|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
1-622 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 1040.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGASRRGDGCWLGNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADLPMVPDKWKMLVKPKTA 80
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 81 SQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRGPIQRLWLSALDDASIRKALAALKPGAETFSLYHSALGRS 160
Cdd:PRK07726 81 KQFNVVKKLLKQATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALARS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 161 RADWLIGMNMSRLFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLrHEHMTFTAQWRAPEDAC 240
Cdd:PRK07726 161 RADWLVGINMTRAYTLLGRKAGYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHL-TPGERFTAKWQPSEPYQ 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 241 DDQGRCLNPQLARDTADAmLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYETHKAITYP 320
Cdd:PRK07726 240 DEEGRLLDRPLAEQVVAR-IQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 321 RSDCGYLPLSQHSEAPKILAALGRADTAVNELMSHIDPRRRSRAWNDAKVSAHHGIIPTGAGKEVSQLTGKHRAVYTLIR 400
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISKVDPYLLLAPPVLDPSIRSRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDLIA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 401 ARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEalapaKGREAPAPQALPTLVQGHDYAVAKVNLKDL 480
Cdd:PRK07726 399 RRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGK-----KEEDEEKEQPLPVLAKGDELKVEKGEVKEG 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 481 WTQPPKPFTEGDLIKAMKNVAKLVEDPLLKQKLKDTTGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSLIDAVPR 560
Cdd:PRK07726 474 QTQPPKRFTEGTLLSAMENIARFVQDKELKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQLIDALPE 553
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2537749632 561 AIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQVARCNGMRMT-----ITGPASPAGRGAT 622
Cdd:PRK07726 554 ELTSPDMTAKWEQALDQISEGQLSYQDFMQPLKQWLKQLVEQAKQSSEKykfdnLTGPKCPDCGKPM 620
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
1-618 |
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: 662.69 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGASRRGDGCW-LGNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADLPMVPDKWKMLVKPKT 79
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLeIGVGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 80 ASQYKAVKRLL--GEAQELVIATDADREGEMIARELVEHCRYRG--PIQRLWLSALDDASIRKALAALKPGAETFSLYHS 155
Cdd:TIGR01056 81 KKQFNVIKRILkeNKVDEVVIATDPDREGELIAREILDYLKVTDkvTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 156 ALGRSRADWLIGMNMSRLFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMTFTAQWra 235
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLGREAGNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSATINKDEQEFTTEW-- 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 236 pEDACDDQGRCLNPQLA-RDTADamLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYETH 314
Cdd:TIGR01056 239 -QPYKDEEERELHEFLAeNVVTD--LTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETH 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 315 KAITYPRSDCGYLPLSQHSEAPKILAALGRADTAvNELMSHIDPRRRSRAWNDAKVSAHHGIIPTGAGKEVSQLTGKHRA 394
Cdd:TIGR01056 316 KLITYPRTDSRYLPEDEKEMLLEVLDALKVITPA-LLPIKKRDELTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEERN 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 395 VYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKrALpeaLAPAKGREAPAPQALPTLVQGHDYAVAK 474
Cdd:TIGR01056 395 VYKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWK-AL---LGKQEEDEETEDTTLPAFQKGDELDVET 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 475 VNLKDLWTQPPKPFTEGDLIKAMKNVAKLVEDPLLKQKLKDTTGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSL 554
Cdd:TIGR01056 471 LELLEKQTKPPARYTEGTLLSAMTNPAAFVQDKGLKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGKLL 550
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2537749632 555 IDAVPRAIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQVARCNGMRMTITGPASPAG 618
Cdd:TIGR01056 551 CLLLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPETIQKVAKEPV 614
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-591 |
7.20e-168 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 490.76 E-value: 7.20e-168
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGasrrgdgcwlgNGVTVTWCIGHLLETAPPD-AYDAKYKrwvladlpMVPdKWKmlVKPKT 79
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLG-----------KDYVVTASVGHLRDLPKPElDVDVEND--------FEP-KYE--VIPGK 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 80 ASQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRGPIQRLWLSALDDASIRKALAALKPgaETFSLYHSALGR 159
Cdd:COG0550 59 KKQVKELKKLAKKADEVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRD--IDMNLVDAQQAR 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 160 SRADWLIGMNMSRLFTLLgrqsgYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMTFTAQWRAPEDA 239
Cdd:COG0550 137 RILDRLVGYNLSPLLWKK-----VKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFKTGGGEFTAKLVKIDGK 211
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 240 cddqgRCLNPQLARDTADAmLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYEThKAITY 319
Cdd:COG0550 212 -----KILDEEEAEAILAA-LKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEV-GLITY 284
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 320 PRSDCGYLPLSQHSEAPKILAALGRADtavnelmsHIDPRRRSRAWNDAKVSAHHGIIPTGAGKEVSQLTGKHRAVYTLI 399
Cdd:COG0550 285 MRTDSVRLSEDAVAAAREYIEALYGKE--------YLPEKPRVYKTSKNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLI 356
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 400 RARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEAlapAKGREAPAPQALPTLVQGHDYAVAKVNLKD 479
Cdd:COG0550 357 WKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEG---KDDEEEEEEKRLPPLKEGEKLKLKKIEPEQ 433
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 480 LWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSLIDAVP 559
Cdd:COG0550 434 HFTKPPPRYTEASLVKAMEEL-----------------GIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLE 496
|
570 580 590
....*....|....*....|....*....|....*
gi 2537749632 560 RA---IADPGTTAIWEQALDMVQSGEMSLEEFVAK 591
Cdd:COG0550 497 EHfpdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEE 531
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
147-590 |
5.97e-147 |
|
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: 432.44 E-value: 5.97e-147
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 147 AETFSLYHSALGRSRADWLIGMNMSRLFTLLGRqsgYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEH 226
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLK---GNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDGG 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 227 MTFtaqwrapEDACDDQGRCLNPQLARDTADAMLNAaTARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDI 306
Cdd:pfam01131 78 GVF-------ANAKWKRGRIFDKEEAEAILEKLKKG-TAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSI 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 307 AQSLYETHKAITYPRSDCGYLPlsQHSEAPKILAALGRADTAVNELMSHIDPRRRSRA-WNDAKVSAHHGIIPTGAGKEV 385
Cdd:pfam01131 150 AQKLYEKHGLITYPRTDSTYLS--DDATLKAILEYLTKNYGKYLPYAPRLLKKTKGKLtVGNAKVTAHEAIRPTGDIPVL 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 386 SQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEalapakgREAPAPQALPTLV 465
Cdd:pfam01131 228 PELSDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPY-------EKKEDEEELPELK 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 466 QGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGYLVKNGKAL 545
Cdd:pfam01131 301 EGEELKVTQVEVEEKKTKPPPRYTEASLIKAMEKA-----------------GIGTPATRATIIETLLERGYVERKKKSL 363
|
410 420 430 440
....*....|....*....|....*....|....*....|....*..
gi 2537749632 546 SATPAAFSLIDAVPR--AIADPGTTAIWEQALDMVQSGEMSLEEFVA 590
Cdd:pfam01131 364 VPTELGKALVEALEKfpDLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
150-600 |
3.20e-101 |
|
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: 313.77 E-value: 3.20e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 150 FSLYHSALGRSRADWLIGMNMSRLFTLLGRQSGyqgVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVdlrhehmtf 229
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRKG---VLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIKE--------- 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 230 taqwrapedacddqgrclnpqlardtadamlnaatARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQS 309
Cdd:cd00186 69 -----------------------------------AVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQK 113
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 310 LYETHKaITYPRSDCGYLPLSQHSEAPKILaalgRADTAVNELMSHIDPRRRSRAWNDAKVSAHHGIIPTG---AGKEVS 386
Cdd:cd00186 114 LYEAGL-ITYPRTDSTRLSEEAILEAREYI----QAIYGKEYLYPAPLLGRRNPKRGKKEQGAHEAIRPTKvapTPELEA 188
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 387 QLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEalaPAKGREapapQALPTLVQ 466
Cdd:cd00186 189 NLSEDEFKLYELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPE---EKDDEE----EEPPPLKE 261
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 467 GHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNvaklvedpllkqklkdtTGIGTEATRAGIIQGLLDRGYLVKNGKALS 546
Cdd:cd00186 262 GDELKLEEVELEEKETQPPPRYTEASLIKLMEK-----------------RGIGRPSTYASIIETLLDRGYVEKEKKKLI 324
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|....*..
gi 2537749632 547 ATPAAFSLIDAVPR---AIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQV 600
Cdd:cd00186 325 PTELGFAVIELLEKhfpELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
272-554 |
5.78e-64 |
|
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: 212.11 E-value: 5.78e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 272 TERMREV-APLPFDLGTLQEICSKKLGLGAQETLDIAQSLYEtHKAITYPRSDCGYLPLSQHSEAPKILAALgRADTAVN 350
Cdd:smart00437 1 EEKEKKKnPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYE-KGLITYPRTDSTRLSEEAVLEARNYIQKL-YGKEYLD 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 351 ELMSHIDPRRRSraWNDAKVSAHHGIIPTG---AGKEVSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQAL 427
Cdd:smart00437 79 LAVVLLKPRKPR--KGKKAQGAHEAIRPTKpifTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKF 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 428 RAVGKVIIEPGWKRALPEALAPAKgreapapQALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNvaklvedp 507
Cdd:smart00437 157 KAKGKTLLFDGWLKVYPEEKKEEE-------IELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEK-------- 221
|
250 260 270 280
....*....|....*....|....*....|....*....|....*..
gi 2537749632 508 llkqklkdtTGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSL 554
Cdd:smart00437 222 ---------RGIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
1-622 |
0e+00 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 1040.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGASRRGDGCWLGNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADLPMVPDKWKMLVKPKTA 80
Cdd:PRK07726 1 MRLFIAEKPSVGRDIADVLKPHKKGDGYIEGNGYIVTWAIGHLLELAEPEAYDERYKRWRLEDLPIIPEKWKLVVKKKTA 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 81 SQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRGPIQRLWLSALDDASIRKALAALKPGAETFSLYHSALGRS 160
Cdd:PRK07726 81 KQFNVVKKLLKQATEIVIATDADREGELIAREILDYCGVRKPIKRLWISSLTDKAIKRAFANLKPGKETIPLYYSALARS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 161 RADWLIGMNMSRLFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLrHEHMTFTAQWRAPEDAC 240
Cdd:PRK07726 161 RADWLVGINMTRAYTLLGRKAGYNGVLSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHL-TPGERFTAKWQPSEPYQ 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 241 DDQGRCLNPQLARDTADAmLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYETHKAITYP 320
Cdd:PRK07726 240 DEEGRLLDRPLAEQVVAR-IQGQPAKVTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYETHKLITYP 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 321 RSDCGYLPLSQHSEAPKILAALGRADTAVNELMSHIDPRRRSRAWNDAKVSAHHGIIPTGAGKEVSQLTGKHRAVYTLIR 400
Cdd:PRK07726 319 RTDSRYLPEDMVATLPEVLNAISKVDPYLLLAPPVLDPSIRSRAWNDKKVTAHHAIIPTEQPPNLSKLSEDERKVYDLIA 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 401 ARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEalapaKGREAPAPQALPTLVQGHDYAVAKVNLKDL 480
Cdd:PRK07726 399 RRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGK-----KEEDEEKEQPLPVLAKGDELKVEKGEVKEG 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 481 WTQPPKPFTEGDLIKAMKNVAKLVEDPLLKQKLKDTTGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSLIDAVPR 560
Cdd:PRK07726 474 QTQPPKRFTEGTLLSAMENIARFVQDKELKKTLKETDGLGTEATRAGIIEKLFKRGYLEKKGKYIHATDKGKQLIDALPE 553
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2537749632 561 AIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQVARCNGMRMT-----ITGPASPAGRGAT 622
Cdd:PRK07726 554 ELTSPDMTAKWEQALDQISEGQLSYQDFMQPLKQWLKQLVEQAKQSSEKykfdnLTGPKCPDCGKPM 620
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
1-618 |
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: 662.69 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGASRRGDGCW-LGNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADLPMVPDKWKMLVKPKT 79
Cdd:TIGR01056 1 MTLVLCEKPSQARDLATVLAKKKKGNGYLeIGVGGFVTWAVGHLVELAEPEEYDEKYKNWRTYDLPLEPEDWQLVVSDKT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 80 ASQYKAVKRLL--GEAQELVIATDADREGEMIARELVEHCRYRG--PIQRLWLSALDDASIRKALAALKPGAETFSLYHS 155
Cdd:TIGR01056 81 KKQFNVIKRILkeNKVDEVVIATDPDREGELIAREILDYLKVTDkvTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 156 ALGRSRADWLIGMNMSRLFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMTFTAQWra 235
Cdd:TIGR01056 161 GVARARADWLVGINLTRAFTKLGREAGNDGVLSVGRVQTPTLAMVVKRENEIKNFVGKPFYEVSATINKDEQEFTTEW-- 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 236 pEDACDDQGRCLNPQLA-RDTADamLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYETH 314
Cdd:TIGR01056 239 -QPYKDEEERELHEFLAeNVVTD--LTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETH 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 315 KAITYPRSDCGYLPLSQHSEAPKILAALGRADTAvNELMSHIDPRRRSRAWNDAKVSAHHGIIPTGAGKEVSQLTGKHRA 394
Cdd:TIGR01056 316 KLITYPRTDSRYLPEDEKEMLLEVLDALKVITPA-LLPIKKRDELTNNRLWNDKKIEDHHAIIPTGNDFNLSDLSEEERN 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 395 VYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKrALpeaLAPAKGREAPAPQALPTLVQGHDYAVAK 474
Cdd:TIGR01056 395 VYKLIAQNYLMQFMPKEEYETTTIEIAIGKLMFEAKGKILQDNGWK-AL---LGKQEEDEETEDTTLPAFQKGDELDVET 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 475 VNLKDLWTQPPKPFTEGDLIKAMKNVAKLVEDPLLKQKLKDTTGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSL 554
Cdd:TIGR01056 471 LELLEKQTKPPARYTEGTLLSAMTNPAAFVQDKGLKKTLKETKGLGTEATRADIIENLFKRGFIQKKKNKIYITKNGKLL 550
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2537749632 555 IDAVPRAIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQVARCNGMRMTITGPASPAG 618
Cdd:TIGR01056 551 CLLLPELLTKPDLTAQWEQYLNGISAGEKDDDDFINTINEMIKQTINEEKKNPETIQKVAKEPV 614
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-591 |
7.20e-168 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 490.76 E-value: 7.20e-168
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGasrrgdgcwlgNGVTVTWCIGHLLETAPPD-AYDAKYKrwvladlpMVPdKWKmlVKPKT 79
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLG-----------KDYVVTASVGHLRDLPKPElDVDVEND--------FEP-KYE--VIPGK 58
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 80 ASQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRGPIQRLWLSALDDASIRKALAALKPgaETFSLYHSALGR 159
Cdd:COG0550 59 KKQVKELKKLAKKADEVILATDPDREGEAIAWHLLELLGDKKPVKRVVFNEITKKAIKEAFKNPRD--IDMNLVDAQQAR 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 160 SRADWLIGMNMSRLFTLLgrqsgYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMTFTAQWRAPEDA 239
Cdd:COG0550 137 RILDRLVGYNLSPLLWKK-----VKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATFKTGGGEFTAKLVKIDGK 211
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 240 cddqgRCLNPQLARDTADAmLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYEThKAITY 319
Cdd:COG0550 212 -----KILDEEEAEAILAA-LKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYEV-GLITY 284
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 320 PRSDCGYLPLSQHSEAPKILAALGRADtavnelmsHIDPRRRSRAWNDAKVSAHHGIIPTGAGKEVSQLTGKHRAVYTLI 399
Cdd:COG0550 285 MRTDSVRLSEDAVAAAREYIEALYGKE--------YLPEKPRVYKTSKNAQEAHEAIRPTGVTRTPESLSGDEFKLYDLI 356
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 400 RARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEAlapAKGREAPAPQALPTLVQGHDYAVAKVNLKD 479
Cdd:COG0550 357 WKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEG---KDDEEEEEEKRLPPLKEGEKLKLKKIEPEQ 433
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 480 LWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSLIDAVP 559
Cdd:COG0550 434 HFTKPPPRYTEASLVKAMEEL-----------------GIGRPSTYASIIETLQDRGYVEREGKRLVPTELGFIVIDLLE 496
|
570 580 590
....*....|....*....|....*....|....*
gi 2537749632 560 RA---IADPGTTAIWEQALDMVQSGEMSLEEFVAK 591
Cdd:COG0550 497 EHfpdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEE 531
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
147-590 |
5.97e-147 |
|
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: 432.44 E-value: 5.97e-147
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 147 AETFSLYHSALGRSRADWLIGMNMSRLFTLLGRqsgYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEH 226
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLK---GNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEATLKDGG 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 227 MTFtaqwrapEDACDDQGRCLNPQLARDTADAMLNAaTARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDI 306
Cdd:pfam01131 78 GVF-------ANAKWKRGRIFDKEEAEAILEKLKKG-TAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSI 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 307 AQSLYETHKAITYPRSDCGYLPlsQHSEAPKILAALGRADTAVNELMSHIDPRRRSRA-WNDAKVSAHHGIIPTGAGKEV 385
Cdd:pfam01131 150 AQKLYEKHGLITYPRTDSTYLS--DDATLKAILEYLTKNYGKYLPYAPRLLKKTKGKLtVGNAKVTAHEAIRPTGDIPVL 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 386 SQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEalapakgREAPAPQALPTLV 465
Cdd:pfam01131 228 PELSDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPY-------EKKEDEEELPELK 300
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 466 QGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGYLVKNGKAL 545
Cdd:pfam01131 301 EGEELKVTQVEVEEKKTKPPPRYTEASLIKAMEKA-----------------GIGTPATRATIIETLLERGYVERKKKSL 363
|
410 420 430 440
....*....|....*....|....*....|....*....|....*..
gi 2537749632 546 SATPAAFSLIDAVPR--AIADPGTTAIWEQALDMVQSGEMSLEEFVA 590
Cdd:pfam01131 364 VPTELGKALVEALEKfpDLVDPELTAELEEKLDEIAEGKLDWKDVLA 410
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
3-612 |
2.43e-117 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 370.54 E-value: 2.43e-117
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 3 LYLCEKPSQAKDIAAVLGASRRGDGCWLGNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADLPMVPDKWKMLVKPKTASQ 82
Cdd:PRK08173 5 LIIAEKPSVANDIARALGGFTKHDEYFESDEYVLSSAVGHLLEIAAPEEYEVKRGKWSFAHLPVIPPHFDLNPIAKTESR 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 83 YKAVKRLL--GEAQELVIATDADREGEMIARELVEHCRYRGPIQRLWLSALDDASIRKALAALKPGAETFSLYHSALGRS 160
Cdd:PRK08173 85 LKVLTKLIkrKDVTRLINACDAGREGELIFRLIAQHAKAKKPVKRLWLQSMTPQAIRDGFANLRSDEDMQPLADAARCRS 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 161 RADWLIGMNMSRLFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIdvdlrheHMTFTAQwrapedAC 240
Cdd:PRK08173 165 EADWLVGINGTRAMTAFNSKGGGFFLTTVGRVQTPTLSIVVEREEKIRRFVPRDYWEV-------RAEFVAA------AG 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 241 DDQGRCLNPQLARDTADAMLNA--------ATARLVKLR------TERM---REVAPLPFDLGTLQEICSKKLGLGAQET 303
Cdd:PRK08173 232 FYEGRWFDPKFKKDEFDPEKRAsrlwseaaAEAIVAACRgkpgtvTEESkpsTQLSPLLFDLTSLQREANGRFGFSAKNT 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 304 LDIAQSLYETHKAITYPRSDCGYLPLSQHSEAPKILAALGR-------ADTAVNElmSHIDPRRrsRAWNDAKVSAHHGI 376
Cdd:PRK08173 312 LGLAQALYEKHKVLTYPRTDSRALPEDYLGTVKQTLEMLKEsnnylphAKQILDK--GWVKPNK--RIFDNSKISDHFAI 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 377 IPTG-AGKEVSQLTGKhraVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALpealapakGREA 455
Cdd:PRK08173 388 IPTLqAPKSLSEPEQK---LYDLVVKRFLAVFFPAAEFLVTTRITEVAGHHFKTEGKVLVNPGWLAVY--------GKEA 456
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 456 -PAPQALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVAKLVEDPLLKQKLKdTTGIGTEATRAGIIQGLLD 534
Cdd:PRK08173 457 qGADANLVPVQKGEKVKTDKIEAVALTTKPPARYNEATLLSAMEGAGKLVEDDELREAMA-EKGLGTPATRAAIIEGLLG 535
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 535 RGYLVKNGKALSATPAAFSLID-----AVPrAIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQVARCNGM-RM 608
Cdd:PRK08173 536 EKYLVREGRELIPTAKAFQLMTllrglGVE-ELTSPELTGEWEYKLSQIERGKLSRDAFMQEIAQMTQQIVKRAKEYdSD 614
|
....
gi 2537749632 609 TITG 612
Cdd:PRK08173 615 TIPG 618
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
150-600 |
3.20e-101 |
|
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: 313.77 E-value: 3.20e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 150 FSLYHSALGRSRADWLIGMNMSRLFTLLGRQSGyqgVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVdlrhehmtf 229
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRKG---VLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIKE--------- 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 230 taqwrapedacddqgrclnpqlardtadamlnaatARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQS 309
Cdd:cd00186 69 -----------------------------------AVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQK 113
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 310 LYETHKaITYPRSDCGYLPLSQHSEAPKILaalgRADTAVNELMSHIDPRRRSRAWNDAKVSAHHGIIPTG---AGKEVS 386
Cdd:cd00186 114 LYEAGL-ITYPRTDSTRLSEEAILEAREYI----QAIYGKEYLYPAPLLGRRNPKRGKKEQGAHEAIRPTKvapTPELEA 188
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 387 QLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEalaPAKGREapapQALPTLVQ 466
Cdd:cd00186 189 NLSEDEFKLYELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPE---EKDDEE----EEPPPLKE 261
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 467 GHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNvaklvedpllkqklkdtTGIGTEATRAGIIQGLLDRGYLVKNGKALS 546
Cdd:cd00186 262 GDELKLEEVELEEKETQPPPRYTEASLIKLMEK-----------------RGIGRPSTYASIIETLLDRGYVEKEKKKLI 324
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|....*..
gi 2537749632 547 ATPAAFSLIDAVPR---AIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQV 600
Cdd:cd00186 325 PTELGFAVIELLEKhfpELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
3-612 |
2.10e-97 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 320.36 E-value: 2.10e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 3 LYLCEKPSQAKDIAAVL----GASRRGDGCWLGNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADLPMVPDKWKMLVKPK 78
Cdd:PRK14724 4 LVIAEKPSVAQDIVRALtpvaGKFEKHDEHFESDSYVVTSAVGHLVEIQAPEEFDVKRGKWSFANLPVIPPYFDLKPVDK 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 79 TASQYKAVKRLL--GEAQELVIATDADREGEMIAReLVEhcRYRG--------PIQRLWLSALDDASIRKALAALKPGAE 148
Cdd:PRK14724 84 TKTRLNAVVKLAkrKDVTELVNACDAGREGELIFR-LIE--QYAGgakgglgkPVKRLWLQSMTPQAIRDGFDNLRSDAQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 149 TFSLYHSALGRSRADWLIGMNMSRLFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMT 228
Cdd:PRK14724 161 MQGLASAARSRSEADWLVGINGTRAMTAFNSRDGGFFLTTVGRVQTPTLSLVVEREEKIRKFVSRDYWEIHAGFHAEAGE 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 229 FTAQW------RAPEDACDDQGRCLNPQLARDTADAMLNAATArlVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQE 302
Cdd:PRK14724 241 YLGKWfdpqwkKASDDPEARADRVWSEREARAIADAVRGKAAT--VTEESKPTTQASPLLFDLTSLQREANGKFGFSAKT 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 303 TLDIAQSLYETHKAITYPRSDC-----GYLPLSQHSEapKILAALGR------ADTAVNElmSHIDPRRrsRAWNDAKVS 371
Cdd:PRK14724 319 TLALAQSLYERHKALTYPRTDSralpeDYLPVAKQTF--EMLATSGMrhlapfAQQALDG--NYVRPSK--RIFDNSKVS 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 372 AHHGIIPTGAGKevSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGW-----KRALPEA 446
Cdd:PRK14724 393 DHFAIIPTTQAP--SGLSEAEQKLYDLVVRRFMAVFFPSAEYQVTTRISQVVGHSFKTEGKVLVKPGWlaiygKEAANEV 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 447 lapAKGREAPAPQALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVAKLVEDPLLKQKLKDtTGIGTEATRA 526
Cdd:PRK14724 471 ---EDAKDGDKGQPLVPVKPGEMVRTEFAEAKGLKTKPPARYSEATLLGAMESAGKQIDDDELREAMQE-KGLGTPATRA 546
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 527 GIIQGLLDRGYLVKNGKALSATPAAFSLIDAVP----RAIADPGTTAIWEQALDMVQSGEMSLEEFVAKQAAWMSKQVAR 602
Cdd:PRK14724 547 AIIEGLLTEKYMLREGRELIPTAKAFQLMTLLRglgvEELSRAELTGEWEYKLAQMEKGQLSREAFMQQIAAMTEKLVKK 626
|
650
....*....|.
gi 2537749632 603 CNGM-RMTITG 612
Cdd:PRK14724 627 AKEYdRDTIPG 637
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
1-600 |
1.51e-92 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 303.85 E-value: 1.51e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGA----SRRGDGC----WLGNGVTvTWCI---GHLLETAPPDaydaKYKRWVLADLPMVPD 69
Cdd:PRK07219 1 TELIIAEKNNAARRIADILSGgkakKKRVNGVpyyeFERKGEK-WIVIglsGHIVTVDFPE----EYGDWRDVDPAELID 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 70 KwkMLVK-PKTASQYKAVKRLLGEAQELVIATDADREGEMI---ARELVEHCRyRGPIQRLWLSALDDASIRKALAalKP 145
Cdd:PRK07219 76 A--DPVKkITKQNYINALKKLAKDADEIIIATDYDREGELIgkeAYHILREVC-QVPVKRARFSSLTKKEIRKAFE--NP 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 146 GAETFSLYHSALGRSRADWLIGMNMSRLFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHE 225
Cdd:PRK07219 151 DEIDFNLADAGEARQIIDLYWGAALTRFLSLSVRQLGRWDFLSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEALLDKE 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 226 HMTFtaqwRAPEDACDDQGRCLNPQLARDTADAMLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLD 305
Cdd:PRK07219 231 AQYF----YRDLIGGHEAEKFWDEEEAEEIYEKLKGAKEATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRAME 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 306 IAQSLYEthKA-ITYPRSDCGYLPlsqHSEAPK-ILAALGRADTAVNELMSHIDPRRRSRAWNDAKVSAHHGIIPTGAGK 383
Cdd:PRK07219 307 IAEKLYT--AGyISYPRTDNTVYP---DDLDPKeLLKKLSKKKEYGPYAESILEQENIKPTEGKKETTDHPPIHPVDVPK 381
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 384 EvSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPealapakgREAPAPQALPT 463
Cdd:PRK07219 382 R-EELSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYP--------YEKFDEKELPD 452
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 464 LVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMknvaklvedpllkqklkDTTGIGTEATRAGIIQGLLDRGYLVKnGK 543
Cdd:PRK07219 453 LEEGEKLKVNKIEIEAKETQPPKRYTQSSLIKEM-----------------EKRGLGTKATRHDIIEKLYKRGYVIE-GD 514
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2537749632 544 ALSATPAAFSLIDA----VPRaIADPGTTAIWEQALDMVQSGEMSLEEfVAKQAAWMSKQV 600
Cdd:PRK07219 515 PPRPTDLGIAVIEAlekyAPE-IVSEEMTAQLEADMQAIEDGKKKKED-VTEESREMLKEI 573
|
|
| topA_arch |
TIGR01057 |
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ... |
5-589 |
3.49e-69 |
|
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: 236.65 E-value: 3.49e-69
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 5 LCEKPSQAKDIAAVLGASRR------GDGCWL----GNGVTVTWCIGHLLETAPPDayDAKYKrwvLADLPMVP----DK 70
Cdd:TIGR01057 1 IAEKPKVAAKIAGALSDGRVlkkseyGVPYWEvrrdGKKIIVASAVGHLFGLHPKS--RGGYP---VFDIEWVPifefDK 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 71 WKMLVKpktaSQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRGPIQRLWLSALDDASIRKALAalKPGAETF 150
Cdd:TIGR01057 76 GKGYVS----KYIKALSKLAKGADEYINACDYDIEGEVIGFKALKYFCGVERAKRMKFSTLTKQDIRRAYA--NPEEIDY 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 151 SLYHSALGRSRADWLIGMNMSR-LFTLLGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMTF 229
Cdd:TIGR01057 150 GMVDAGMARHILDWYWGINLSRaLMEAIRAAAGRWVILSAGRVQGPTLAFLVEREREINLFVPKPYWVIKATLEKGGGVF 229
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 230 TAQWRapedacddQGRCLNPQLARDTADAMLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQS 309
Cdd:TIGR01057 230 DARPE--------KWKIWSEEEAKSIKEELKKSPWAAVEEVRSERSILKPPPPFDLGTLQREAYRIFGFSPKKTQSIAQE 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 310 LYEtHKAITYPRSDCGYLPLSQHSEAP-KILAALGRADTAVnELMSHIDPRRRSRAWNDAkvSAHHGIIPTGAgKEVSQL 388
Cdd:TIGR01057 302 LYE-EALISYPRTSSQKLPPSINYRAIlDNLAKGPLYREAA-ERLLETGVLKPVEGKKED--PAHPAIHPTGE-IPSQEL 376
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 389 TGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEAlapakgreAPAPQALPTLVQGH 468
Cdd:TIGR01057 377 SKDEKKVYDLIVRRFLAAFSEEAIREKSKVLLRIGQEKFRLSGLRVVKLGWLEYYHYS--------KFEEKELPPLDRGD 448
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 469 DYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGYLVKNGKaLSAT 548
Cdd:TIGR01057 449 KIKVVRVDVRVKETQPPARYDKASLIREMESR-----------------GLGTKATRARIIETLYKRGYIEGKKS-IKVT 510
|
570 580 590 600
....*....|....*....|....*....|....*....|....
gi 2537749632 549 PAAFSLIDAVPR---AIADPGTTAIWEQALDMVQSGEMSLEEFV 589
Cdd:TIGR01057 511 PLGEAVIETLQRycpEIISEELTRRFESKLEDIMSGRITKDEVI 554
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
272-554 |
5.78e-64 |
|
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: 212.11 E-value: 5.78e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 272 TERMREV-APLPFDLGTLQEICSKKLGLGAQETLDIAQSLYEtHKAITYPRSDCGYLPLSQHSEAPKILAALgRADTAVN 350
Cdd:smart00437 1 EEKEKKKnPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYE-KGLITYPRTDSTRLSEEAVLEARNYIQKL-YGKEYLD 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 351 ELMSHIDPRRRSraWNDAKVSAHHGIIPTG---AGKEVSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQAL 427
Cdd:smart00437 79 LAVVLLKPRKPR--KGKKAQGAHEAIRPTKpifTPELEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKF 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 428 RAVGKVIIEPGWKRALPEALAPAKgreapapQALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNvaklvedp 507
Cdd:smart00437 157 KAKGKTLLFDGWLKVYPEEKKEEE-------IELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEK-------- 221
|
250 260 270 280
....*....|....*....|....*....|....*....|....*..
gi 2537749632 508 llkqklkdtTGIGTEATRAGIIQGLLDRGYLVKNGKALSATPAAFSL 554
Cdd:smart00437 222 ---------RGIGRPSTYASIIETLLDRGYVTKKKKKLIPTELGIAV 259
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
1-600 |
6.21e-63 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 221.94 E-value: 6.21e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGAS----RRGDGC------WLGNGVTVTWCIGHLLETAPPDAYD----AKYKRWVLADLPM 66
Cdd:PRK07220 1 MHLIITEKNIAARRIAQILAPKkpkkTRVSGVdvyryeDNGDDTVVVGLSGHIVNIDFPKEYNnwqkVDARDLIDAEIIT 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 67 VPDKWKMLVkpktasqykAVKRLLGEAQELVIATDADREGEMIARE---LVEHCRYRGPIQRLWLSALDDASIRKALAal 143
Cdd:PRK07220 81 TPTQKKIVT---------ALKKLGKEADRVTIATDYDREGELIGVEalnIIKKVNPDIKFDRVRYSAITKKEIERAFS-- 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 144 KPGAETFSLYHSALGRSRADWLIGMNMSRLFTLLGRQSGYQgVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLR 223
Cdd:PRK07220 150 NPVEVDFNLADAGHSRQVIDLVWGAALTRYISLAAGRLGKM-FLSVGRVQSPTLALIVDREKEREAFVPTPYWEIYATLE 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 224 HEHMTFTAQwrapedacDDQGRCLNpqlaRDTADAMLN--AATARLVKLRTERMREVAPLPFDlgTLQEI-CSKKLGLGA 300
Cdd:PRK07220 229 NNGETFVAQ--------HSTRRFWE----KEEADRVFEklGKTAEVTEVEKGTKTDKPPTPFN--TTEFIsAANSIGFSA 294
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 301 QETLDIAQSLYeTHKAITYPRSDCGYLPLSQH-SEAPKILAALGRADTAvNELM--SHIDPRRRSRAWNDakvsaHHGII 377
Cdd:PRK07220 295 ANAMRIAESLY-TNGYISYPRTDNTVYPESLDlREQIEIFAEGPFGEYA-QKLLekGELVPTRGKKETTD-----HPPIY 367
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 378 PTGAGKEvSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEAlapakgreAPA 457
Cdd:PRK07220 368 PASLAKK-SELKEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYN--------APE 438
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 458 PQALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGY 537
Cdd:PRK07220 439 DRLLPELSEGEELKVKKKEMLDKETQPPGRYGQGRLIKLMEDL-----------------GLGTKATRHEIISKLYSRAY 501
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2537749632 538 LvkNGKALSATPAAFSLIDAVPR---AIADPGTTAIWEQALDMVQSGEMSlEEFVAKQAAWMSKQV 600
Cdd:PRK07220 502 I--HGNPIQPTNTAFAVVDALEKyapTITKPDMTSRLEEDMDKIAEGKIK-EDAVLEESREMLEQV 564
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
83-589 |
1.20e-59 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 211.77 E-value: 1.20e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 83 YKAVKRLLGEAQELVIATDADREGEMIARELVEhcrYRGPIQ---RLWLSALDDASIRKALAALKPgaETFSLYHSALGR 159
Cdd:PRK05776 87 YELLSSLSKYADEFINACDYDIEGSVIGYLIIK---YLGDPKkakRMKFSALTKSDIRRAFRNLET--LDYEMINAGIAR 161
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 160 SRADWLIGMNMSRLFTL-LGRQSGYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMTFTAQW--RAP 236
Cdd:PRK05776 162 HELDWLWGINVSRALMSsVRDASGKRVILSAGRVQSPTLKYVVEREIERNLFVPLPYFSVSIIIEKNGYEFTLKYenKKF 241
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 237 EDACDdqgrclnpqlARDTADAMLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYEthKA 316
Cdd:PRK05776 242 ETKEE----------AKEILEEIKKTGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGFSPYKTQSIAEDLYL--DG 309
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 317 -ITYPRSDCGYLP--------------LSQHSEAPKILAALGRADTAVNElMSHIDPrrrsrawndakvsAHHGIIPTga 381
Cdd:PRK05776 310 lISYPRTNSQKLPptlnirnilkglsrSPQYRPLVNLLLKETKGVLKPVQ-GPKDDP-------------AHPAIYPT-- 373
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 382 GKEVSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALR--AVGKVIIEPGWKRALPEalapAKGREAPapq 459
Cdd:PRK05776 374 GEPPKNLSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPGFPLVfsASGQRIEERGWLKYYPF----HKFDEEE--- 446
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 460 aLPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGYLV 539
Cdd:PRK05776 447 -LPLLKKGERVKIVDVKVRKSYTKPPSRYSKASLLKWMESV-----------------GIGTEATRARIIETLFKRGYLT 508
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....
gi 2537749632 540 KNGKALSATPAAFSLIDA----VPRaIADPGTTAIWEQALDMVQSGEMSLEEFV 589
Cdd:PRK05776 509 SNGKYIEVTPLGFGVAEVlekyFPD-IVSVELTRDFEEKLEMIRTGKATREEVI 561
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
1-143 |
1.34e-54 |
|
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: 183.20 E-value: 1.34e-54
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGASRRGDG-------CWLGNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADlPMVPDKWKM 73
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGkgryyefYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLED-PLFPAPFKL 79
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2537749632 74 LVKPKTASQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCR--YRGPIQRLWLSALDDASIRKALAAL 143
Cdd:cd03362 80 KVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKcvKRKPVKRAWFSSLTPKAIRRAFKNL 151
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
1-588 |
1.09e-48 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 183.07 E-value: 1.09e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAvlgasrrgdgcWLGNGVTVTWCIGH---LletaPPDAYD--AKYKRWVLADLPMVPDK-WKML 74
Cdd:PRK07561 2 KSLVIVESPAKAKTINK-----------YLGSDYVVKASVGHirdL----PTSASSvpAKEKGALWARMGVDPDHdFEAL 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 75 --VKPKTASQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRG-PIQRLWLSALDDASIRKALAalKPGAETFS 151
Cdd:PRK07561 67 yeVLPGKEKVVSELKKAAKDADELYLATDPDREGEAIAWHLLEVLGGDDvPVKRVVFNEITKNAIQEAFE--NPRELDIN 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 152 LYHSALGRsRA-DWLIGMNMSrlfTLLGRQsgYQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEH-MTF 229
Cdd:PRK07561 145 LVNAQQAR-RFlDRLVGYMVS---PLLWKK--IARGLSAGRVQSVAVRLIVEREREIEAFVPEEYWDIHADLTTPRgDAF 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 230 TAQWRAPEDACDDQGRCLNPQLARDTADAmLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQS 309
Cdd:PRK07561 219 EARLTHLDGKKFAPVDLLNEAQAEAAVAA-LEGARYSVASVEDKPTTRKPSAPFTTSTLQQEASRKLGFSVKKTMRIAQR 297
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 310 LYET-HkaITYPRSDCGYLplsqhseapkilaalgrADTAVNELMSHI-----------DPRRRSRAWNDAKvSAHHGII 377
Cdd:PRK07561 298 LYEAgY--ITYMRTDSTNL-----------------SQEAINAARGYIgdnygkkylpeKPRQYSSKAKNAQ-EAHEAIR 357
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 378 PTGAGK---EVSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDcAGQA-LRAVGKVIIEPGWKRALPEAlapAKGR 453
Cdd:PRK07561 358 PSDVFRtpdQLKGLEGDAQRLYELIWKRFVASQMAPARYDSTTVTIA-AGDAeLRATGRVLRFDGFLKVYVEG---RDDA 433
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 454 EAPAPQALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMknvaklvedpllkQKLkdttGIGTEATRAGIIQGLL 533
Cdd:PRK07561 434 LDDEDRRLPALKVGDALTLEKLDPTQHFTKPPARYSEASLVKEL-------------EKL----GIGRPSTYASIISTIQ 496
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2537749632 534 DRGYLVKNGKALSATPAAFSLIDAV----PRaIADPGTTAIWEQALDMVQSGEMS----LEEF 588
Cdd:PRK07561 497 DRGYVRLENRRFYPEKMGRIVTDRLeeffPR-LVDYDFTARMEEELDDIANGEADwkpvLDDF 558
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
76-590 |
2.27e-48 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 182.74 E-value: 2.27e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 76 KPKTASQYKAVKRLLGEAQELVIATDADREGEMI---ARELVEHCRYRGPIQRLWLSALDDASIRKALAAlkPGAETFSL 152
Cdd:PRK14973 80 KPTEKKIVGLIQKLAKKADRVTIATDFDTEGELIgkeAYELVRAVNPKVPIDRARFSAITKEEIVTAFAE--PTDLDFAL 157
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 153 YHSALGRSRADWLIGMNMSRLFTLLGRQSGyQGVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDL---------R 223
Cdd:PRK14973 158 AAAGEARQIIDLIWGASLTRFISLAAHRGG-DNILSVGRVQSPTLAMIVDREKEIEAFVPEKYWMLSLATekdgegieaR 236
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 224 HEHMTFTAQWRApedacddqgrclnpQLARDTADAMLnaataRLVKLRTERMREVAPLPFDLGTLQeICSKKLGLGAQET 303
Cdd:PRK14973 237 HTHGRFTDSAAA--------------EAAYDATKEPL-----VVTEVKEGHKVDRAPTPFDTTTFI-VAASRLGFSAANA 296
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 304 LDIAQSLYeTHKAITYPRSDCGYLPLSQHSEApkILAAL--GRADTAVNELMSHidprRRSRAWNDAKVSAHH-GIIPTG 380
Cdd:PRK14973 297 MRIAEDLY-MNGYISYPRTDNTIYPKSLDLNG--VLATLakGAFSKDVAWVKDN----RRPVPTRGKKSSTDHpPIHPTG 369
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 381 AGKEvSQLTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQALRAVGKVIIEPGWKRALPEalapAKGREAPapqa 460
Cdd:PRK14973 370 VATR-EELGDDRWKLYELVVRRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVYPY----SEAKENI---- 440
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 461 LPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLDRGYLvk 540
Cdd:PRK14973 441 LPAFALGEKLPILAVNLEEKETQPPARYSQSRLIQRMEEL-----------------GLGTKSTRHEVIGKLVSRKYI-- 501
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|...
gi 2537749632 541 NGKALSATPAAFSLIDAVPR---AIADPGTTAIWEQALDMVQSGEMSLEEFVA 590
Cdd:PRK14973 502 EGNPLRPTLVGRAVTESLEEhagTITEPDMTQTLEEHMQQIKERKRTRDDVVT 554
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
1-143 |
3.28e-47 |
|
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: 162.78 E-value: 3.28e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGASRRGDGCWL-GNGVTVTWCIGHLLETAPPDAYDAKYKRWVLADLPmvpDKWKMLVKPKT 79
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKKKGFYGeGGGYVVTASVGHLLELPFPEEYVDWDKDWPLELFP---FEPKYVVIPDK 77
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2537749632 80 ASQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCR-YRGPIQRLWLSALDDASIRKALAAL 143
Cdd:cd01028 78 KKQLKALKKLAKKADEIVLATDPDREGELIAWEILEVLKcDNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
3-588 |
5.72e-47 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 177.26 E-value: 5.72e-47
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 3 LYLCEKPSQAKDIAAvlgasrrgdgcWLGNGVTVTWCIGHLLETAPPD-AYDakykrwvladlpmvPD---KWKMLVKPK 78
Cdd:PRK08780 5 LVIVESPAKAKTINK-----------YLGKDFTVLASYGHVRDLVPKEgAVD--------------PEngfAMRYDLIDK 59
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 79 TASQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRG-----PIQRLWLSALDDASIRKALAalKPGAETFSLY 153
Cdd:PRK08780 60 NEKHVEAIAKAAKSADDLYLATDPDREGEAISWHLAEILKERGllkdkPMQRVVFTEITPRAIKEAMA--KPRDIASDLV 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 154 HSALGRSRADWLIGMNMSrlfTLLGR--QSGyqgvLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHEHMTFTA 231
Cdd:PRK08780 138 DAQQARRALDYLVGFNLS---PLLWRkiQRG----LSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADCAHPSQPFNA 210
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 232 QWRAPEDACDDQGRCLNPQLARDTADAMLNAATARLVKL---RTERMREVAPlPFDLGTLQEICSKKLGLGAQETLDIAQ 308
Cdd:PRK08780 211 KLIKLDGQKFEQFTITDGDTAEAARLRIQQAAQGTLHVTdveSKERKRNPAP-PFTTSTLQQEASRKLGFTTRRTMQVAQ 289
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 309 SLYE--------THKAITYPRSDCgyLPLSQHSEApKILAALGRaDTAVNELMSHidPRR-RSRAWNDAKvsAHHGIIPT 379
Cdd:PRK08780 290 KLYEgvdlgdegSVGLITYMRTDS--VNLSQDALA-EIRDVIAR-DYGTASLPDQ--PNTyKTKSKNAQE--AHEAVRPT 361
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 380 GAGKEVSQ----LTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDC-AGQALRAVGKVIIEPGWKRALPEALAPAKGRE 454
Cdd:PRK08780 362 SALRTPAQvarfLSDDQRRLYELIWKRAVACQMIPATLNTVSVDLAAgSEHVFRATGSTVVVPGFLAVYEEGKDDKSAED 441
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 455 APAPQALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQGLLD 534
Cdd:PRK08780 442 EDEGRKLPPMKEGDNVPLERIRAEQHFTEPPPRYTEASLVKALEEY-----------------GIGRPSTYASIISTLQF 504
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2537749632 535 RGYLVKNGKALSATPAAfsliDAVPRAIADPGT-------TAIWEQALDMVQSGEMS----LEEF 588
Cdd:PRK08780 505 RKYVEMEGRRFRPTDVG----RAVNKFLTGHFTryvdydfTARLEDDLDAVSRGEKEwiplMEKF 565
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
84-588 |
1.25e-40 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 157.71 E-value: 1.25e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 84 KAVKRLLGEAQELVIATDADREGEMIA----RELVEHCRYRGPIQRLWLSALDDASIRKALAalKPGAETFSLYHSALGR 159
Cdd:PRK06599 65 DALKKAAKKADAVYLATDPDREGEAIAwhiaEVLKEAKLKDKNVKRVVFNEITKKAVQEAIE--NPRDIDMDLVDAQQAR 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 160 SRADWLIGMNMSRLFTLLGRQSgyqgvLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLRHE-HMTFTAQWRAPED 238
Cdd:PRK06599 143 RALDYLVGFKLSPLLWKKVRRG-----LSAGRVQSVALRLICEREDEIEAFIPQEYWTIEADLATSnGEPFTAKLVEVNG 217
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 239 ACDDQGRCLNPQLARDTADAMLNAAtARLVKL-RTERMREvAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYE----- 312
Cdd:PRK06599 218 KKLEKFSITNEEQAKALVKALEGQA-YTVDKIeKKERKRN-PPPPFITSTLQQEASRKLGFSAKKTMRIAQKLYEgidlg 295
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 313 --THKAITYPRSDCGYLplsqhseapkilaalgrADTAVNELMSHID--------PRRRSRAWNDAKVS--AHHGIIPTG 380
Cdd:PRK06599 296 egTVGLITYMRTDSVRL-----------------SNEALDEARKYITkkygkeylPAKPRVYKKKSKNAqeAHEAIRPTS 358
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 381 AGK---EVSQ-LTGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDCAGQA--LRAVGKVIIEPGWKRALPEalapakGRE 454
Cdd:PRK06599 359 INRtpeSLKPyLTPDQFKLYELIWKRTVASQMAPAILDQTSVDIASENGKyvFRATGSVILFPGFLKVYGE------SKD 432
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 455 APAPQA---LPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDLIKAMKNVaklvedpllkqklkdttGIGTEATRAGIIQG 531
Cdd:PRK06599 433 DEEEDDeklLPPLKEGEKLKLDELLPEQHFTEPPPRYSEASLVKKLEEY-----------------GIGRPSTYASIIST 495
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2537749632 532 LLDRGYLVKNGKALSATP-----AAFsLIDAVPRaIADPGTTAIWEQALDMVQSGEMS----LEEF 588
Cdd:PRK06599 496 LQDREYVELEKKRFIPTDlgrivNDF-LVEHFPK-YVDYDFTAGLEDELDEIAEGKKDwkpvLREF 559
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
30-588 |
2.07e-31 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 130.71 E-value: 2.07e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 30 LGNGVTVTWCIGHLLETaPPDAYDAKYKRWVLADLPMVPDKWKMLVKpktasqykaVKRLLGEAQELVIATDADREGEMI 109
Cdd:PRK06319 21 LGEGFIFASSLGHIVDL-PAKEFGIDIENDFEPDYQILPDKEEVINK---------ICKLAKKCDVVYLSPDPDREGEAI 90
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 110 ARELVEHCRYRGPIQRLWLSALDDASIRKALAalKPGAETFSLYHSALGRSRADWLIGMNMSrlfTLLGRQSGYQGVLPV 189
Cdd:PRK06319 91 AWHIANQLPKNTKIQRISFNAITKGAVTEALK--HPREIDMALVNAQQARRLLDRIVGYKIS---PILSRKLQRRSGVSA 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 190 GRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLR--HEHMTFTA--------QW--RAPEDACDDQGRCLNPQLARDTAD 257
Cdd:PRK06319 166 GRVQSVALKLVVDREKAIEAFVPVEYWNIRVHLKdpKTQKTFWAhlysvdgkKWekEIPEGKTEDEVLLINSKEKADHIV 245
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 258 AMLNAATARLVKLRTERMREVAPLPFDLGTLQEICSKKLGLGAQETLDIAQSLYE--------THKAITYPRSDcgylpl 329
Cdd:PRK06319 246 ELLESATYTVTRVESKEKRRNAYPPFITSTLQQEASRHFRFSSSRTMNIAQTLYEgvdldsegATGLITYMRTD------ 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 330 sqhseapkilaALGRADTAVNELMSHIDPR-------RRSRAWNDAKVS--AHHGIIPTGAG----KEVSQLTGKHRAVY 396
Cdd:PRK06319 320 -----------SVRTDPEALKQVRKYIEGTfgkeflpSSPNVYTTKKMAqdAHEAIRPTDITltpeKLRSKLTEDQYKLY 388
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 397 TLIRARYLAQFLPNHEYDRTQADFDC-AGQALRAVGKVIIEPGWkRALPEALAPAKGREAPAPQaLPTLVQGHDYAVAKV 475
Cdd:PRK06319 389 SLIWKRFVASQMIPAIYDTLAIRITTnKGIDLRATGSLLKFKGF-LAVYEEKRDDEGDEEENIH-LPKLHEQDVLTKEEL 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 476 NLKDLWTQPPKPFTEGDLIKAMknvaklvedpllkqklkDTTGIGTEATRAGIIQGLLDRGYLVKNGKALSATP-----A 550
Cdd:PRK06319 467 SAEQAFTKPLPRFTEASLVKEL-----------------EKSGIGRPSTYATIMNKIQSREYTLKENQRLRPTElgkiiS 529
|
570 580 590 600
....*....|....*....|....*....|....*....|..
gi 2537749632 551 AFsLIDAVPRaIADPGTTAIWEQALDMVQSGEMS----LEEF 588
Cdd:PRK06319 530 QF-LETNFPR-IMDIGFTALMEDELELIADNKKPwkllLQEF 569
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
123-216 |
1.63e-26 |
|
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: 103.43 E-value: 1.63e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 123 IQRLWLSALDDASIRKALAalKPGAETFSLYHSALGRSRADWLIGMNMSRLFTLLGRQsgyqGVLPVGRVQTPTLRLVVD 202
Cdd:smart00436 1 IKRIEFSEITKKAIREALK--NPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRN----GVLSAGRVQTPTLGLIVE 74
|
90
....*....|....
gi 2537749632 203 RDRSIADFVPVAYW 216
Cdd:smart00436 75 REREIKNFVPKPYW 88
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
95-578 |
3.18e-26 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 114.27 E-value: 3.18e-26
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 95 ELVIATDADREGEMIARELVEHCR-----YRGPIQRLWLSALDDASIRKALAALKPGAETFSLYHSALGRSRadwligmn 169
Cdd:PTZ00407 127 EIILATDPDREGELIAVHALQTIKrlypkLKVPFSRAYMHSITEDGIRKAMRERHVEACDYDLANAAETRHA-------- 198
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 170 MSRLFTLLG----RQSGYQgVLPVGRVQTPTLRLVVDRDRSIADFVPVAYWAIDVDLrhehmtfTAQWRAPEDACDDQGR 245
Cdd:PTZ00407 199 MDRIFGFLGssvvRAANSQ-MRSIGRVQTPALILINEREDKIKAFLESNKSTFEVQA-------MCQFPSPHGTTFSQVV 270
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 246 CLNPQLA------RDTADAM-------LNAATARLVKLRTERMREVA--PLPFDLGTLQEICSKKLGLGAQETLDIAQSL 310
Cdd:PTZ00407 271 TITPDRKggashwATEAEARrcleqwkLNNCTGFSVPLEPKPQPSVVppPQPFTMATAIAKANRQLKYSSEMVSGCLQDL 350
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 311 YEThKAITYPRSDCGYLplsQHSEAPKILAALGRADTavNELMSHIDPR---------------RRSRAWN---DAKVS- 371
Cdd:PTZ00407 351 FQL-GHITYPRTDSTRI---DESALPDIYAAVKKEFG--KEFLYRLEDRtvsaqegkgskktgkKRSTKQKkgaDTPVGn 424
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 372 ---AHHGIIPTGAGKEVSQL--TGKHRAVYTLIRARYLAQFLPNHEYDRTQADFDC---AGQALRAV--GKVIIEPGWKR 441
Cdd:PTZ00407 425 vedAHEAIRPTNIDTTGESLslSPPTRAVYDLVRRNTLAVFMIPMKTEKIVATVKFtsgSGEKLEFElqGKRVVEPGWTR 504
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 442 ALPE----ALAPAKGREAPAPQ------------------------ALPTLVQGHDYAVAKVNLKDLWTQPPKPFTEGDL 493
Cdd:PTZ00407 505 AFHKgdkgTTGPAEETDEDITAveegapvvpslsqeefkaimnlrsQLGSGVQKGFFELRSPQVRENRPVPPLPHSEGTL 584
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 494 IKAMKNvaklvedpllkqklkdtTGIGTEATRAGIIQGLLDRGYLVKNGKA-LSATPAAFSLID---AVPRAIADPGTTA 569
Cdd:PTZ00407 585 IEELKN-----------------NGVGRPSTYPMIVKTLLARGYIAVNPKGrCETTPVGRMLVEtakSTFPSIVDIGFTA 647
|
....*....
gi 2537749632 570 IWEQALDMV 578
Cdd:PTZ00407 648 AFEKKLDRI 656
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
2-131 |
2.57e-13 |
|
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: 65.84 E-value: 2.57e-13
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 2 RLYLCEKPSQAKDIAAVLGasrrgdgcwlGNGVTVTWCIGHLLEtappdaydakykrwvladlpmvpdkwkmLVKPKTAS 81
Cdd:pfam01751 1 ELIIVEGPSDAIALEKALG----------GGFQAVVAVLGHLLS----------------------------LEKGPKKK 42
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|.
gi 2537749632 82 QYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRY-RGPIQRLWLSAL 131
Cdd:pfam01751 43 ALKALKELALKAKEVILATDPDREGEAIALKLLELKELlENAGGRVEFSEL 93
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
1-128 |
4.42e-09 |
|
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173773 [Multi-domain] Cd Length: 83 Bit Score: 53.58 E-value: 4.42e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGasrrgdgcwlgNGVTVTWCIGHLLETappdaydakykrwvladlpmvpdkwkmlvkpkta 80
Cdd:cd00188 1 KKLIIVEGPSDALALAQAGG-----------YGGAVVALGGHALNK---------------------------------- 35
|
90 100 110 120
....*....|....*....|....*....|....*....|....*....
gi 2537749632 81 sQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCR-YRGPIQRLWL 128
Cdd:cd00188 36 -TRELLKRLLGEAKEVIIATDADREGEAIALRLLELLKsLGKKVRRLLL 83
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
1-141 |
8.34e-09 |
|
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173783 [Multi-domain] Cd Length: 123 Bit Score: 54.10 E-value: 8.34e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAvlgasrrgdgcWLGNGVTVTWCIGHLLETAPPDAY-DAKYKRWVlADLPMVPDKWKMLvkpkt 79
Cdd:cd03363 1 KKLVIVESPAKAKTIKK-----------YLGKEYEVLASVGHIRDLPKKGLGvDGEDDGFE-PKYVVIPGKKKVV----- 63
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2537749632 80 asqyKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRGPIQRLWLSALDDASIRKALA 141
Cdd:cd03363 64 ----KELKKLAKKADEIYLATDPDREGEAIAWHLAEVLKLKKNVKRVVFNEITKEAIKEALK 121
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
1-121 |
8.80e-09 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 52.65 E-value: 8.80e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2537749632 1 MRLYLCEKPSQAKDIAAVLGasrrgdgcwlgNGVTVTWCIGHLLetappdaydakykrwvladlpmvpdkwkmlvkpkTA 80
Cdd:smart00493 1 KVLIIVEGPADAIALEKAGG-----------KRGNVVALGGHLL----------------------------------SK 35
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90 100 110 120
....*....|....*....|....*....|....*....|.
gi 2537749632 81 SQYKAVKRLLGEAqELVIATDADREGEMIARELVEHCRYRG 121
Cdd:smart00493 36 EQIKLLKKLAKKA-EVILATDPDREGEAIAWELAELLKPAG 75
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| TOPRIM_RNase_M5_like |
cd01027 |
TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase ... |
79-125 |
1.69e-04 |
|
TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Pssm-ID: 173777 Cd Length: 81 Bit Score: 40.70 E-value: 1.69e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 2537749632 79 TASQYKAVKRLLGEAQELVIATDADREGEMIARELVEHCRYRGPIQR 125
Cdd:cd01027 31 SIINKETIELIKKAYRGVIILTDPDRKGEKIRKKLSEYLSGPVPEIK 77
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| TOPRIM_TopoIA_RevGyr |
cd03361 |
TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA ... |
84-140 |
7.27e-03 |
|
TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. 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. 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: 173781 [Multi-domain] Cd Length: 170 Bit Score: 37.68 E-value: 7.27e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*...
gi 2537749632 84 KAVKRLLGEAQELVIATDADREGEMIARELVEHCR-YRGPIQRLWLSALDDASIRKAL 140
Cdd:cd03361 110 EALRELALEVDEVLIATDPDTEGEKIAWDVYLALRpYNKNIKRAEFHEVTRRAILEAL 167
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