|
Name |
Accession |
Description |
Interval |
E-value |
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
97-1312 |
2.52e-87 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 299.08 E-value: 2.52e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIVASLNqqaEATEQRKEspsslshpsppssaaasvasgpwpllsrinaVRRVRLQELTPaa 176
Cdd:PRK06599 75 DAVYLATDPDREGEAIAWHIAEVLK---EAKLKDKN-------------------------------VKRVVFNEITK-- 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaeKATEAKNKEPtngdededeekeevketngekleREIregeedaggdedekarrsslpegetialegl 256
Cdd:PRK06599 119 -------------KAVQEAIENP-----------------------RDI------------------------------- 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 257 NQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQALSTVHAtarlrwaspesce 336
Cdd:PRK06599 132 DMDLVDAQQARRALDYLVGFKLSPLLWKKVRRGLSAGRVQSVALRLICEREDEIEAFIPQEYWTIEA------------- 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 337 naangraeetedgreradgreeegddggrsarDAATEPRREgkdgeadddgefpwITAKattskhgrcgpitvnlkLSLY 416
Cdd:PRK06599 199 --------------------------------DLATSNGEP--------------FTAK-----------------LVEV 215
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 417 KGKpfvaatrppsavaplsspplsspplsstscspsscsspsvstlggnaapvaeasqaTPPQMSEGDEETAGEArghsq 496
Cdd:PRK06599 216 NGK--------------------------------------------------------KLEKFSITNEEQAKAL----- 234
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 497 rgvrgqlldeAADPTEGAREGENGGKKERanengaaelqadrgkdanepapvdsadvesvlenlRRmhfdrvdlavsfss 576
Cdd:PRK06599 235 ----------VKALEGQAYTVDKIEKKER-----------------------------------KR-------------- 255
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 577 lKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGV---EGLGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLa 653
Cdd:PRK06599 256 -NPPPPFITSTLQQEASRKLGFSAKKTMRIAQKLYEGIdlgEGTVGLITYMRTDSVRLSNEALDEARKYITKKYGKEYL- 333
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 654 ndeassgegeAEKQRNVTRKrtreaSRFAQEAHEAIRPTSIELHPETLRQRLaaglssrlagdptknmaagsgereaheg 733
Cdd:PRK06599 334 ----------PAKPRVYKKK-----SKNAQEAHEAIRPTSINRTPESLKPYL---------------------------- 370
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 734 aqsedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPAlrqalKISLVasaahghSVaetsharDEDAETPRGQLRG 813
Cdd:PRK06599 371 --------TPDQFK----------LYELIWKRTVASQMAPA-----ILDQT-------SV-------DIASENGKYVFRA 413
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 814 TdrelsspdctgeniqtaqdedmkeeekgnglaargtvaaqGSegethleaetrRTIFDGFLSVYafgatarermqnaes 893
Cdd:PRK06599 414 T----------------------------------------GS-----------VILFPGFLKVY--------------- 427
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 894 eeaqeeeteaedaGHSETAEPASSPAELfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgshasactgsl 973
Cdd:PRK06599 428 -------------GESKDDEEEDDEKLL---------------------------------------------------- 442
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 974 rrtaspssplksapsspssaldssppaspasllpsspasfasssppcspltssfPPHPQGLAPRISDLR----Fyvahrc 1049
Cdd:PRK06599 443 ------------------------------------------------------PPLKEGEKLKLDELLpeqhF------ 462
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1050 TRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmsp 1129
Cdd:PRK06599 463 TEPPPRYSEASLVKKLEEYGIGRPSTYASIISTLQDREYV---------------------------------------- 502
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1130 SLRRGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEKlhpkavrdal 1209
Cdd:PRK06599 503 ELEKKRFIPTDLGRIVNDFLVEHFPKYVDYDFTAGLEDELDEIAEGKKDWKPVLREFWEPFISNLEKVEE---------- 572
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1210 ehslagmifgdsmptqasEETDEKETEATAGETnaetgrgaekarsrateasakrgtdgvgssftpplCPSCGEGVLKLR 1289
Cdd:PRK06599 573 ------------------DVRTEKVTQEETDET-----------------------------------CPKCGGGPLVLK 599
|
1210 1220
....*....|....*....|...
gi 1526428151 1290 IHSRGIFVGCSAYPRCTYTQSVP 1312
Cdd:PRK06599 600 LGKNGKFLGCSGYPECKYTKNIT 622
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
97-1195 |
1.60e-67 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 238.07 E-value: 1.60e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIvaslnqqAEATEQRKEspsslshpsppssaaasvasgpwpllsrinaVRRVRLQELTPaa 176
Cdd:COG0550 73 DEVILATDPDREGEAIAWHL-------LELLGDKKP-------------------------------VKRVVFNEITK-- 112
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaekateaknkeptngdededeekeevketngekleREIREGeedaggdedekarrsslpegetIA-LEG 255
Cdd:COG0550 113 ----------------------------------------------KAIKEA----------------------FKnPRD 124
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 256 LNQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQALSTVHATArlrwaspesc 335
Cdd:COG0550 125 IDMNLVDAQQARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATF---------- 194
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 336 enaangraeetedgreradgreeegddggrsardaateprregkdgeADDDGEFpwitakattskhgrcgpitvNLKLSL 415
Cdd:COG0550 195 -----------------------------------------------KTGGGEF--------------------TAKLVK 207
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 416 YKGKPFvaatrppsavaplsspplsspplsstscspsscsspsvstlggnaapvaeasqatppqmseGDEETAGEArghs 495
Cdd:COG0550 208 IDGKKI-------------------------------------------------------------LDEEEAEAI---- 222
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 496 qrgvrgqlldeaadptegaregenggkkeranengAAELQADRGKdanepapvdsadVESVLENLRRMhfdrvdlavsfs 575
Cdd:COG0550 223 -----------------------------------LAALKGKTFT------------VTSVEKKPKKR------------ 243
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 576 slKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEgveglGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLand 655
Cdd:COG0550 244 --NPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYE-----VGLITYMRTDSVRLSEDAVAAAREYIEALYGKEYL--- 313
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 656 eassgegeAEKQRNVTRKRTreasrfAQEAHEAIRPTSIELHPETLrqrlaaglssrlagdptknmaagsgereahegaq 735
Cdd:COG0550 314 --------PEKPRVYKTSKN------AQEAHEAIRPTGVTRTPESL---------------------------------- 345
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 736 sedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLVAsaahghsvaetshardedaetprgqlrgtd 815
Cdd:COG0550 346 ------SGDEFK----------LYDLIWKRFLASQMPPAEYETTTVTIEV------------------------------ 379
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 816 relsspdctgeniqtaqdedmkeeekgnglaargtvaaqgseGETHLEAETRRTIFDGFLSVYAFGATARERMQNaesee 895
Cdd:COG0550 380 ------------------------------------------GGEEFRASGKVIKFPGFLKVYGEGKDDEEEEEE----- 412
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 896 aqeeeteaedaghsetaepasspaelfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgshasactgslrr 975
Cdd:COG0550 --------------------------------------------------------------------------------
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 976 taspssplksapsspssaldssppaspasllpsspasfasssppcspltSSFPPHPQGLAPRISDLRfYVAHRcTRPPPR 1055
Cdd:COG0550 413 -------------------------------------------------KRLPPLKEGEKLKLKKIE-PEQHF-TKPPPR 441
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1056 FSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmspSLRRGR 1135
Cdd:COG0550 442 YTEASLVKAMEELGIGRPSTYASIIETLQDRGYV----------------------------------------EREGKR 481
|
1050 1060 1070 1080 1090 1100
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1136 LAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIA 1195
Cdd:COG0550 482 LVPTELGFIVIDLLEEHFPDLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| topA_bact |
TIGR01051 |
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ... |
97-1312 |
6.85e-61 |
|
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of bacteria. DNA topoisomerase I transiently cleaves one DNA strand and thus relaxes negatively supercoiled DNA during replication, transcription and recombination events. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273416 [Multi-domain] Cd Length: 610 Bit Score: 220.72 E-value: 6.85e-61
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIVASLNQqaeateqrkespsslshpsppssaaasvasgpwpllsRINAVRRVRLQELTPaa 176
Cdd:TIGR01051 71 DEVYLATDPDREGEAIAWHLAEVLKP-------------------------------------KDPVYKRIVFNEITK-- 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaeKATEAKNKEPtngdededeekeevketngekleREIregeedaggdedekarrsslpegetialegl 256
Cdd:TIGR01051 112 -------------KAIRAALKNP-----------------------REI------------------------------- 124
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 257 NQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQAlstvhatarlrwaspesce 336
Cdd:TIGR01051 125 DMNLVNAQQARRILDRLVGYTLSPLLWKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEE------------------- 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 337 naangraeetedgreradgreeegddggrsardaateprregkdgeadddgefpWITAKATTSKhgrcGPITVNLKLSLY 416
Cdd:TIGR01051 186 ------------------------------------------------------YWTIDATFQK----GEETFEALLTEV 207
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 417 KGKPFVAatrppsavaplsspplsspplsstscspsscsspsvstlgGNAAPVAEASQATppQMSEGDEETAGEARghsq 496
Cdd:TIGR01051 208 NGKKLKA----------------------------------------GSDLDEAEATALK--EQLKGEELVVEEIE---- 241
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 497 rgvrgqlldeaadptegaregenggKKERANengaaelqadrgkdanepapvdsadvesvlenlrrmhfdrvdlavsfss 576
Cdd:TIGR01051 242 -------------------------KKPKKS------------------------------------------------- 247
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 577 lKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGVE---GLGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLa 653
Cdd:TIGR01051 248 -RPPPPFTTSTLQQEASRKLGFSAKKTMMIAQRLYEGVStgdGTIGLITYMRTDSTRLSNQAVNEARNLIDKNYGKEYL- 325
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 654 ndeassgegeAEKQRNVTRKrtreaSRFAQEAHEAIRPTSIELHPETLRQRLaaglssrlagdptknmaagsgereaheg 733
Cdd:TIGR01051 326 ----------GPKPKRYKSK-----EKNAQEAHEAIRPTSVFRTPEELKDYL---------------------------- 362
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 734 aqsedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLvasaahghsvaetshardedaetprgqlrg 813
Cdd:TIGR01051 363 --------KRDEFR----------LYELIWKRFVASQMADARYDSTSVRL------------------------------ 394
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 814 tdrelsspdctgeniqTAQDedmkeeekgnglaargtvaaqgseGETHLEAETRRTIFDGFLSVYafgatarermqnaes 893
Cdd:TIGR01051 395 ----------------TNED------------------------GEYVFKATGRKLIFDGYYKVY--------------- 419
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 894 eeaqeeeteaedaghsetaePASSPAELfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgshasactgsl 973
Cdd:TIGR01051 420 --------------------VEGSDDPL---------------------------------------------------- 427
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 974 rrtaspssplksapsspssaldssppaspasllpsspasfasssppcSPLTSSFPPHPQGLAPRISDLRfYVAHRcTRPP 1053
Cdd:TIGR01051 428 -----------------------------------------------EEKDRILPPLKEGDAVKLVEVK-PNQHF-TQPP 458
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1054 PRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmspSLRR 1133
Cdd:TIGR01051 459 ARYTEASLVKELEELGIGRPSTYASIISTIQDRGYV----------------------------------------KKEN 498
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1134 GRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEKLHPKavrdalehsl 1213
Cdd:TIGR01051 499 KRLYPTELGFAVTDLLEKHFGDVVDYDFTAKMEKDLDEIAEGKAEWKPVLKNFYTGFSSKVKKLRNMRII---------- 568
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1214 agmifgdsmptqaseeTDEKETEAtagetnaetgrgaekarsrateasakrgtdgvgssftpplCPSCGEGvLKLRIHSR 1293
Cdd:TIGR01051 569 ----------------VDFKTSQD----------------------------------------CPLCGRP-MVVKLGKY 591
|
1210
....*....|....*....
gi 1526428151 1294 GIFVGCSAYPRCTYTQSVP 1312
Cdd:TIGR01051 592 GPFLACSNFPECKYTKSIV 610
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
568-1194 |
2.70e-44 |
|
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: 165.47 E-value: 2.70e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 568 VDLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglgGLITYMRTDSSTVSAAAREEIRRFVassf 647
Cdd:cd00186 72 VSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEA-----GLITYPRTDSTRLSEEAILEAREYI---- 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 648 spsmlandEASSGEGEAEKQRNVTRkRTREASRFAQEAHEAIRPTSIeLHPETLRQRLaaglssrlagdptknmaagsge 727
Cdd:cd00186 143 --------QAIYGKEYLYPAPLLGR-RNPKRGKKEQGAHEAIRPTKV-APTPELEANL---------------------- 190
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 728 reahegaqSEDLKKtrdmakgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLvasaahghsvaetshardedaetp 807
Cdd:cd00186 191 --------SEDEFK----------------LYELIWRRFLASQMADAKYEETTVTL------------------------ 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 808 rgqlrgtdrelsspdctgeniqtaqdEDMKEEEKGNGlaargtvaaqgsegethleaetRRTIFDGFLSVYAFGATarer 887
Cdd:cd00186 223 --------------------------EIGGEKFKASG----------------------KVLLEDGWLEVYPEEKD---- 250
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 888 mqnaeseeaqeeeteaedagHSETAEPASSPAELFAFFDAYppaaavVNRSFqlsrssisfslasssplsfspslgshas 967
Cdd:cd00186 251 --------------------DEEEEPPPLKEGDELKLEEVE------LEEKE---------------------------- 276
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 968 actgslrrtaspssplksapsspssaldssppaspasllpsspasfasssppcspltssfpphpqglaprisdlrfyvah 1047
Cdd:cd00186 --------------------------------------------------------------------------------
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1048 rcTRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVYpttpkkksssrlsfaasspppaapsssrspassdmrm 1127
Cdd:cd00186 277 --TQPPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVE------------------------------------- 317
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1526428151 1128 spsLRRGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKI 1194
Cdd:cd00186 318 ---KEKKKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
549-1183 |
1.07e-35 |
|
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: 141.23 E-value: 1.07e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 549 DSADVESVLENLRRMHFDRVDLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGVeglgGLITYMRTDS 628
Cdd:pfam01131 92 DKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEKH----GLITYPRTDS 167
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 629 STVSAAAR-EEIRRFVASSFSPsmlandeassGEGEAEKQRNVTRKRTREASrfAQ-EAHEAIRPTsielhpetlrqrla 706
Cdd:pfam01131 168 TYLSDDATlKAILEYLTKNYGK----------YLPYAPRLLKKTKGKLTVGN--AKvTAHEAIRPT-------------- 221
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 707 aglssrlaGDPTKnmaagsgereahEGAQSEDLKKtrdmakgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLvas 786
Cdd:pfam01131 222 --------GDIPV------------LPELSDDERK----------------LYELIVRRFLASQMPPAVYETTTVVL--- 262
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 787 aahghsvaetshardedaetprgqlrgtdrelsspDCTGENiqtaqdedmkeeekgnglaargtvaaqgsegethLEAET 866
Cdd:pfam01131 263 -----------------------------------EVGGEE----------------------------------FRASG 273
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 867 RRTIFDGFLSVYafgatarermqnaeseeaqeeeteaedaGHSETAEPasspaelfaffdayppaaavvnrsfqlsrssi 946
Cdd:pfam01131 274 KVILEDGWLKVY----------------------------PYEKKEDE-------------------------------- 293
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 947 sfslasssplsfspslgshasactgslrrtaspssplksapsspssaldssppaspasllpsspasfasssppcspltSS 1026
Cdd:pfam01131 294 ------------------------------------------------------------------------------EE 295
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1027 FPPHPQGLAPRISDLRfYVAHRcTRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaa 1106
Cdd:pfam01131 296 LPELKEGEELKVTQVE-VEEKK-TKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYV----------------- 356
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1526428151 1107 sspppaapsssrspassdmrmspSLRRGRLAPSPRGRLVAAFLDaAVPDFVNARFTASLEESLDAIAAGRDDWVRVV 1183
Cdd:pfam01131 357 -----------------------ERKKKSLVPTELGKALVEALE-KFPDLVDPELTAELEEKLDEIAEGKLDWKDVL 409
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
578-783 |
3.13e-34 |
|
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: 132.37 E-value: 3.13e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 578 KPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglgGLITYMRTDSSTVSAAAREEIRRFVassfspsmlandEA 657
Cdd:smart00437 8 NPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEK-----GLITYPRTDSTRLSEEAVLEARNYI------------QK 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 658 SSGEGEAEKQRNVTRKRTREASRFAQEAHEAIRPTSIeLHPETLRQRLaaglssrlagdptknmaagsgereahegaqSE 737
Cdd:smart00437 71 LYGKEYLDLAVVLLKPRKPRKGKKAQGAHEAIRPTKP-IFTPELEKEL------------------------------SE 119
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 1526428151 738 DLKKtrdmakgaglnaalvaVYDLIWRRTLASEMAPALRQALKISL 783
Cdd:smart00437 120 DEFK----------------LYELIWRRFLASQMPDAKYEETKVTI 149
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
73-117 |
4.56e-05 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 43.50 E-value: 4.56e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 1526428151 73 TALDDESSFLLRTVNDVLAEVGCIDTLFLCTDPDREGEAIAWHIV 117
Cdd:pfam01751 31 HLLSLEKGPKKKALKALKELALKAKEVILATDPDREGEAIALKLL 75
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
97-1312 |
2.52e-87 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 299.08 E-value: 2.52e-87
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIVASLNqqaEATEQRKEspsslshpsppssaaasvasgpwpllsrinaVRRVRLQELTPaa 176
Cdd:PRK06599 75 DAVYLATDPDREGEAIAWHIAEVLK---EAKLKDKN-------------------------------VKRVVFNEITK-- 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaeKATEAKNKEPtngdededeekeevketngekleREIregeedaggdedekarrsslpegetialegl 256
Cdd:PRK06599 119 -------------KAVQEAIENP-----------------------RDI------------------------------- 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 257 NQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQALSTVHAtarlrwaspesce 336
Cdd:PRK06599 132 DMDLVDAQQARRALDYLVGFKLSPLLWKKVRRGLSAGRVQSVALRLICEREDEIEAFIPQEYWTIEA------------- 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 337 naangraeetedgreradgreeegddggrsarDAATEPRREgkdgeadddgefpwITAKattskhgrcgpitvnlkLSLY 416
Cdd:PRK06599 199 --------------------------------DLATSNGEP--------------FTAK-----------------LVEV 215
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 417 KGKpfvaatrppsavaplsspplsspplsstscspsscsspsvstlggnaapvaeasqaTPPQMSEGDEETAGEArghsq 496
Cdd:PRK06599 216 NGK--------------------------------------------------------KLEKFSITNEEQAKAL----- 234
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 497 rgvrgqlldeAADPTEGAREGENGGKKERanengaaelqadrgkdanepapvdsadvesvlenlRRmhfdrvdlavsfss 576
Cdd:PRK06599 235 ----------VKALEGQAYTVDKIEKKER-----------------------------------KR-------------- 255
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 577 lKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGV---EGLGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLa 653
Cdd:PRK06599 256 -NPPPPFITSTLQQEASRKLGFSAKKTMRIAQKLYEGIdlgEGTVGLITYMRTDSVRLSNEALDEARKYITKKYGKEYL- 333
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 654 ndeassgegeAEKQRNVTRKrtreaSRFAQEAHEAIRPTSIELHPETLRQRLaaglssrlagdptknmaagsgereaheg 733
Cdd:PRK06599 334 ----------PAKPRVYKKK-----SKNAQEAHEAIRPTSINRTPESLKPYL---------------------------- 370
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 734 aqsedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPAlrqalKISLVasaahghSVaetsharDEDAETPRGQLRG 813
Cdd:PRK06599 371 --------TPDQFK----------LYELIWKRTVASQMAPA-----ILDQT-------SV-------DIASENGKYVFRA 413
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 814 TdrelsspdctgeniqtaqdedmkeeekgnglaargtvaaqGSegethleaetrRTIFDGFLSVYafgatarermqnaes 893
Cdd:PRK06599 414 T----------------------------------------GS-----------VILFPGFLKVY--------------- 427
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 894 eeaqeeeteaedaGHSETAEPASSPAELfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgshasactgsl 973
Cdd:PRK06599 428 -------------GESKDDEEEDDEKLL---------------------------------------------------- 442
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 974 rrtaspssplksapsspssaldssppaspasllpsspasfasssppcspltssfPPHPQGLAPRISDLR----Fyvahrc 1049
Cdd:PRK06599 443 ------------------------------------------------------PPLKEGEKLKLDELLpeqhF------ 462
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1050 TRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmsp 1129
Cdd:PRK06599 463 TEPPPRYSEASLVKKLEEYGIGRPSTYASIISTLQDREYV---------------------------------------- 502
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1130 SLRRGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEKlhpkavrdal 1209
Cdd:PRK06599 503 ELEKKRFIPTDLGRIVNDFLVEHFPKYVDYDFTAGLEDELDEIAEGKKDWKPVLREFWEPFISNLEKVEE---------- 572
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1210 ehslagmifgdsmptqasEETDEKETEATAGETnaetgrgaekarsrateasakrgtdgvgssftpplCPSCGEGVLKLR 1289
Cdd:PRK06599 573 ------------------DVRTEKVTQEETDET-----------------------------------CPKCGGGPLVLK 599
|
1210 1220
....*....|....*....|...
gi 1526428151 1290 IHSRGIFVGCSAYPRCTYTQSVP 1312
Cdd:PRK06599 600 LGKNGKFLGCSGYPECKYTKNIT 622
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
97-1323 |
1.21e-72 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 260.88 E-value: 1.21e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIVASLNQQAEAteqrkespsslshpsppssaaasvasgpwpllsrinaVRRVRLQELTpaa 176
Cdd:PRK07561 88 DELYLATDPDREGEAIAWHLLEVLGGDDVP-------------------------------------VKRVVFNEIT--- 127
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaEKATEAKNKEPtngdededeekeevketngekleREIregeedaggdedekarrsslpegetialegl 256
Cdd:PRK07561 128 ------------KNAIQEAFENP-----------------------REL------------------------------- 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 257 NQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQALSTVHATArlrwaspesce 336
Cdd:PRK07561 142 DINLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEEYWDIHADL----------- 210
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 337 naangraeetedgreradgreeegddggrsardaateprregkdgEADDDGEFpwiTAKATTskhgrcgpitvnlklslY 416
Cdd:PRK07561 211 ---------------------------------------------TTPRGDAF---EARLTH-----------------L 225
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 417 KGKPFvaatrppsavaplsspplsspplsstscspsscsspsvstlggnaAPVaeasqatppqmSEGDEETAGEARghsq 496
Cdd:PRK07561 226 DGKKF---------------------------------------------APV-----------DLLNEAQAEAAV---- 245
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 497 rgvrgQLLdEAADPTEGAREgenggKKERanengaaelqadrgkdanepapvdsadvesvlenlRRmhfdrvdlavsfss 576
Cdd:PRK07561 246 -----AAL-EGARYSVASVE-----DKPT-----------------------------------TR-------------- 265
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 577 lKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEgveglGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLande 656
Cdd:PRK07561 266 -KPSAPFTTSTLQQEASRKLGFSVKKTMRIAQRLYE-----AGYITYMRTDSTNLSQEAINAARGYIGDNYGKKYL---- 335
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 657 assgegeAEKQRNVTRKrtreaSRFAQEAHEAIRPTSIELHPETLRqrlaaglssrlagdptknmaagsgereahegaqs 736
Cdd:PRK07561 336 -------PEKPRQYSSK-----AKNAQEAHEAIRPSDVFRTPDQLK---------------------------------- 369
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 737 edlkktrdmakgaGLNAALVAVYDLIWRRTLASEMAPALRQALKISLVASAAhghsvaetshardedaetprgqlrgtdr 816
Cdd:PRK07561 370 -------------GLEGDAQRLYELIWKRFVASQMAPARYDSTTVTIAAGDA---------------------------- 408
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 817 elsspdctgeniqtaqdedmkeeekgnGLAARGtvaaqgsegethleaetRRTIFDGFLSVYafgatarermqnaeseea 896
Cdd:PRK07561 409 ---------------------------ELRATG-----------------RVLRFDGFLKVY------------------ 426
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 897 qeeeteaeDAGHSETAEPASSPaelfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgshasactgslrrt 976
Cdd:PRK07561 427 --------VEGRDDALDDEDRR---------------------------------------------------------- 440
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 977 aspssplksapsspssaldssppaspasllpsspasfasssppcspltssFPPHPQGLAPRISDLR----FyvahrcTRP 1052
Cdd:PRK07561 441 --------------------------------------------------LPALKVGDALTLEKLDptqhF------TKP 464
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1053 PPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVYpttpkkksssrlsfaasspppaapsssrspassdmrmspsLR 1132
Cdd:PRK07561 465 PARYSEASLVKELEKLGIGRPSTYASIISTIQDRGYVR----------------------------------------LE 504
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1133 RGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEKLHPkavrdalehs 1212
Cdd:PRK07561 505 NRRFYPEKMGRIVTDRLEEFFPRLVDYDFTARMEEELDDIANGEADWKPVLDDFYKDFSQQLEKAEELRE---------- 574
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1213 lagmifGDSMPTQASEETDEKeteatagetnaetgrgaekarsrateasakrgtdgvgssftpplCPSCGEGvLKLRIHS 1292
Cdd:PRK07561 575 ------EGGMRPNQMVITDRD--------------------------------------------CPTCGRG-MGIRTGK 603
|
1210 1220 1230
....*....|....*....|....*....|....
gi 1526428151 1293 RGIFVGCSAY---PRCTYTQSVPPPQKRANGEDS 1323
Cdd:PRK07561 604 TGVFLGCSGYalkERCKTTRNLTPEEETLNVLEG 637
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
97-1195 |
1.60e-67 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 238.07 E-value: 1.60e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIvaslnqqAEATEQRKEspsslshpsppssaaasvasgpwpllsrinaVRRVRLQELTPaa 176
Cdd:COG0550 73 DEVILATDPDREGEAIAWHL-------LELLGDKKP-------------------------------VKRVVFNEITK-- 112
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaekateaknkeptngdededeekeevketngekleREIREGeedaggdedekarrsslpegetIA-LEG 255
Cdd:COG0550 113 ----------------------------------------------KAIKEA----------------------FKnPRD 124
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 256 LNQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQALSTVHATArlrwaspesc 335
Cdd:COG0550 125 IDMNLVDAQQARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEYWTIEATF---------- 194
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 336 enaangraeetedgreradgreeegddggrsardaateprregkdgeADDDGEFpwitakattskhgrcgpitvNLKLSL 415
Cdd:COG0550 195 -----------------------------------------------KTGGGEF--------------------TAKLVK 207
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 416 YKGKPFvaatrppsavaplsspplsspplsstscspsscsspsvstlggnaapvaeasqatppqmseGDEETAGEArghs 495
Cdd:COG0550 208 IDGKKI-------------------------------------------------------------LDEEEAEAI---- 222
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 496 qrgvrgqlldeaadptegaregenggkkeranengAAELQADRGKdanepapvdsadVESVLENLRRMhfdrvdlavsfs 575
Cdd:COG0550 223 -----------------------------------LAALKGKTFT------------VTSVEKKPKKR------------ 243
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 576 slKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEgveglGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLand 655
Cdd:COG0550 244 --NPPPPFTTSTLQQEASRKLGFSAKKTMSIAQRLYE-----VGLITYMRTDSVRLSEDAVAAAREYIEALYGKEYL--- 313
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 656 eassgegeAEKQRNVTRKRTreasrfAQEAHEAIRPTSIELHPETLrqrlaaglssrlagdptknmaagsgereahegaq 735
Cdd:COG0550 314 --------PEKPRVYKTSKN------AQEAHEAIRPTGVTRTPESL---------------------------------- 345
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 736 sedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLVAsaahghsvaetshardedaetprgqlrgtd 815
Cdd:COG0550 346 ------SGDEFK----------LYDLIWKRFLASQMPPAEYETTTVTIEV------------------------------ 379
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 816 relsspdctgeniqtaqdedmkeeekgnglaargtvaaqgseGETHLEAETRRTIFDGFLSVYAFGATARERMQNaesee 895
Cdd:COG0550 380 ------------------------------------------GGEEFRASGKVIKFPGFLKVYGEGKDDEEEEEE----- 412
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 896 aqeeeteaedaghsetaepasspaelfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgshasactgslrr 975
Cdd:COG0550 --------------------------------------------------------------------------------
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 976 taspssplksapsspssaldssppaspasllpsspasfasssppcspltSSFPPHPQGLAPRISDLRfYVAHRcTRPPPR 1055
Cdd:COG0550 413 -------------------------------------------------KRLPPLKEGEKLKLKKIE-PEQHF-TKPPPR 441
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1056 FSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmspSLRRGR 1135
Cdd:COG0550 442 YTEASLVKAMEELGIGRPSTYASIIETLQDRGYV----------------------------------------EREGKR 481
|
1050 1060 1070 1080 1090 1100
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1136 LAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIA 1195
Cdd:COG0550 482 LVPTELGFIVIDLLEEHFPDLVDYEFTAKMEEKLDEIAEGKLDWKDVLEEFYKPFKELVE 541
|
|
| topA_bact |
TIGR01051 |
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ... |
97-1312 |
6.85e-61 |
|
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of bacteria. DNA topoisomerase I transiently cleaves one DNA strand and thus relaxes negatively supercoiled DNA during replication, transcription and recombination events. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273416 [Multi-domain] Cd Length: 610 Bit Score: 220.72 E-value: 6.85e-61
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIVASLNQqaeateqrkespsslshpsppssaaasvasgpwpllsRINAVRRVRLQELTPaa 176
Cdd:TIGR01051 71 DEVYLATDPDREGEAIAWHLAEVLKP-------------------------------------KDPVYKRIVFNEITK-- 111
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaeKATEAKNKEPtngdededeekeevketngekleREIregeedaggdedekarrsslpegetialegl 256
Cdd:TIGR01051 112 -------------KAIRAALKNP-----------------------REI------------------------------- 124
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 257 NQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQAlstvhatarlrwaspesce 336
Cdd:TIGR01051 125 DMNLVNAQQARRILDRLVGYTLSPLLWKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEE------------------- 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 337 naangraeetedgreradgreeegddggrsardaateprregkdgeadddgefpWITAKATTSKhgrcGPITVNLKLSLY 416
Cdd:TIGR01051 186 ------------------------------------------------------YWTIDATFQK----GEETFEALLTEV 207
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 417 KGKPFVAatrppsavaplsspplsspplsstscspsscsspsvstlgGNAAPVAEASQATppQMSEGDEETAGEARghsq 496
Cdd:TIGR01051 208 NGKKLKA----------------------------------------GSDLDEAEATALK--EQLKGEELVVEEIE---- 241
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 497 rgvrgqlldeaadptegaregenggKKERANengaaelqadrgkdanepapvdsadvesvlenlrrmhfdrvdlavsfss 576
Cdd:TIGR01051 242 -------------------------KKPKKS------------------------------------------------- 247
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 577 lKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGVE---GLGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLa 653
Cdd:TIGR01051 248 -RPPPPFTTSTLQQEASRKLGFSAKKTMMIAQRLYEGVStgdGTIGLITYMRTDSTRLSNQAVNEARNLIDKNYGKEYL- 325
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 654 ndeassgegeAEKQRNVTRKrtreaSRFAQEAHEAIRPTSIELHPETLRQRLaaglssrlagdptknmaagsgereaheg 733
Cdd:TIGR01051 326 ----------GPKPKRYKSK-----EKNAQEAHEAIRPTSVFRTPEELKDYL---------------------------- 362
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 734 aqsedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLvasaahghsvaetshardedaetprgqlrg 813
Cdd:TIGR01051 363 --------KRDEFR----------LYELIWKRFVASQMADARYDSTSVRL------------------------------ 394
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 814 tdrelsspdctgeniqTAQDedmkeeekgnglaargtvaaqgseGETHLEAETRRTIFDGFLSVYafgatarermqnaes 893
Cdd:TIGR01051 395 ----------------TNED------------------------GEYVFKATGRKLIFDGYYKVY--------------- 419
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 894 eeaqeeeteaedaghsetaePASSPAELfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgshasactgsl 973
Cdd:TIGR01051 420 --------------------VEGSDDPL---------------------------------------------------- 427
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 974 rrtaspssplksapsspssaldssppaspasllpsspasfasssppcSPLTSSFPPHPQGLAPRISDLRfYVAHRcTRPP 1053
Cdd:TIGR01051 428 -----------------------------------------------EEKDRILPPLKEGDAVKLVEVK-PNQHF-TQPP 458
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1054 PRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmspSLRR 1133
Cdd:TIGR01051 459 ARYTEASLVKELEELGIGRPSTYASIISTIQDRGYV----------------------------------------KKEN 498
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1134 GRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEKLHPKavrdalehsl 1213
Cdd:TIGR01051 499 KRLYPTELGFAVTDLLEKHFGDVVDYDFTAKMEKDLDEIAEGKAEWKPVLKNFYTGFSSKVKKLRNMRII---------- 568
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1214 agmifgdsmptqaseeTDEKETEAtagetnaetgrgaekarsrateasakrgtdgvgssftpplCPSCGEGvLKLRIHSR 1293
Cdd:TIGR01051 569 ----------------VDFKTSQD----------------------------------------CPLCGRP-MVVKLGKY 591
|
1210
....*....|....*....
gi 1526428151 1294 GIFVGCSAYPRCTYTQSVP 1312
Cdd:TIGR01051 592 GPFLACSNFPECKYTKSIV 610
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
568-1194 |
2.70e-44 |
|
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: 165.47 E-value: 2.70e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 568 VDLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglgGLITYMRTDSSTVSAAAREEIRRFVassf 647
Cdd:cd00186 72 VSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEA-----GLITYPRTDSTRLSEEAILEAREYI---- 142
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 648 spsmlandEASSGEGEAEKQRNVTRkRTREASRFAQEAHEAIRPTSIeLHPETLRQRLaaglssrlagdptknmaagsge 727
Cdd:cd00186 143 --------QAIYGKEYLYPAPLLGR-RNPKRGKKEQGAHEAIRPTKV-APTPELEANL---------------------- 190
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 728 reahegaqSEDLKKtrdmakgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLvasaahghsvaetshardedaetp 807
Cdd:cd00186 191 --------SEDEFK----------------LYELIWRRFLASQMADAKYEETTVTL------------------------ 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 808 rgqlrgtdrelsspdctgeniqtaqdEDMKEEEKGNGlaargtvaaqgsegethleaetRRTIFDGFLSVYAFGATarer 887
Cdd:cd00186 223 --------------------------EIGGEKFKASG----------------------KVLLEDGWLEVYPEEKD---- 250
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 888 mqnaeseeaqeeeteaedagHSETAEPASSPAELFAFFDAYppaaavVNRSFqlsrssisfslasssplsfspslgshas 967
Cdd:cd00186 251 --------------------DEEEEPPPLKEGDELKLEEVE------LEEKE---------------------------- 276
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 968 actgslrrtaspssplksapsspssaldssppaspasllpsspasfasssppcspltssfpphpqglaprisdlrfyvah 1047
Cdd:cd00186 --------------------------------------------------------------------------------
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1048 rcTRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVYpttpkkksssrlsfaasspppaapsssrspassdmrm 1127
Cdd:cd00186 277 --TQPPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYVE------------------------------------- 317
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1526428151 1128 spsLRRGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKI 1194
Cdd:cd00186 318 ---KEKKKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLDEIAEGKKDYQEVLEEFYEEFKKIV 381
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
97-1194 |
1.89e-38 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 155.31 E-value: 1.89e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIVASLNQQAeateqrkespsslshpsppssaaasvasgpwplLSRINAVRRVRLQELTPaa 176
Cdd:PRK08780 75 DDLYLATDPDREGEAISWHLAEILKERG---------------------------------LLKDKPMQRVVFTEITP-- 119
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 177 vrralraagedaekateaknkeptngdededeekeevketngekleREIREGEEdaggdedeKARRSSLPegetialegl 256
Cdd:PRK08780 120 ----------------------------------------------RAIKEAMA--------KPRDIASD---------- 135
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 257 nqnLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQALSTVHATArlrwASPESCE 336
Cdd:PRK08780 136 ---LVDAQQARRALDYLVGFNLSPLLWRKIQRGLSAGRVQSPALRMIVEREEEIEAFIAREYWSIEADC----AHPSQPF 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 337 NAangraeetedgreradgreeegddggrsardaateprregkdgeadddgefpwitakattskhgrcgpitvnlKLSLY 416
Cdd:PRK08780 209 NA-------------------------------------------------------------------------KLIKL 215
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 417 KGKPFvaatrppsavaplsspplsspplsstscspsscsspsvstlggnaapvaeasqatpPQMSEGDEETAGEARGHSQ 496
Cdd:PRK08780 216 DGQKF--------------------------------------------------------EQFTITDGDTAEAARLRIQ 239
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 497 RGVRGQLLdeAADPTegaregenggKKERanengaaelqadrgkdanepapvdsadvesvlenlRRmhfdrvdlavsfss 576
Cdd:PRK08780 240 QAAQGTLH--VTDVE----------SKER-----------------------------------KR-------------- 258
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 577 lKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGV----EGLGGLITYMRTDSSTVSAAAREEIRRFVASSFspsml 652
Cdd:PRK08780 259 -NPAPPFTTSTLQQEASRKLGFTTRRTMQVAQKLYEGVdlgdEGSVGLITYMRTDSVNLSQDALAEIRDVIARDY----- 332
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 653 andeassGEGEAEKQRNVTRKRtreaSRFAQEAHEAIRPTSIELHPETLRQRLaaglssrlagdptknmaagsgereahe 732
Cdd:PRK08780 333 -------GTASLPDQPNTYKTK----SKNAQEAHEAVRPTSALRTPAQVARFL--------------------------- 374
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 733 gaqSEDLKKtrdmakgaglnaalvaVYDLIWRRTLASEMAPALRQalkislvasaahghsvaetshardedaetprgqlr 812
Cdd:PRK08780 375 ---SDDQRR----------------LYELIWKRAVACQMIPATLN----------------------------------- 400
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 813 gtdrelsspdctgeniqtaqdedmkeeekgnglaargTVAAQGSEGETHLEAETRRTIFD-GFLSVYAFGAtarermqna 891
Cdd:PRK08780 401 -------------------------------------TVSVDLAAGSEHVFRATGSTVVVpGFLAVYEEGK--------- 434
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 892 eseeaqeeeteaedaghsetaepasspaelfaffdayppaaavvnrsfqlsrssisfslasssplsfspslgSHASACTG 971
Cdd:PRK08780 435 ------------------------------------------------------------------------DDKSAEDE 442
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 972 SLRRTaspssplksapsspssaldssppaspasllpsspasfasssppcspltssFPPHPQGlaPRISDLRFYVAHRCTR 1051
Cdd:PRK08780 443 DEGRK--------------------------------------------------LPPMKEG--DNVPLERIRAEQHFTE 470
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1052 PPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmspSL 1131
Cdd:PRK08780 471 PPPRYTEASLVKALEEYGIGRPSTYASIISTLQFRKYV----------------------------------------EM 510
|
1050 1060 1070 1080 1090 1100
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1526428151 1132 RRGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKI 1194
Cdd:PRK08780 511 EGRRFRPTDVGRAVNKFLTGHFTRYVDYDFTARLEDDLDAVSRGEKEWIPLMEKFWGPFKELV 573
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
549-1183 |
1.07e-35 |
|
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: 141.23 E-value: 1.07e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 549 DSADVESVLENLRRMHFDRVDLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGVeglgGLITYMRTDS 628
Cdd:pfam01131 92 DKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEKH----GLITYPRTDS 167
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 629 STVSAAAR-EEIRRFVASSFSPsmlandeassGEGEAEKQRNVTRKRTREASrfAQ-EAHEAIRPTsielhpetlrqrla 706
Cdd:pfam01131 168 TYLSDDATlKAILEYLTKNYGK----------YLPYAPRLLKKTKGKLTVGN--AKvTAHEAIRPT-------------- 221
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 707 aglssrlaGDPTKnmaagsgereahEGAQSEDLKKtrdmakgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLvas 786
Cdd:pfam01131 222 --------GDIPV------------LPELSDDERK----------------LYELIVRRFLASQMPPAVYETTTVVL--- 262
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 787 aahghsvaetshardedaetprgqlrgtdrelsspDCTGENiqtaqdedmkeeekgnglaargtvaaqgsegethLEAET 866
Cdd:pfam01131 263 -----------------------------------EVGGEE----------------------------------FRASG 273
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 867 RRTIFDGFLSVYafgatarermqnaeseeaqeeeteaedaGHSETAEPasspaelfaffdayppaaavvnrsfqlsrssi 946
Cdd:pfam01131 274 KVILEDGWLKVY----------------------------PYEKKEDE-------------------------------- 293
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 947 sfslasssplsfspslgshasactgslrrtaspssplksapsspssaldssppaspasllpsspasfasssppcspltSS 1026
Cdd:pfam01131 294 ------------------------------------------------------------------------------EE 295
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1027 FPPHPQGLAPRISDLRfYVAHRcTRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaa 1106
Cdd:pfam01131 296 LPELKEGEELKVTQVE-VEEKK-TKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYV----------------- 356
|
570 580 590 600 610 620 630
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1526428151 1107 sspppaapsssrspassdmrmspSLRRGRLAPSPRGRLVAAFLDaAVPDFVNARFTASLEESLDAIAAGRDDWVRVV 1183
Cdd:pfam01131 357 -----------------------ERKKKSLVPTELGKALVEALE-KFPDLVDPELTAELEEKLDEIAEGKLDWKDVL 409
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
579-1312 |
2.75e-34 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 142.65 E-value: 2.75e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 579 PPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGV----EGLGGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLan 654
Cdd:PRK06319 267 AYPPFITSTLQQEASRHFRFSSSRTMNIAQTLYEGVdldsEGATGLITYMRTDSVRTDPEALKQVRKYIEGTFGKEFL-- 344
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 655 deassgegeAEKQRNVTRKRTreasrfAQEAHEAIRPTSIELHPETLRQRLaaglssrlagdptknmaagsgereahega 734
Cdd:PRK06319 345 ---------PSSPNVYTTKKM------AQDAHEAIRPTDITLTPEKLRSKL----------------------------- 380
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 735 qsedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLVasaahghsvaetshardedaetprgqlrgt 814
Cdd:PRK06319 381 -------TEDQYK----------LYSLIWKRFVASQMIPAIYDTLAIRIT------------------------------ 413
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 815 drelsspdcTGENIQtaqdedmkeeekgngLAARGTVAAqgsegethleaetrrtiFDGFLSVYafgatarERMQNAEse 894
Cdd:PRK06319 414 ---------TNKGID---------------LRATGSLLK-----------------FKGFLAVY-------EEKRDDE-- 443
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 895 eaqeeeteaedaghsETAEPasspaelfaffdayppaaavvNRsfqlsrssisfslasssplsfspslgshasactgslr 974
Cdd:PRK06319 444 ---------------GDEEE---------------------NI------------------------------------- 450
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 975 rtaspssplksapsspssaldssppaspasllpsspasfasssppcspltsSFPPHPQGLAPRISDLRFYVAHrcTRPPP 1054
Cdd:PRK06319 451 ---------------------------------------------------HLPKLHEQDVLTKEELSAEQAF--TKPLP 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1055 RFSEASLINTLERLGIGRPSTYAAVLAALCDRLYvyptTPKKKsssrlsfaasspppaapsssrspassdmrmspslrrG 1134
Cdd:PRK06319 478 RFTEASLVKELEKSGIGRPSTYATIMNKIQSREY----TLKEN------------------------------------Q 517
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1135 RLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEK--LHPKAVRD----- 1207
Cdd:PRK06319 518 RLRPTELGKIISQFLETNFPRIMDIGFTALMEDELELIADNKKPWKLLLQEFWELFLPVVVTAEKeaFIPRIVTEidcpk 597
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1208 ALEHSLAGMIFGDSMPTQASE--ETDEKETEatagetnaetgrgaekarsraTEASAKRGTDGVGSSFTPPlCPSCGeGV 1285
Cdd:PRK06319 598 CHKGKLVKIWAKNRYFYGCSEypECDYKTSE---------------------EELTFNKEDYAEDTPWDSP-CPLCG-GE 654
|
730 740
....*....|....*....|....*...
gi 1526428151 1286 LKLRiHSR-GIFVGCSAYPRCTYTQSVP 1312
Cdd:PRK06319 655 MKVR-HGRfGTFLGCENYPECRGIINIH 681
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
578-783 |
3.13e-34 |
|
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: 132.37 E-value: 3.13e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 578 KPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglgGLITYMRTDSSTVSAAAREEIRRFVassfspsmlandEA 657
Cdd:smart00437 8 NPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEK-----GLITYPRTDSTRLSEEAVLEARNYI------------QK 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 658 SSGEGEAEKQRNVTRKRTREASRFAQEAHEAIRPTSIeLHPETLRQRLaaglssrlagdptknmaagsgereahegaqSE 737
Cdd:smart00437 71 LYGKEYLDLAVVLLKPRKPRKGKKAQGAHEAIRPTKP-IFTPELEKEL------------------------------SE 119
|
170 180 190 200
....*....|....*....|....*....|....*....|....*.
gi 1526428151 738 DLKKtrdmakgaglnaalvaVYDLIWRRTLASEMAPALRQALKISL 783
Cdd:smart00437 120 DEFK----------------LYELIWRRFLASQMPDAKYEETKVTI 149
|
|
| TopG2 |
COG1110 |
Reverse gyrase [Replication, recombination and repair]; |
576-783 |
2.85e-23 |
|
Reverse gyrase [Replication, recombination and repair];
Pssm-ID: 440727 [Multi-domain] Cd Length: 1219 Bit Score: 107.75 E-value: 2.85e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 576 SLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglgGLITYMRTDSSTVSAA----AREEI-RRFVASSFSPS 650
Cdd:COG1110 911 ELNPLPPYTTDTLLRDASRRLGLSAEETMRLAQDLFES-----GLITYHRTDSTRVSDAgiavAKEYIsERFGEEYFKPR 985
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 651 mlandeaSSGEGeaekqrnvtrkrtreasrfaqEAHEAIRPTSiELHPETLRQRLAAGLsSRLAGDPTKNmaagsgerea 730
Cdd:COG1110 986 -------RWGEG---------------------GAHEAIRPTR-PLDAEDLRRLIEEGV-IELPIPLTRR---------- 1025
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*
gi 1526428151 731 HegaqsedlkktrdmakgaglnaalVAVYDLIWRRTLASEMAPA--LRQALKISL 783
Cdd:COG1110 1026 H------------------------LRLYDLIFRRFMASQMRPAkvEKVKLRVSL 1056
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
253-316 |
4.30e-18 |
|
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: 80.32 E-value: 4.30e-18
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1526428151 253 LEGLNQNLVRAYLARLAIDYLAGFSLSPLLWRKL-PGSKSAGRVQSAALKLLADREEVIEAFKPQ 316
Cdd:smart00436 21 PREIDENLVNAQLARRILDRLIGFNLSRLLTKKLrNGVLSAGRVQTPTLGLIVEREREIKNFVPK 85
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
259-316 |
1.18e-16 |
|
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: 83.42 E-value: 1.18e-16
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 259 NLVRAYLARLAIDYLAGFSLSPLLWRKLPGSK--SAGRVQSAALKLLADREEVIEAFKPQ 316
Cdd:cd00186 2 NLVNAQLARRILDRLVGFNLSRLLTKKLRRKGvlSAGRVQSPTLGLIVEREREIKAFVPE 61
|
|
| rgy |
TIGR01054 |
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial ... |
566-783 |
6.46e-16 |
|
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial thermophiles. This enzyme, a fusion of a type I topoisomerase domain and a helicase domain, introduces positive supercoiling to increase the melting temperature of DNA double strands. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273418 [Multi-domain] Cd Length: 1171 Bit Score: 83.73 E-value: 6.46e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 566 DRVDLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglgGLITYMRTDSSTVSAAAREEIRRFVAS 645
Cdd:TIGR01054 868 DVEDIAEREEERNPLPPYTTDTMLEDANRKLGLSVKETMQIAQELFEN-----GLITYHRTDSTRVSDVGMRVAKEYLAS 942
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 646 SFspsmlandeassgEGEAEKQRnvtrkrtreaSRFAQEAHEAIRPTSiELHPETLRQRLAAGlssrlagdptknmaags 725
Cdd:TIGR01054 943 RL-------------GGEYFYPR----------EWGEGGAHECIRPTR-PLDVDDLQRLILEG----------------- 981
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 1526428151 726 gereahegaQSEDLKKTRDMakgaglnaalVAVYDLIWRRTLASEMAPALRQALKISL 783
Cdd:TIGR01054 982 ---------VIELEGLTREH----------LRLYDLIFRRFMASQMRPAKVDTKEITL 1020
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
533-783 |
1.27e-12 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 72.73 E-value: 1.27e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 533 ELQADRG--KDANEPAPV-DSADVESVLENLRRMHFDRV-DLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQ 608
Cdd:PRK07219 230 EAQYFYRdlIGGHEAEKFwDEEEAEEIYEKLKGAKEATVsSVKKRERTISPPAPFNTTEFLREASKIFGISPKRAMEIAE 309
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 609 TLYEgveglGGLITYMRTDsSTVSA---AAREEIRRFVASS-FSP---SMLANDEASSGEGEAEKQrnvtrkrtreasrf 681
Cdd:PRK07219 310 KLYT-----AGYISYPRTD-NTVYPddlDPKELLKKLSKKKeYGPyaeSILEQENIKPTEGKKETT-------------- 369
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 682 aqeAHEAIRPTsielhpetlrqrlaaglssrlagdptknmaagsgeREAHEGAQSEDLKKtrdmakgaglnaalvaVYDL 761
Cdd:PRK07219 370 ---DHPPIHPV-----------------------------------DVPKREELSDDEWK----------------VYEL 395
|
250 260
....*....|....*....|..
gi 1526428151 762 IWRRTLASEMAPALRQALKISL 783
Cdd:PRK07219 396 IVRRFLATLADPAEWEYLKVEL 417
|
|
| COG1754 |
COG1754 |
Uncharacterized C-terminal domain of topoisomerase IA [Function unknown]; |
1046-1210 |
2.60e-12 |
|
Uncharacterized C-terminal domain of topoisomerase IA [Function unknown];
Pssm-ID: 441360 [Multi-domain] Cd Length: 892 Bit Score: 71.77 E-value: 2.60e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1046 AHRCTRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdm 1125
Cdd:COG1754 468 DQHFTQPPPRYTEAPLVKRMEELGIGRPSTYASILSTLADRIYV------------------------------------ 511
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1126 rmspSLRRGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEKLHPKAV 1205
Cdd:COG1754 512 ----RLDKRRLIPEDKGRLVTAFLFSFFRRYVEYDFTADLEEFLDDVSDGELDWKAVLRRFWRDFSAAYDETGDLRISEV 587
|
....*
gi 1526428151 1206 RDALE 1210
Cdd:COG1754 588 LDALE 592
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
552-803 |
4.87e-12 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 70.41 E-value: 4.87e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 552 DVESVLENLRRMHFDRV-DLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYegvegLGGLITYMRTDS-- 628
Cdd:PRK05776 246 EAKEILEEIKKTGYLKVtKVEVKIEILEPPPPFNLGDLQVEAARIYGFSPYKTQSIAEDLY-----LDGLISYPRTNSqk 320
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 629 --STVSAAareEIRRFVASSFSPSMLANDEASSGEGEAekqrnvtrkRTREASRfAQEAHEAIRPTsielhpetlrqrla 706
Cdd:PRK05776 321 lpPTLNIR---NILKGLSRSPQYRPLVNLLLKETKGVL---------KPVQGPK-DDPAHPAIYPT-------------- 373
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 707 aglssrlaGDPTKNMaagsgereahegaqsedlkkTRDMAKgaglnaalvaVYDLIWRRTLASEMAPALRQALKISLvas 786
Cdd:PRK05776 374 --------GEPPKNL--------------------SKDEFK----------LYDLIVRRFLASFAAPAVLSNTIVTL--- 412
|
250
....*....|....*...
gi 1526428151 787 AAHGHS-VAETSHARDED 803
Cdd:PRK05776 413 RVPGFPlVFSASGQRIEE 430
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
554-692 |
8.65e-09 |
|
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: 59.86 E-value: 8.65e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 554 ESVLENLRRMHFDRVDLAVSFSSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGVEglggLITYMRTDSstvsa 633
Cdd:TIGR01056 255 ENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHK----LITYPRTDS----- 325
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1526428151 634 aareeirRFVASSFSPSMLANDEASSGEGEAekQRNVTRKRTREASRFAQ----EAHEAIRPT 692
Cdd:TIGR01056 326 -------RYLPEDEKEMLLEVLDALKVITPA--LLPIKKRDELTNNRLWNdkkiEDHHAIIPT 379
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
1050-1312 |
9.30e-09 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 60.01 E-value: 9.30e-09
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1050 TRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmrmsp 1129
Cdd:PRK07219 471 TQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGYV---------------------------------------- 510
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1130 sLRRGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRddwvrvvhafwndlqakiaaaeklhpKAVRDAL 1209
Cdd:PRK07219 511 -IEGDPPRPTDLGIAVIEALEKYAPEIVSEEMTAQLEADMQAIEDGK--------------------------KKKEDVT 563
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1210 EHSlagmifgDSMPTQASEETDEKETEAtagetnaetgrGAEKARS-RATEASAKRgtdgVGSsftpplCPSCGeGVLKL 1288
Cdd:PRK07219 564 EES-------REMLKEILSELKEKRKEI-----------GDHLAGSlKAENRSLKT----IGK------CPECG-GDLII 614
|
250 260
....*....|....*....|....*
gi 1526428151 1289 RIHSRGI-FVGCSAYPRCTYTQSVP 1312
Cdd:PRK07219 615 IRTDKGSrFVGCSGYPDCRNTFPLP 639
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
575-793 |
1.77e-08 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 59.18 E-value: 1.77e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 575 SSLKPPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglgGLITYMRTDSSTVSAAAREEIRRFVASSFSPSMLAN 654
Cdd:PTZ00407 315 SVVPPPQPFTMATAIAKANRQLKYSSEMVSGCLQDLFQL-----GHITYPRTDSTRIDESALPDIYAAVKKEFGKEFLYR 389
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 655 DE---ASSGEGE----AEKQRNVTRKRTREASRF-AQEAHEAIRPTSIELHPETLrqrlaaglssrlagdptknmaagsg 726
Cdd:PTZ00407 390 LEdrtVSAQEGKgskkTGKKRSTKQKKGADTPVGnVEDAHEAIRPTNIDTTGESL------------------------- 444
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1526428151 727 ereahegaqsedlkktrdmakgaGLNAALVAVYDLIWRRTLASEMAPALRQALKISLVASAAHGHSV 793
Cdd:PTZ00407 445 -----------------------SLSPPTRAVYDLVRRNTLAVFMIPMKTEKIVATVKFTSGSGEKL 488
|
|
| rgy |
TIGR01054 |
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial ... |
1056-1188 |
3.11e-08 |
|
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial thermophiles. This enzyme, a fusion of a type I topoisomerase domain and a helicase domain, introduces positive supercoiling to increase the melting temperature of DNA double strands. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA. [DNA metabolism, DNA replication, recombination, and repair]
Pssm-ID: 273418 [Multi-domain] Cd Length: 1171 Bit Score: 58.30 E-value: 3.11e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1056 FSEASLINTLERLGIGRPSTYAAVLAALCDRLYVYPttpkkksssrlsfaasspppaapsssrspassdmrmspslRRGR 1135
Cdd:TIGR01054 1074 YTQGEIVQEMKERGIGRPSTYATIVEKLLRRGYVVE----------------------------------------SKGF 1113
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|...
gi 1526428151 1136 LAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWN 1188
Cdd:TIGR01054 1114 LIPTKLGIEVYNYLTNRYPKLVSEDRTRELEEAMDKIERGELDYLEVLESVYR 1166
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
97-122 |
1.61e-07 |
|
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: 51.41 E-value: 1.61e-07
10 20
....*....|....*....|....*.
gi 1526428151 97 DTLFLCTDPDREGEAIAWHIVASLNQ 122
Cdd:cd03363 74 DEIYLATDPDREGEAIAWHLAEVLKL 99
|
|
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
579-692 |
3.10e-07 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 54.78 E-value: 3.10e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 579 PPTPFRTATLQQAASRLLGFSPATTMRVAQTLYEGveglGGLITYMRTDSSTVSAAAREEIRRFVAssfspSMLANDEAS 658
Cdd:PRK07726 277 APLLYDLSELQIDANKRFGLSAKETLDIAQSLYET----HKLITYPRTDSRYLPEDMVATLPEVLN-----AISKVDPYL 347
|
90 100 110
....*....|....*....|....*....|....*...
gi 1526428151 659 SgegEAEKQRNVTRKrtreaSRFAQE----AHEAIRPT 692
Cdd:PRK07726 348 L---LAPPVLDPSIR-----SRAWNDkkvtAHHAIIPT 377
|
|
| zf-C4_Topoisom |
pfam01396 |
Topoisomerase DNA binding C4 zinc finger; |
1278-1313 |
4.28e-07 |
|
Topoisomerase DNA binding C4 zinc finger;
Pssm-ID: 307520 [Multi-domain] Cd Length: 39 Bit Score: 47.64 E-value: 4.28e-07
10 20 30
....*....|....*....|....*....|....*.
gi 1526428151 1278 CPSCGeGVLKLRIHSRGIFVGCSAYPRCTYTQSVPP 1313
Cdd:pfam01396 4 CPKCG-GDLVLKRGRFGKFVGCSNYPECRFTRPLKK 38
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
226-316 |
5.92e-07 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 54.24 E-value: 5.92e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 226 REGE----------EDAGGDEDEKARRSSLPEGETI-ALEGLNQ---NLVRAYLARLAIDYLAGFSLSPLLW-----RKL 286
Cdd:PRK07219 109 REGEligkeayhilREVCQVPVKRARFSSLTKKEIRkAFENPDEidfNLADAGEARQIIDLYWGAALTRFLSlsvrqLGR 188
|
90 100 110
....*....|....*....|....*....|
gi 1526428151 287 PGSKSAGRVQSAALKLLADREEVIEAFKPQ 316
Cdd:PRK07219 189 WDFLSVGRVQTPTLAFIVDREREIRAFDPE 218
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
549-648 |
1.80e-06 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 52.45 E-value: 1.80e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 549 DSADVESVLENLRRMHfDRVDLAVSFSSLKPPTPFRTATLQQAASRLlGFSPATTMRVAQTLYegvegLGGLITYMRTDs 628
Cdd:PRK07220 245 EKEEADRVFEKLGKTA-EVTEVEKGTKTDKPPTPFNTTEFISAANSI-GFSAANAMRIAESLY-----TNGYISYPRTD- 316
|
90 100
....*....|....*....|...
gi 1526428151 629 STV---SAAAREEIRRFVASSFS 648
Cdd:PRK07220 317 NTVypeSLDLREQIEIFAEGPFG 339
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
1050-1316 |
1.82e-06 |
|
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: 52.56 E-value: 1.82e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1050 TRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVYPTTPKKKsssrlsfaasspppaapsssrspassdmrmsp 1129
Cdd:COG0551 462 TTPPPRYTTELLLKKLEEEGGGGRGTTATIIILILKRRYVVLEEKKTT-------------------------------- 509
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1130 slrrgrlaPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAGRDDWVRVVHAFWNDLQAKIAAAEKLHPKAVRDAL 1209
Cdd:COG0551 510 --------PTELLVEVVLLLLLPFPKLEDTTETAEEEEALLDKEEGKEDKVVEIREEEYPFFKKLLEIAEEEGEEELSEE 581
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1210 EhslagmifgdsmptqasEETDEKeteatagetnaetgrgaekarsrateasakrgtdgvgssftpplCPSCGeGVLKLR 1289
Cdd:COG0551 582 D-----------------EVLGEK--------------------------------------------CPKCG-KPLVIK 599
|
250 260
....*....|....*....|....*..
gi 1526428151 1290 IHSRGIFVGCSAYPRCTYTQSVPPPQK 1316
Cdd:COG0551 600 KGRYGKFLGCSNYPECKYTKPLPKPEV 626
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
97-116 |
2.02e-06 |
|
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: 48.76 E-value: 2.02e-06
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
1050-1315 |
7.61e-06 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 50.62 E-value: 7.61e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1050 TRPPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVypttpkkksssrlsfaasspppaapsssrspassdmRMSP 1129
Cdd:PRK14973 462 TQPPARYSQSRLIQRMEELGLGTKSTRHEVIGKLVSRKYI------------------------------------EGNP 505
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1130 slrrgrLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIAAG---RDDWV----RVVHAFWNDLQAKIAAaeklhp 1202
Cdd:PRK14973 506 ------LRPTLVGRAVTESLEEHAGTITEPDMTQTLEEHMQQIKERkrtRDDVVtesrKMLHRAFDELEANEAV------ 573
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1203 kavrdalehslagmIFGDSMptqasEETDEketEATAGEtnaetgrgaekarsrateasakrgtdgvgssftpplCPSCG 1282
Cdd:PRK14973 574 --------------IGRDIM-----ERTAE---ELTIGP------------------------------------CPVCG 595
|
250 260 270
....*....|....*....|....*....|....*
gi 1526428151 1283 EgvlKLRIHSRGI--FVGCSAYPRCTYTQSVPPPQ 1315
Cdd:PRK14973 596 K---DLRIKHIGSsqFIGCSGYPDCTFNIGLPGTT 627
|
|
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
291-336 |
1.09e-05 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 49.78 E-value: 1.09e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 1526428151 291 SAGRVQSAALKLLADREEVIEAFKPQALSTVHATA------RLRWASPESCE 336
Cdd:PRK07726 188 SVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHLtpgerfTAKWQPSEPYQ 239
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
578-629 |
3.10e-05 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 48.69 E-value: 3.10e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|..
gi 1526428151 578 KPPTPFRTATLQQAASRLlGFSPATTMRVAQTLYegvegLGGLITYMRTDSS 629
Cdd:PRK14973 272 RAPTPFDTTTFIVAASRL-GFSAANAMRIAEDLY-----MNGYISYPRTDNT 317
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
73-117 |
4.56e-05 |
|
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR proteins. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase EC:2.7.7.6 is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases. Type II DNA topoisomerases catalyze the relaxation of DNA supercoiling by causing transient double strand breaks.
Pssm-ID: 396354 [Multi-domain] Cd Length: 93 Bit Score: 43.50 E-value: 4.56e-05
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 1526428151 73 TALDDESSFLLRTVNDVLAEVGCIDTLFLCTDPDREGEAIAWHIV 117
Cdd:pfam01751 31 HLLSLEKGPKKKALKALKELALKAKEVILATDPDREGEAIALKLL 75
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
1052-1173 |
4.57e-05 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 48.01 E-value: 4.57e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 1052 PPPRFSEASLINTLERLGIGRPSTYAAVLAALCDRLYVyPTTPKkksssrlsfaasspppaapsssrspassdmrmspsl 1131
Cdd:PTZ00407 575 PPLPHSEGTLIEELKNNGVGRPSTYPMIVKTLLARGYI-AVNPK------------------------------------ 617
|
90 100 110 120
....*....|....*....|....*....|....*....|..
gi 1526428151 1132 rrGRLAPSPRGRLVAAFLDAAVPDFVNARFTASLEESLDAIA 1173
Cdd:PTZ00407 618 --GRCETTPVGRMLVETAKSTFPSIVDIGFTAAFEKKLDRIA 657
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
234-325 |
5.00e-05 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 47.68 E-value: 5.00e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 234 GDEdEKARR---SSLPEGETIA----LEGLNQNLVRAYLARLAIDYLAGFSLSPLL---WRKLPGSK---SAGRVQSAAL 300
Cdd:PRK05776 122 GDP-KKAKRmkfSALTKSDIRRafrnLETLDYEMINAGIARHELDWLWGINVSRALmssVRDASGKRvilSAGRVQSPTL 200
|
90 100
....*....|....*....|....*
gi 1526428151 301 KLLADREEVIEAFKPQALSTVHATA 325
Cdd:PRK05776 201 KYVVEREIERNLFVPLPYFSVSIII 225
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
98-116 |
2.16e-04 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 41.09 E-value: 2.16e-04
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
82-123 |
6.51e-04 |
|
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: 39.72 E-value: 6.51e-04
10 20 30 40
....*....|....*....|....*....|....*....|..
gi 1526428151 82 LLRTVNDVLAEVGCIDTLFLCTDPDREGEAIAWHIVASLNQQ 123
Cdd:cd00188 33 LNKTRELLKRLLGEAKEVIIATDADREGEAIALRLLELLKSL 74
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
238-324 |
1.60e-03 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 42.82 E-value: 1.60e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 238 EKARRSSLPEGETIA----LEGLNQNLVRAYLARLAIDYLAGFSLS---PLLWRKLpGSK--SAGRVQSAALKLLADREE 308
Cdd:PRK07220 132 DRVRYSAITKKEIERafsnPVEVDFNLADAGHSRQVIDLVWGAALTryiSLAAGRL-GKMflSVGRVQSPTLALIVDREK 210
|
90
....*....|....*.
gi 1526428151 309 VIEAFKPQALSTVHAT 324
Cdd:PRK07220 211 EREAFVPTPYWEIYAT 226
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
253-332 |
3.15e-03 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 41.85 E-value: 3.15e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1526428151 253 LEGLNQNLVRAYLARLAIDYLAGFSLSPLLWRKLPGSKSAGRVQSAALKLLADREEVIEAFKPQALSTVHATARLRWASP 332
Cdd:PTZ00407 182 VEACDYDLANAAETRHAMDRIFGFLGSSVVRAANSQMRSIGRVQTPALILINEREDKIKAFLESNKSTFEVQAMCQFPSP 261
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
97-117 |
8.30e-03 |
|
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: 38.37 E-value: 8.30e-03
|
| |
