COG0551 2 EKEIAAALAAAKEAVKLVKKKKKKKKEGKKKGLAGALGLKKKLVDLLLKEKLKKLVENEKLIAELDIKDLKKLKKDKKKK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 109 GELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFNKLQDGRKFNNLYHAALARSEADWIVGINATRALTTKYDAQLSLG 188
Cdd:COG0551 82 AKALAAALAAADDDAIEAAAAADEEEALKAAEALEAIRKAVVEEVKSRARKRAARAPADVAAAAAAAALARLLLLAAASR 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 189 RVQTPTIQLVQMRQNEINHFKPQTYY-----TMKLNAAGLTFHCTKPQSHPDKTVLESIKKAIDGQSGHIASISKTHKKA 263
Cdd:COG0551 162 ALRLLLLLAAGRLRLLSAVAAGLLELeellkEFEEEEEEEAAEEEEEEEEAKKKKEEDKKKKKKKKKKDKEEETKAIKKK 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 264 YPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKLVTYPRTDSNYLTDDMVDTLKDRLKAIMATSLKDMAKAQMSQ 343
Cdd:COG0551 242 KKAAEAVLAAKKAAKEAKAKKELPTTTTDALPEALATTSLTAAAAASALAAALLEEEGELLYTGGYIRYTRTPKSSEADA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 344 TFSSKQRFVNNNKVSDHHAIIPTEVRPDINQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTK 423
Cdd:COG0551 322 LAALEALKKIAEEPPDERAKKKKKKAKKKKASEAKETTDHPPIPPTTAAALLELLEDRKLLLELLVRRRFAAAADLAKVE 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 424 LGFKAIYENKESI-------NTQIDQLQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESPQKFFDLSDKKHDKTLKD 496
Cdd:COG0551 402 ELTKVEEADEEELveaegglLEVLGEEEEDDEDEEEELLLPPLEEGEPLLLEELLLEKQTTTPPPRYTTELLLKKLEEEG 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 497 TGGIGTVATRADIIEKLFNMNAIEARDGKIKVTSKGKQILELAPQKLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAF 576
Cdd:COG0551 482 GGGRGTTATIIILILKRRYVVLEEKKTTPTELLVEVVLLLLLPFPKLEDTTETAEEEEALLDKEEGKEDKVVEIREEEYP 561
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 577 TNQVVNEIKESEQNYKH---DNLTTTECPTCGKFMIKVKTKNGQMLVCQD-PQCKTKKNV--QRKTNARCPNCHKKMTLF 650
Cdd:COG0551 562 FFKKLLEIAEEEGEEELseeDEVLGEKCPKCGKPLVIKKGRYGKFLGCSNyPECKYTKPLpkPEVTGVKCPKCGKKLVLR 641
|
650 660 670 680
....*....|....*....|....*....|....*....|.
gi 499621861 651 -GRGKDAVYRCV----CGHTETQAQMDKRHKNKKSDKVNKK 686
Cdd:COG0551 642 kSKKGKVFYGCSnypkCKFTEWDKPVKEPCPKCGSPLVEKK 682
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
4-627 |
1.35e-34 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 141.52 E-value: 1.35e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 4 LIIAEKPSVGRDIANTL----NINEKRNG----YFENNKyIVTWALGHLVTnatpEQYDASYKEWKLNDLPiiPNKM--- 72
Cdd:PRK14973 3 LIIAEKNIAANRIAQILagktKVQVKKDGgvstYSFDDT-VVVGLRGHVVE----VDFEPGYTNWRSEEHT--PRSLida 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 73 KTIVISKTRKQFSTVQSLinNNKVKDIIIATDAGREGELVARLILD--KAHNKK-PTKRLWISSVTNKAIKEGFNKLQDg 149
Cdd:PRK14973 76 DTIKKPTEKKIVGLIQKL--AKKADRVTIATDFDTEGELIGKEAYElvRAVNPKvPIDRARFSAITKEEIVTAFAEPTD- 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 150 RKFNnLYHAALARSEADWIVGINATR--ALTTKYDAQ--LSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMKL--NAAGL 223
Cdd:PRK14973 153 LDFA-LAAAGEARQIIDLIWGASLTRfiSLAAHRGGDniLSVGRVQSPTLAMIVDREKEIEAFVPEKYWMLSLatEKDGE 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 224 TFHCTkpQSHPDKTVLESIKKAIDGQSG--HIASISKTHKKAYPQQLYNLTDLQQDAyKRFHLGPKETLNTLQTLYeRHK 301
Cdd:PRK14973 232 GIEAR--HTHGRFTDSAAAEAAYDATKEplVVTEVKEGHKVDRAPTPFDTTTFIVAA-SRLGFSAANAMRIAEDLY-MNG 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 302 LVTYPRTDSNYLTDDMvdtlkdRLKAIMATslkdMAKAQmsqtFSSKQRFVNNNK----------VSDHHAIIPTEVRPD 371
Cdd:PRK14973 308 YISYPRTDNTIYPKSL------DLNGVLAT----LAKGA----FSKDVAWVKDNRrpvptrgkksSTDHPPIHPTGVATR 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 372 iNQLSQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVGQHTFTFKDKVTTKLGFKAIYENKESINTQIDQLQKGTKLNV 451
Cdd:PRK14973 374 -EELGDDRWKLYELVVRRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVYPYSEAKENILPAFALGEKLPI 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 452 TKILIEEHETTAPPYFNEGSLLKAMESPqkffdlsdkkhdktlkdtgGIGTVATRADIIEKLFNMNAIEArdGKIKVTSK 531
Cdd:PRK14973 453 LAVNLEEKETQPPARYSQSRLIQRMEEL-------------------GLGTKSTRHEVIGKLVSRKYIEG--NPLRPTLV 511
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 532 GKQI---LELAPQKLTSPLLTAEWEEKLLLIEQGKYNASQFISEMKAFTNQVVNEIKESEQNYKHD-------NLTTTEC 601
Cdd:PRK14973 512 GRAVtesLEEHAGTITEPDMTQTLEEHMQQIKERKRTRDDVVTESRKMLHRAFDELEANEAVIGRDimertaeELTIGPC 591
|
650 660
....*....|....*....|....*...
gi 499621861 602 PTCGKfMIKVKTKNG-QMLVCQD-PQCK 627
Cdd:PRK14973 592 PVCGK-DLRIKHIGSsQFIGCSGyPDCT 618
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
2-647 |
1.89e-34 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 140.73 E-value: 1.89e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNINekrngyfennkYIVTWALGHLVtnatpeqyDASYKEWKLN-------DLPIIPNKMKt 74
Cdd:PRK06319 3 KSLIIVESPAKIKTLQKLLGEG-----------FIFASSLGHIV--------DLPAKEFGIDiendfepDYQILPDKEE- 62
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 75 iVISKTRKQFStvqslinnnKVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGfnkLQDGRKFN- 153
Cdd:PRK06319 63 -VINKICKLAK---------KCDVVYLSPDPDREGEAIAWHIANQLPKNTKIQRISFNAITKGAVTEA---LKHPREIDm 129
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 154 NLYHAALARSEADWIVGINATRALTTKYD--AQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYT----MKLNAAGLTF-- 225
Cdd:PRK06319 130 ALVNAQQARRLLDRIVGYKISPILSRKLQrrSGVSAGRVQSVALKLVVDREKAIEAFVPVEYWNirvhLKDPKTQKTFwa 209
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 226 ------------HCTKPQSHPDKTVLESIKKA------IDGQSGHIASISKTHKKAYPQQLYNLTDLQQDAYKRFHLGPK 287
Cdd:PRK06319 210 hlysvdgkkwekEIPEGKTEDEVLLINSKEKAdhivelLESATYTVTRVESKEKRRNAYPPFITSTLQQEASRHFRFSSS 289
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 288 ETLNTLQTLYE--------RHKLVTYPRTDSNYLTDDMVDTLKDRL-----KAIMATSLKDMAKAQMSQtfsskqrfvnn 354
Cdd:PRK06319 290 RTMNIAQTLYEgvdldsegATGLITYMRTDSVRTDPEALKQVRKYIegtfgKEFLPSSPNVYTTKKMAQ----------- 358
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 355 nkvSDHHAIIPTEVR--PDI--NQLSQRESKIYMMIAQRYLENLMPPHEYEAIA--------IELKVGQHTFTFKdkvtt 422
Cdd:PRK06319 359 ---DAHEAIRPTDITltPEKlrSKLTEDQYKLYSLIWKRFVASQMIPAIYDTLAirittnkgIDLRATGSLLKFK----- 430
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 423 klGFKAIYENK------ESINTQIDQLQKGTKLNVTKILIEEHETTAPPYFNEGSLLKAMESpqkffdlsdkkhdktlkd 496
Cdd:PRK06319 431 --GFLAVYEEKrddegdEEENIHLPKLHEQDVLTKEELSAEQAFTKPLPRFTEASLVKELEK------------------ 490
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 497 tGGIGTVATRADIieklfnMNAIEARD------GKIKVTSKGK---QILELAPQKLTSPLLTAEWEEKLLLIEQGKYNAS 567
Cdd:PRK06319 491 -SGIGRPSTYATI------MNKIQSREytlkenQRLRPTELGKiisQFLETNFPRIMDIGFTALMEDELELIADNKKPWK 563
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 568 QFISEmkaFTNQVVNEIKESEQN-YKHDNLTTTECPTCGKF-MIKVKTKNGQMLVCQD-PQCKTKKNVQRKT-------- 636
Cdd:PRK06319 564 LLLQE---FWELFLPVVVTAEKEaFIPRIVTEIDCPKCHKGkLVKIWAKNRYFYGCSEyPECDYKTSEEELTfnkedyae 640
|
730
....*....|....*
gi 499621861 637 ----NARCPNCHKKM 647
Cdd:PRK06319 641 dtpwDSPCPLCGGEM 655
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
127-215 |
6.56e-28 |
|
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA topoisomeraes I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase beta subunit
Pssm-ID: 214662 [Multi-domain] Cd Length: 89 Bit Score: 107.67 E-value: 6.56e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 127 KRLWISSVTNKAIKEGFNKLQDgrKFNNLYHAALARSEADWIVGINATRALTTKYDAQ-LSLGRVQTPTIQLVQMRQNEI 205
Cdd:smart00436 2 KRIEFSEITKKAIREALKNPRE--IDENLVNAQLARRILDRLIGFNLSRLLTKKLRNGvLSAGRVQTPTLGLIVEREREI 79
|
90
....*....|
gi 499621861 206 NHFKPQTYYT 215
Cdd:smart00436 80 KNFVPKPYWE 89
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
94-431 |
2.88e-13 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 73.44 E-value: 2.88e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 94 NKVKDIIIATDAGREGELVARLILDKAHN-----KKPTKRLWISSVTNKAIKEGFNKLQDGRKFNNLYHAALARSEADWI 168
Cdd:PTZ00407 123 DNVTEIILATDPDREGELIAVHALQTIKRlypklKVPFSRAYMHSITEDGIRKAMRERHVEACDYDLANAAETRHAMDRI 202
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 169 VGINATRALTTKYDAQLSLGRVQTPTIQLVQMRQNEINHFKPQTYYTMKLNAaglTFHCTKPQS---------HPDK--- 236
Cdd:PTZ00407 203 FGFLGSSVVRAANSQMRSIGRVQTPALILINEREDKIKAFLESNKSTFEVQA---MCQFPSPHGttfsqvvtiTPDRkgg 279
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 237 --------TVLESIKK-AIDGQSGHiaSISKTHK----KAYPQQLYNLTDLQQDAYKRFHLGPKETLNTLQTLYERHKlV 303
Cdd:PTZ00407 280 ashwateaEARRCLEQwKLNNCTGF--SVPLEPKpqpsVVPPPQPFTMATAIAKANRQLKYSSEMVSGCLQDLFQLGH-I 356
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 304 TYPRTDSNYLTD----DMVDTLKDRLKAIMATSLKDMAKAQMSQTFSSKQRFVNNNK-----------VSD-HHAIIPTE 367
Cdd:PTZ00407 357 TYPRTDSTRIDEsalpDIYAAVKKEFGKEFLYRLEDRTVSAQEGKGSKKTGKKRSTKqkkgadtpvgnVEDaHEAIRPTN 436
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 499621861 368 VRPDINQL--SQRESKIYMMIAQRYLENLMPPHEYEAIAIELKVgqhTFTFKDKVTTKLGFKAIYE 431
Cdd:PTZ00407 437 IDTTGESLslSPPTRAVYDLVRRNTLAVFMIPMKTEKIVATVKF---TSGSGEKLEFELQGKRVVE 499
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
3-134 |
5.35e-07 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 48.12 E-value: 5.35e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 3 SLIIAEKPSVGRDIANtlninekrngYFENNKYIVTWALGHLVTnatpeqydasykewklndlpiIPNKMKTIVISKTRK 82
Cdd:pfam01751 1 ELIIVEGPSDAIALEK----------ALGGGFQAVVAVLGHLLS---------------------LEKGPKKKALKALKE 49
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 499621861 83 QFStvqslinnnKVKDIIIATDAGREGELVARLILDKAH-NKKPTKRLWISSV 134
Cdd:pfam01751 50 LAL---------KAKEVILATDPDREGEAIALKLLELKElLENAGGRVEFSEL 93
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
2-144 |
1.61e-05 |
|
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: 44.86 E-value: 1.61e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 499621861 2 KSLIIAEKPSVGRDIANTLNinekrngyfenNKYIVTWALGHLVTNATPEQY-DASYKEWKLNdLPIIPNKMKtiVISKT 80
Cdd:cd03363 1 KKLVIVESPAKAKTIKKYLG-----------KEYEVLASVGHIRDLPKKGLGvDGEDDGFEPK-YVVIPGKKK--VVKEL 66
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 499621861 81 RKQFStvqslinnnKVKDIIIATDAGREGELVARLILDKAHNKKPTKRLWISSVTNKAIKEGFN 144
Cdd:cd03363 67 KKLAK---------KADEIYLATDPDREGEAIAWHLAEVLKLKKNVKRVVFNEITKEAIKEALK 121
|
|
| |
