|
Name |
Accession |
Description |
Interval |
E-value |
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
194-608 |
7.44e-150 |
|
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: 456.30 E-value: 7.44e-150
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 194 DAVDVRTELDLRTGAAITRFQTMRLQRlfpekiaDKLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKVlhtiddltv 273
Cdd:cd00186 5 NAQLARRILDRLVGFNLSRLLTKKLRR-------KGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIKE--------- 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 274 efnwarnrlfdkeacenylllclaepdprALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMTIAEKLYTKGF 353
Cdd:cd00186 69 -----------------------------AVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGL 119
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 354 ISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVIEWgPNPRNGNKSDQAHPPIHPTK------LAENLQGNEARVY 427
Cdd:cd00186 120 ITYPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGR-RNPKRGKKEQGAHEAIRPTKvaptpeLEANLSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 428 ELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIH-HYENGQRFEPTEVSLHEGATT 506
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPEEKDDEEEEPpPLKEGDELKLEEVELEEKETQ 278
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 507 APPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGLYEGYDAMELALAKPQLRAEFELDLK 586
Cdd:cd00186 279 PPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYV-EKEKKKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLD 357
|
410 420
....*....|....*....|..
gi 24585251 587 LICQGQKDPKVVLTEQIAKYKQ 608
Cdd:cd00186 358 EIAEGKKDYQEVLEEFYEEFKK 379
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
29-711 |
2.63e-139 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 444.06 E-value: 2.63e-139
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 29 LNVAEKNDAAKTIAGLLSNGAAQ--RREGYSVYnkvfDFEapvrGQNAKMVMTSVSGHMMQLAFQVSYKNWRTVDPRSLF 106
Cdd:PRK07219 3 LIIAEKNNAARRIADILSGGKAKkkRVNGVPYY----EFE----RKGEKWIVIGLSGHIVTVDFPEEYGDWRDVDPAELI 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 107 DAPVKKGVGSdyEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKpNISVYRATFSEITTVAVRRALQQLG 186
Cdd:PRK07219 75 DADPVKKITK--QNYINALKKLAKDADEIIIATDYDREGELIGKEAYHILREVC-QVPVKRARFSSLTKKEIRKAFENPD 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 187 QPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLFPEKIadklISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKVLH 266
Cdd:PRK07219 152 EIDFNLADAGEARQIIDLYWGAALTRFLSLSVRQLGRWDF----LSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEALL 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 267 TID----DLTVEFNWARNRLFDKEACEN-YLLLCLAEPdprALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKET 341
Cdd:PRK07219 228 DKEaqyfYRDLIGGHEAEKFWDEEEAEEiYEKLKGAKE---ATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRA 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 342 MTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVIEWGP-NPRNGNKSDQAHPPIHPTKLA--EN 418
Cdd:PRK07219 305 MEIAEKLYTAGYISYPRTDNTVYPDDLDPKELLKKLSKKKEYGPYAESILEQENiKPTEGKKETTDHPPIHPVDVPkrEE 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 419 LQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIHHYENGQRFEPTEV 498
Cdd:PRK07219 385 LSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDLEEGEKLKVNKI 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 499 SLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYigVLDKGFLVPGVIGMGLYEGYDAMELALAKPQLR 578
Cdd:PRK07219 465 EIEAKETQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGY--VIEGDPPRPTDLGIAVIEALEKYAPEIVSEEMT 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 579 AEFELDLKLICQGQKDPKVVLTEQIAKYKQAYQQITDKITAMDAKISARINETPAAnsavqegadgsapshgiIQSIFQC 658
Cdd:PRK07219 543 AQLEADMQAIEDGKKKKEDVTEESREMLKEILSELKEKRKEIGDHLAGSLKAENRS-----------------LKTIGKC 605
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|....
gi 24585251 659 PKCNEAPLALKPKKnqqGWY-IGCNNFPDCKNAVWLPTECKdASVLDECCPTCG 711
Cdd:PRK07219 606 PECGGDLIIIRTDK---GSRfVGCSGYPDCRNTFPLPSTGR-IKVLDEVCEKCG 655
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
187-599 |
6.65e-137 |
|
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: 423.19 E-value: 6.65e-137
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 187 QPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRlfpekiaDKLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKV-L 265
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKG-------NKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEAtL 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 266 HTIDDLTVEFNWARNRLFDKEACENYLLLCLaepDPRALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMTIA 345
Cdd:pfam01131 74 KDGGGVFANAKWKRGRIFDKEEAEAILEKLK---KGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 346 EKLYTK-GFISYPRTETNQFSKEFALAPLVEMQTGHR-DWGAFAQRVIEWGPNPRNGNKSD-QAHPPIHPTK---LAENL 419
Cdd:pfam01131 151 QKLYEKhGLITYPRTDSTYLSDDATLKAILEYLTKNYgKYLPYAPRLLKKTKGKLTVGNAKvTAHEAIRPTGdipVLPEL 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 420 QGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWS-AKQIHHYENGQRFEPTEV 498
Cdd:pfam01131 231 SDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKEdEEELPELKEGEELKVTQV 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 499 SLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGLYEGYDAMElALAKPQLR 578
Cdd:pfam01131 311 EVEEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYV-ERKKKSLVPTELGKALVEALEKFP-DLVDPELT 388
|
410 420
....*....|....*....|.
gi 24585251 579 AEFELDLKLICQGQKDPKVVL 599
Cdd:pfam01131 389 AELEEKLDEIAEGKLDWKDVL 409
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
27-601 |
1.03e-98 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 325.51 E-value: 1.03e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 27 KYLNVAEKNDAAKTIAGLLSNGaaqrregYSVynkvfdfeapvrgqnakmvmTSVSGHMMQLafqvsyknwrtvdPRSLF 106
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLGKD-------YVV--------------------TASVGHLRDL-------------PKPEL 40
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 107 DAPVKKGVGSDYEPIKRT------LEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPnisVYRATFSEITTVAVRR 180
Cdd:COG0550 41 DVDVENDFEPKYEVIPGKkkqvkeLKKLAKKADEVILATDPDREGEAIAWHLLELLGDKKP---VKRVVFNEITKKAIKE 117
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 181 ALQQLGQPDKRQSDAVDVRTELDlrtgaaitRFQTMRLQRLFPEKIADKLiSYGSCQIPTLGFVAERYKEIEAFVSEPFW 260
Cdd:COG0550 118 AFKNPRDIDMNLVDAQQARRILD--------RLVGYNLSPLLWKKVKRGL-SAGRVQSPALRLIVEREREIEAFVPEEYW 188
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 261 KIKVLHTIDDLTVEFNWAR---NRLFDKEACENYLLLCLAEPdprALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLS 337
Cdd:COG0550 189 TIEATFKTGGGEFTAKLVKidgKKILDEEEAEAILAALKGKT---FTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFS 265
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 338 AKETMTIAEKLYTKGFISYPRTETNQFSKEF--ALAPLVEMQTGhrdwGAFAqrviewGPNPR--NGNKSDQ-AHPPIHP 412
Cdd:COG0550 266 AKKTMSIAQRLYEVGLITYMRTDSVRLSEDAvaAAREYIEALYG----KEYL------PEKPRvyKTSKNAQeAHEAIRP 335
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 413 T---KLAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSA-----KQI 484
Cdd:COG0550 336 TgvtRTPESLSGDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEGKDDEeeeeeKRL 415
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 485 HHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGLyeg 564
Cdd:COG0550 416 PPLKEGEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEELGIGRPSTYASIIETLQDRGYV-EREGKRLVPTELGFIV--- 491
|
570 580 590 600
....*....|....*....|....*....|....*....|
gi 24585251 565 YDAMELA---LAKPQLRAEFELDLKLICQGQKDPKVVLTE 601
Cdd:COG0550 492 IDLLEEHfpdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEE 531
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
311-561 |
2.03e-90 |
|
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: 292.23 E-value: 2.03e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 311 KPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQT-GHRDWGAFAQR 389
Cdd:smart00437 3 KEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKlYGKEYLDLAVV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 390 VIEWGpNPRNGNKSDQAHPPIHPTK------LAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGL 463
Cdd:smart00437 83 LLKPR-KPRKGKKAQGAHEAIRPTKpiftpeLEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAKGK 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 464 VIHERNYLDVYVYDKW-SAKQIHHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERG 542
Cdd:smart00437 162 TLLFDGWLKVYPEEKKeEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTYASIIETLLDRG 241
|
250
....*....|....*....
gi 24585251 543 YIgVLDKGFLVPGVIGMGL 561
Cdd:smart00437 242 YV-TKKKKKLIPTELGIAV 259
|
|
| topA_arch |
TIGR01057 |
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ... |
31-687 |
1.65e-77 |
|
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: 269.00 E-value: 1.65e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 31 VAEKNDAAKTIAGLLSNGAAQRREGYSV-YNKVFDfeapvrgQNAKMVMTSVSGHMMQLA------FQVSYKNWRtvdPR 103
Cdd:TIGR01057 1 IAEKPKVAAKIAGALSDGRVLKKSEYGVpYWEVRR-------DGKKIIVASAVGHLFGLHpksrggYPVFDIEWV---PI 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 104 SLFDApvKKGVGSDYepiKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPnisVYRATFSEITTVAVRRALQ 183
Cdd:TIGR01057 71 FEFDK--GKGYVSKY---IKALSKLAKGADEYINACDYDIEGEVIGFKALKYFCGVER---AKRMKFSTLTKQDIRRAYA 142
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 184 QLGQPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLFPEKIadkLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIK 263
Cdd:TIGR01057 143 NPEEIDYGMVDAGMARHILDWYWGINLSRALMEAIRAAAGRWV---ILSAGRVQGPTLAFLVEREREINLFVPKPYWVIK 219
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 264 VLHTIDDLTVEFNWARNRLFDKEACENYLLLCLAEPDPRalVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMT 343
Cdd:TIGR01057 220 ATLEKGGGVFDARPEKWKIWSEEEAKSIKEELKKSPWAA--VEEVRSERSILKPPPPFDLGTLQREAYRIFGFSPKKTQS 297
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 344 IAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVIEWGP-NPRNGNKSDQAHPPIHPTKL--AENLQ 420
Cdd:TIGR01057 298 IAQELYEEALISYPRTSSQKLPPSINYRAILDNLAKGPLYREAAERLLETGVlKPVEGKKEDPAHPAIHPTGEipSQELS 377
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 421 GNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIHHYENGQRFEPTEVSL 500
Cdd:TIGR01057 378 KDEKKVYDLIVRRFLAAFSEEAIREKSKVLLRIGQEKFRLSGLRVVKLGWLEYYHYSKFEEKELPPLDRGDKIKVVRVDV 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 501 HEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgvLDKGFLVPGVIGMGLYEGYDAMELALAKPQLRAE 580
Cdd:TIGR01057 458 RVKETQPPARYDKASLIREMESRGLGTKATRARIIETLYKRGYI--EGKKSIKVTPLGEAVIETLQRYCPEIISEELTRR 535
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 581 FELDLKLICQGQKDPKVVLTEQIAKYKQAYQQITDKITAMDAKIsarinetpaansavqegadgsAPSHGIIQSIFQCPK 660
Cdd:TIGR01057 536 FESKLEDIMSGRITKDEVIDEAKKRLRKILEEFKKRLDDIGIEL---------------------GKSLGSVEVVGKCPK 594
|
650 660
....*....|....*....|....*..
gi 24585251 661 CNEaplALKPKKNQQGWYIGCNNFPDC 687
Cdd:TIGR01057 595 CGG---KLVSKYAKKGRFVGCSNYPEC 618
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
27-185 |
2.95e-46 |
|
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: 163.17 E-value: 2.95e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 27 KYLNVAEKNDAAKTIAGLLSNGAAQRREGysvynkvfdFEAPVRGQNAKMVMTSVSGHMMQLAFQVSYKNWRTVDPRS-- 104
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGKG---------RYYEFYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLEdp 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 105 LFDAPVKKGVGSDYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKpNISVYRATFSEITTVAVRRALQQ 184
Cdd:cd03362 72 LFPAPFKLKVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKCVK-RKPVKRAWFSSLTPKAIRRAFKN 150
|
.
gi 24585251 185 L 185
Cdd:cd03362 151 L 151
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
1150-1193 |
2.73e-20 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 85.15 E-value: 2.73e-20
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 24585251 1150 VMCNCGQLASQLTVRKDGPNQGRPFYACPT-REKSCGFFKWGDED 1193
Cdd:pfam06839 1 PLCPCGQRAVLLTVRKTGPNPGRQFYKCPVgREKQCGFFQWADEV 45
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
1033-1076 |
3.59e-17 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 76.29 E-value: 3.59e-17
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 24585251 1033 VLCTgCQQPARQNTVRKNGPNLGRLYYKCPKPDE--CNFFQWADEP 1076
Cdd:pfam06839 1 PLCP-CGQRAVLLTVRKTGPNPGRQFYKCPVGREkqCGFFQWADEV 45
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
31-173 |
3.34e-10 |
|
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: 58.14 E-value: 3.34e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 31 VAEKNDAAKTIAGLLSNGAaqrregysvynkvfdfeapvrgqnakMVMTSVSGHMMQLAFQvsyknwrtvdprslfdapv 110
Cdd:pfam01751 4 IVEGPSDAIALEKALGGGF--------------------------QAVVAVLGHLLSLEKG------------------- 38
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24585251 111 kkgvgsDYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPNIsvYRATFSEI 173
Cdd:pfam01751 39 ------PKKKALKALKELALKAKEVILATDPDREGEAIALKLLELKELLENAG--GRVEFSEL 93
|
|
| zf-C4_Topoisom |
pfam01396 |
Topoisomerase DNA binding C4 zinc finger; |
658-694 |
8.94e-08 |
|
Topoisomerase DNA binding C4 zinc finger;
Pssm-ID: 307520 [Multi-domain] Cd Length: 39 Bit Score: 49.18 E-value: 8.94e-08
10 20 30
....*....|....*....|....*....|....*..
gi 24585251 658 CPKCNeAPLALKPKKNqqGWYIGCNNFPDCKNAVWLP 694
Cdd:pfam01396 4 CPKCG-GDLVLKRGRF--GKFVGCSNYPECRFTRPLK 37
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
119-158 |
1.56e-06 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 46.87 E-value: 1.56e-06
10 20 30 40
....*....|....*....|....*....|....*....|
gi 24585251 119 EPIKRTLEREVRGCQgLIIWTDCDREGENIGYEIIDVCRA 158
Cdd:smart00493 35 KEQIKLLKKLAKKAE-VILATDPDREGEAIAWELAELLKP 73
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
194-608 |
7.44e-150 |
|
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: 456.30 E-value: 7.44e-150
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 194 DAVDVRTELDLRTGAAITRFQTMRLQRlfpekiaDKLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKVlhtiddltv 273
Cdd:cd00186 5 NAQLARRILDRLVGFNLSRLLTKKLRR-------KGVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIKE--------- 68
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 274 efnwarnrlfdkeacenylllclaepdprALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMTIAEKLYTKGF 353
Cdd:cd00186 69 -----------------------------AVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGL 119
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 354 ISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVIEWgPNPRNGNKSDQAHPPIHPTK------LAENLQGNEARVY 427
Cdd:cd00186 120 ITYPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLLGR-RNPKRGKKEQGAHEAIRPTKvaptpeLEANLSEDEFKLY 198
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 428 ELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIH-HYENGQRFEPTEVSLHEGATT 506
Cdd:cd00186 199 ELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPEEKDDEEEEPpPLKEGDELKLEEVELEEKETQ 278
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 507 APPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGLYEGYDAMELALAKPQLRAEFELDLK 586
Cdd:cd00186 279 PPPRYTEASLIKLMEKRGIGRPSTYASIIETLLDRGYV-EKEKKKLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLD 357
|
410 420
....*....|....*....|..
gi 24585251 587 LICQGQKDPKVVLTEQIAKYKQ 608
Cdd:cd00186 358 EIAEGKKDYQEVLEEFYEEFKK 379
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
29-711 |
2.63e-139 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 444.06 E-value: 2.63e-139
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 29 LNVAEKNDAAKTIAGLLSNGAAQ--RREGYSVYnkvfDFEapvrGQNAKMVMTSVSGHMMQLAFQVSYKNWRTVDPRSLF 106
Cdd:PRK07219 3 LIIAEKNNAARRIADILSGGKAKkkRVNGVPYY----EFE----RKGEKWIVIGLSGHIVTVDFPEEYGDWRDVDPAELI 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 107 DAPVKKGVGSdyEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKpNISVYRATFSEITTVAVRRALQQLG 186
Cdd:PRK07219 75 DADPVKKITK--QNYINALKKLAKDADEIIIATDYDREGELIGKEAYHILREVC-QVPVKRARFSSLTKKEIRKAFENPD 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 187 QPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLFPEKIadklISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKVLH 266
Cdd:PRK07219 152 EIDFNLADAGEARQIIDLYWGAALTRFLSLSVRQLGRWDF----LSVGRVQTPTLAFIVDREREIRAFDPEDYWKIEALL 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 267 TID----DLTVEFNWARNRLFDKEACEN-YLLLCLAEPdprALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKET 341
Cdd:PRK07219 228 DKEaqyfYRDLIGGHEAEKFWDEEEAEEiYEKLKGAKE---ATVSSVKKRERTISPPAPFNTTEFLREASKIFGISPKRA 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 342 MTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVIEWGP-NPRNGNKSDQAHPPIHPTKLA--EN 418
Cdd:PRK07219 305 MEIAEKLYTAGYISYPRTDNTVYPDDLDPKELLKKLSKKKEYGPYAESILEQENiKPTEGKKETTDHPPIHPVDVPkrEE 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 419 LQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIHHYENGQRFEPTEV 498
Cdd:PRK07219 385 LSDDEWKVYELIVRRFLATLADPAEWEYLKVELDVNGEIFKASGSRLVEEGWHEVYPYEKFDEKELPDLEEGEKLKVNKI 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 499 SLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYigVLDKGFLVPGVIGMGLYEGYDAMELALAKPQLR 578
Cdd:PRK07219 465 EIEAKETQPPKRYTQSSLIKEMEKRGLGTKATRHDIIEKLYKRGY--VIEGDPPRPTDLGIAVIEALEKYAPEIVSEEMT 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 579 AEFELDLKLICQGQKDPKVVLTEQIAKYKQAYQQITDKITAMDAKISARINETPAAnsavqegadgsapshgiIQSIFQC 658
Cdd:PRK07219 543 AQLEADMQAIEDGKKKKEDVTEESREMLKEILSELKEKRKEIGDHLAGSLKAENRS-----------------LKTIGKC 605
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|....
gi 24585251 659 PKCNEAPLALKPKKnqqGWY-IGCNNFPDCKNAVWLPTECKdASVLDECCPTCG 711
Cdd:PRK07219 606 PECGGDLIIIRTDK---GSRfVGCSGYPDCRNTFPLPSTGR-IKVLDEVCEKCG 655
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
187-599 |
6.65e-137 |
|
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: 423.19 E-value: 6.65e-137
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 187 QPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRlfpekiaDKLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKV-L 265
Cdd:pfam01131 1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLKG-------NKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEAtL 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 266 HTIDDLTVEFNWARNRLFDKEACENYLLLCLaepDPRALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMTIA 345
Cdd:pfam01131 74 KDGGGVFANAKWKRGRIFDKEEAEAILEKLK---KGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 346 EKLYTK-GFISYPRTETNQFSKEFALAPLVEMQTGHR-DWGAFAQRVIEWGPNPRNGNKSD-QAHPPIHPTK---LAENL 419
Cdd:pfam01131 151 QKLYEKhGLITYPRTDSTYLSDDATLKAILEYLTKNYgKYLPYAPRLLKKTKGKLTVGNAKvTAHEAIRPTGdipVLPEL 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 420 QGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWS-AKQIHHYENGQRFEPTEV 498
Cdd:pfam01131 231 SDDERKLYELIVRRFLASQMPPAVYETTTVVLEVGGEEFRASGKVILEDGWLKVYPYEKKEdEEELPELKEGEELKVTQV 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 499 SLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGLYEGYDAMElALAKPQLR 578
Cdd:pfam01131 311 EVEEKKTKPPPRYTEASLIKAMEKAGIGTPATRATIIETLLERGYV-ERKKKSLVPTELGKALVEALEKFP-DLVDPELT 388
|
410 420
....*....|....*....|.
gi 24585251 579 AEFELDLKLICQGQKDPKVVL 599
Cdd:pfam01131 389 AELEEKLDEIAEGKLDWKDVL 409
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
27-601 |
1.03e-98 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 325.51 E-value: 1.03e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 27 KYLNVAEKNDAAKTIAGLLSNGaaqrregYSVynkvfdfeapvrgqnakmvmTSVSGHMMQLafqvsyknwrtvdPRSLF 106
Cdd:COG0550 1 KKLVIVESPAKAKTIAKYLGKD-------YVV--------------------TASVGHLRDL-------------PKPEL 40
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 107 DAPVKKGVGSDYEPIKRT------LEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPnisVYRATFSEITTVAVRR 180
Cdd:COG0550 41 DVDVENDFEPKYEVIPGKkkqvkeLKKLAKKADEVILATDPDREGEAIAWHLLELLGDKKP---VKRVVFNEITKKAIKE 117
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 181 ALQQLGQPDKRQSDAVDVRTELDlrtgaaitRFQTMRLQRLFPEKIADKLiSYGSCQIPTLGFVAERYKEIEAFVSEPFW 260
Cdd:COG0550 118 AFKNPRDIDMNLVDAQQARRILD--------RLVGYNLSPLLWKKVKRGL-SAGRVQSPALRLIVEREREIEAFVPEEYW 188
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 261 KIKVLHTIDDLTVEFNWAR---NRLFDKEACENYLLLCLAEPdprALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLS 337
Cdd:COG0550 189 TIEATFKTGGGEFTAKLVKidgKKILDEEEAEAILAALKGKT---FTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGFS 265
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 338 AKETMTIAEKLYTKGFISYPRTETNQFSKEF--ALAPLVEMQTGhrdwGAFAqrviewGPNPR--NGNKSDQ-AHPPIHP 412
Cdd:COG0550 266 AKKTMSIAQRLYEVGLITYMRTDSVRLSEDAvaAAREYIEALYG----KEYL------PEKPRvyKTSKNAQeAHEAIRP 335
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 413 T---KLAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSA-----KQI 484
Cdd:COG0550 336 TgvtRTPESLSGDEFKLYDLIWKRFLASQMPPAEYETTTVTIEVGGEEFRASGKVIKFPGFLKVYGEGKDDEeeeeeKRL 415
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 485 HHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGLyeg 564
Cdd:COG0550 416 PPLKEGEKLKLKKIEPEQHFTKPPPRYTEASLVKAMEELGIGRPSTYASIIETLQDRGYV-EREGKRLVPTELGFIV--- 491
|
570 580 590 600
....*....|....*....|....*....|....*....|
gi 24585251 565 YDAMELA---LAKPQLRAEFELDLKLICQGQKDPKVVLTE 601
Cdd:COG0550 492 IDLLEEHfpdLVDYEFTAKMEEKLDEIAEGKLDWKDVLEE 531
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
311-561 |
2.03e-90 |
|
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: 292.23 E-value: 2.03e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 311 KPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQT-GHRDWGAFAQR 389
Cdd:smart00437 3 KEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKlYGKEYLDLAVV 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 390 VIEWGpNPRNGNKSDQAHPPIHPTK------LAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGL 463
Cdd:smart00437 83 LLKPR-KPRKGKKAQGAHEAIRPTKpiftpeLEKELSEDEFKLYELIWRRFLASQMPDAKYEETKVTIKIGGEKFKAKGK 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 464 VIHERNYLDVYVYDKW-SAKQIHHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERG 542
Cdd:smart00437 162 TLLFDGWLKVYPEEKKeEEIELPTLKKGDELKVEEVEVEEKETKPPARYTEASLIKLMEKRGIGRPSTYASIIETLLDRG 241
|
250
....*....|....*....
gi 24585251 543 YIgVLDKGFLVPGVIGMGL 561
Cdd:smart00437 242 YV-TKKKKKLIPTELGIAV 259
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
28-711 |
2.48e-89 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 305.53 E-value: 2.48e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 28 YLNVAEKNDAAKTIAGLLSNGAAQ--RREGYSVYnkvfdfEAPVRGQnaKMVMTSVSGHMMQLAFQVSYKNWRTVDPRSL 105
Cdd:PRK07220 2 HLIITEKNIAARRIAQILAPKKPKktRVSGVDVY------RYEDNGD--DTVVVGLSGHIVNIDFPKEYNNWQKVDARDL 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 106 FDA-----PVKKGVGSDYepikRTLEREVrgcQGLIIWTDCDREGENIGYEIIDVCRAIKPNISVYRATFSEITTVAVRR 180
Cdd:PRK07220 74 IDAeiittPTQKKIVTAL----KKLGKEA---DRVTIATDYDREGELIGVEALNIIKKVNPDIKFDRVRYSAITKKEIER 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 181 ALQQLGQPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLfpekiADKLISYGSCQIPTLGFVAERYKEIEAFVSEPFW 260
Cdd:PRK07220 147 AFSNPVEVDFNLADAGHSRQVIDLVWGAALTRYISLAAGRL-----GKMFLSVGRVQSPTLALIVDREKEREAFVPTPYW 221
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 261 KIKVLHTIDDLTVEFNWARNRLFDKEACENylllCLAEPDPRALVESVTVKPKHKWRPTPLDTVEMEKLGSrKLKLSAKE 340
Cdd:PRK07220 222 EIYATLENNGETFVAQHSTRRFWEKEEADR----VFEKLGKTAEVTEVEKGTKTDKPPTPFNTTEFISAAN-SIGFSAAN 296
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 341 TMTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEM-QTGHrdWGAFAQRVIEWGP-NPRNGNKSDQAHPPIHPTKLAE- 417
Cdd:PRK07220 297 AMRIAESLYTNGYISYPRTDNTVYPESLDLREQIEIfAEGP--FGEYAQKLLEKGElVPTRGKKETTDHPPIYPASLAKk 374
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 418 -NLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIHHYENGQRFEPT 496
Cdd:PRK07220 375 sELKEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYNAPEDRLLPELSEGEELKVK 454
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 497 EVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgvlDKGFLVPGVIGMGLYEGYDAMELALAKPQ 576
Cdd:PRK07220 455 KKEMLDKETQPPGRYGQGRLIKLMEDLGLGTKATRHEIISKLYSRAYI---HGNPIQPTNTAFAVVDALEKYAPTITKPD 531
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 577 LRAEFELDLKLICQGQKDPKVVLTEQiakyKQAYQQITDKITAMDAKISarinetpaanSAVQEGADGSapshgiiQSIF 656
Cdd:PRK07220 532 MTSRLEEDMDKIAEGKIKEDAVLEES----REMLEQVFDELDKNREKIR----------ESLREGLRED-------KIIG 590
|
650 660 670 680 690
....*....|....*....|....*....|....*....|....*....|....*
gi 24585251 657 QCPKCNEAPLALKPKKNqqGWYIGCNNFPDCKNAVWLPtECKDASVLDECCPTCG 711
Cdd:PRK07220 591 KCPLCGSDLMVRRSKRG--SRFIGCEGYPECTFSLPLP-KSGQIIVTDKVCEAHG 642
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
28-709 |
4.64e-88 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 306.77 E-value: 4.64e-88
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 28 YLNVAEKNDAAKTIAGLLSNGA---AQRREGYSVYnkVFDfeapvrgqnAKMVMtSVSGHMMQLAFQVSYKNWRTVD--P 102
Cdd:PRK14973 2 HLIIAEKNIAANRIAQILAGKTkvqVKKDGGVSTY--SFD---------DTVVV-GLRGHVVEVDFEPGYTNWRSEEhtP 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 103 RSLFDA-----PVKKGVGSDYEPIKRTLERevrgcqgLIIWTDCDREGENIGYEIIDVCRAIKPNISVYRATFSEITTVA 177
Cdd:PRK14973 70 RSLIDAdtikkPTEKKIVGLIQKLAKKADR-------VTIATDFDTEGELIGKEAYELVRAVNPKVPIDRARFSAITKEE 142
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 178 VRRALQQLGQPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLfpekiADKLISYGSCQIPTLGFVAERYKEIEAFVSE 257
Cdd:PRK14973 143 IVTAFAEPTDLDFALAAAGEARQIIDLIWGASLTRFISLAAHRG-----GDNILSVGRVQSPTLAMIVDREKEIEAFVPE 217
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 258 PFWKIKVLHTIDDLTVEFNWARNRLFDKEACEnylllcLAEPDPRALVESVTVKPKHK--WRPTPLDTVEMEKLGSRkLK 335
Cdd:PRK14973 218 KYWMLSLATEKDGEGIEARHTHGRFTDSAAAE------AAYDATKEPLVVTEVKEGHKvdRAPTPFDTTTFIVAASR-LG 290
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 336 LSAKETMTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGhrdwGAFAQRVIeW-----GPNPRNGNKSDQAHPPI 410
Cdd:PRK14973 291 FSAANAMRIAEDLYMNGYISYPRTDNTIYPKSLDLNGVLATLAK----GAFSKDVA-WvkdnrRPVPTRGKKSSTDHPPI 365
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 411 HPTKLA--ENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIHHYE 488
Cdd:PRK14973 366 HPTGVAtrEELGDDRWKLYELVVRRFLATLSPDAEWATMKVNFDAGGEPYTATGGRLLEAGWRTVYPYSEAKENILPAFA 445
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 489 NGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgvlDKGFLVPGVIGMGLYEGYDAM 568
Cdd:PRK14973 446 LGEKLPILAVNLEEKETQPPARYSQSRLIQRMEELGLGTKSTRHEVIGKLVSRKYI---EGNPLRPTLVGRAVTESLEEH 522
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 569 ELALAKPQLRAEFELDLKLICQGQKDPKVVLTEQIAKYKQAYqqitDKITAMDAKISARINETPAANsavqegadgsaps 648
Cdd:PRK14973 523 AGTITEPDMTQTLEEHMQQIKERKRTRDDVVTESRKMLHRAF----DELEANEAVIGRDIMERTAEE------------- 585
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24585251 649 hgiiQSIFQCPKCNEaPLALKPKKNQQgwYIGCNNFPDCKNAVWLP-TECKDASVLDECCPT 709
Cdd:PRK14973 586 ----LTIGPCPVCGK-DLRIKHIGSSQ--FIGCSGYPDCTFNIGLPgTTWGWAIRTDEVCPI 640
|
|
| topA_arch |
TIGR01057 |
DNA topoisomerase I, archaeal; This model describes topoisomerase I from archaea. These ... |
31-687 |
1.65e-77 |
|
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: 269.00 E-value: 1.65e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 31 VAEKNDAAKTIAGLLSNGAAQRREGYSV-YNKVFDfeapvrgQNAKMVMTSVSGHMMQLA------FQVSYKNWRtvdPR 103
Cdd:TIGR01057 1 IAEKPKVAAKIAGALSDGRVLKKSEYGVpYWEVRR-------DGKKIIVASAVGHLFGLHpksrggYPVFDIEWV---PI 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 104 SLFDApvKKGVGSDYepiKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPnisVYRATFSEITTVAVRRALQ 183
Cdd:TIGR01057 71 FEFDK--GKGYVSKY---IKALSKLAKGADEYINACDYDIEGEVIGFKALKYFCGVER---AKRMKFSTLTKQDIRRAYA 142
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 184 QLGQPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLFPEKIadkLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIK 263
Cdd:TIGR01057 143 NPEEIDYGMVDAGMARHILDWYWGINLSRALMEAIRAAAGRWV---ILSAGRVQGPTLAFLVEREREINLFVPKPYWVIK 219
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 264 VLHTIDDLTVEFNWARNRLFDKEACENYLLLCLAEPDPRalVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMT 343
Cdd:TIGR01057 220 ATLEKGGGVFDARPEKWKIWSEEEAKSIKEELKKSPWAA--VEEVRSERSILKPPPPFDLGTLQREAYRIFGFSPKKTQS 297
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 344 IAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVIEWGP-NPRNGNKSDQAHPPIHPTKL--AENLQ 420
Cdd:TIGR01057 298 IAQELYEEALISYPRTSSQKLPPSINYRAILDNLAKGPLYREAAERLLETGVlKPVEGKKEDPAHPAIHPTGEipSQELS 377
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 421 GNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDKWSAKQIHHYENGQRFEPTEVSL 500
Cdd:TIGR01057 378 KDEKKVYDLIVRRFLAAFSEEAIREKSKVLLRIGQEKFRLSGLRVVKLGWLEYYHYSKFEEKELPPLDRGDKIKVVRVDV 457
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 501 HEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgvLDKGFLVPGVIGMGLYEGYDAMELALAKPQLRAE 580
Cdd:TIGR01057 458 RVKETQPPARYDKASLIREMESRGLGTKATRARIIETLYKRGYI--EGKKSIKVTPLGEAVIETLQRYCPEIISEELTRR 535
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 581 FELDLKLICQGQKDPKVVLTEQIAKYKQAYQQITDKITAMDAKIsarinetpaansavqegadgsAPSHGIIQSIFQCPK 660
Cdd:TIGR01057 536 FESKLEDIMSGRITKDEVIDEAKKRLRKILEEFKKRLDDIGIEL---------------------GKSLGSVEVVGKCPK 594
|
650 660
....*....|....*....|....*..
gi 24585251 661 CNEaplALKPKKNQQGWYIGCNNFPDC 687
Cdd:TIGR01057 595 CGG---KLVSKYAKKGRFVGCSNYPEC 618
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
26-662 |
2.84e-68 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 243.75 E-value: 2.84e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 26 MKYLNVAEKNDAAKTIAGLLSNGAAQRREGYSVYNKVFDfeapvrgQNAKMVMTSVSGHMMQLA-----FQVSYKNWRtv 100
Cdd:PRK05776 1 GYILVIAEKPKAARKIAEALSEKPIRCRIYGVPYWIVKR-------DGKKIVVAPAAGHLFGLHtkskgFPVFDYEWK-- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 101 dPrsLFDAPVKKGVGSDYepiKRTLEREVRGCQGLIIWTDCDREGENIGYEII----DVCRAikpnisvYRATFSEITTV 176
Cdd:PRK05776 72 -P--LYEIDKGSKYTKKY---YELLSSLSKYADEFINACDYDIEGSVIGYLIIkylgDPKKA-------KRMKFSALTKS 138
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 177 AVRRALQQLGQPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLFPEKIadkLISYGSCQIPTLGFVAERYKEIEAFVS 256
Cdd:PRK05776 139 DIRRAFRNLETLDYEMINAGIARHELDWLWGINVSRALMSSVRDASGKRV---ILSAGRVQSPTLKYVVEREIERNLFVP 215
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 257 EPFWKIKVLHTIDDLTVEFNWARNRLFDKEACENYLLLCLAepDPRALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKL 336
Cdd:PRK05776 216 LPYFSVSIIIEKNGYEFTLKYENKKFETKEEAKEILEEIKK--TGYLKVTKVEVKIEILEPPPPFNLGDLQVEAARIYGF 293
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 337 SAKETMTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVI-EWGP--NPRNGNKSDQAHPPIHPT 413
Cdd:PRK05776 294 SPYKTQSIAEDLYLDGLISYPRTNSQKLPPTLNIRNILKGLSRSPQYRPLVNLLLkETKGvlKPVQGPKDDPAHPAIYPT 373
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 414 -KLAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGE--KFTANGLVIHERNYLDVYVYDKWSAKQIHHYENG 490
Cdd:PRK05776 374 gEPPKNLSKDEFKLYDLIVRRFLASFAAPAVLSNTIVTLRVPGFplVFSASGQRIEERGWLKYYPFHKFDEEELPLLKKG 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 491 QRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGLYEGYDAMEL 570
Cdd:PRK05776 454 ERVKIVDVKVRKSYTKPPSRYSKASLLKWMESVGIGTEATRARIIETLFKRGYL-TSNGKYIEVTPLGFGVAEVLEKYFP 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 571 ALAKPQLRAEFELDLKLICQGQ-------KDPKVVLTEQIAKYKqayqqitDKITAMDAKISARInetpaansavqegad 643
Cdd:PRK05776 533 DIVSVELTRDFEEKLEMIRTGKatreeviEEAKETLNKLLEEFK-------KNKDEIGEELAKAL--------------- 590
|
650
....*....|....*....
gi 24585251 644 gsapshGIIQSIFQCPKCN 662
Cdd:PRK05776 591 ------GLIKPVGKCKICG 603
|
|
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
32-688 |
3.32e-63 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 228.51 E-value: 3.32e-63
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 32 AEKNDAAKTIAGLLsnGAAQRREGYsvynkvfdFEAPvrgqnaKMVMTSVSGHMMQLA----FQVSYKNWRtvdprsLFD 107
Cdd:PRK07726 6 AEKPSVGRDIADVL--KPHKKGDGY--------IEGN------GYIVTWAIGHLLELAepeaYDERYKRWR------LED 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 108 AP---------VKKGVGSDYEPIKRTLeREVRGcqgLIIWTDCDREGENIGYEIIDVCRAIKPnisVYRATFSEITTVAV 178
Cdd:PRK07726 64 LPiipekwklvVKKKTAKQFNVVKKLL-KQATE---IVIATDADREGELIAREILDYCGVRKP---IKRLWISSLTDKAI 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 179 RRALQQLgQPDKRQ---SDAVDVRTELDLRTGAAITRFQTMRLQrlfpEKIADKLISYGSCQIPTLGFVAERYKEIEAFV 255
Cdd:PRK07726 137 KRAFANL-KPGKETiplYYSALARSRADWLVGINMTRAYTLLGR----KAGYNGVLSVGRVQTPTLALVVRRDEEIENFV 211
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 256 SEPFWKIKVlHTIDDLTVEFNW--------ARNRLFDKEACENYLLLCLAEPdprALVESVTVKPKHKWRPTPLDTVEME 327
Cdd:PRK07726 212 PKPYWEVEA-HLTPGERFTAKWqpsepyqdEEGRLLDRPLAEQVVARIQGQP---AKVTEVETKRKKEYAPLLYDLSELQ 287
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 328 KLGSRKLKLSAKETMTIAEKLY-TKGFISYPRTETNQFSKE-FALAPLVeMQ--TGHRDWGAFAQRVIEWGPNPR--NGN 401
Cdd:PRK07726 288 IDANKRFGLSAKETLDIAQSLYeTHKLITYPRTDSRYLPEDmVATLPEV-LNaiSKVDPYLLLAPPVLDPSIRSRawNDK 366
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 402 KSDqAHPPIHPTKLA---ENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIHERNYLDVYVYDK 478
Cdd:PRK07726 367 KVT-AHHAIIPTEQPpnlSKLSEDERKVYDLIARRYLAQFLPPAEYDKTTIELEIAGGTFIAKGKQVVEAGWKALLGKKE 445
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 479 WSAK---QIHHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALM-----------------EKHGIGTDATHAEHINTI 538
Cdd:PRK07726 446 EDEEkeqPLPVLAKGDELKVEKGEVKEGQTQPPKRFTEGTLLSAMeniarfvqdkelkktlkETDGLGTEATRAGIIEKL 525
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 539 KERGYIgVLDKGFLVPGVIGMGLYegyDAMELALAKPQLRAEFELDLKLICQGQKDPKVVLTEQiakyKQAYQQITDKIT 618
Cdd:PRK07726 526 FKRGYL-EKKGKYIHATDKGKQLI---DALPEELTSPDMTAKWEQALDQISEGQLSYQDFMQPL----KQWLKQLVEQAK 597
|
650 660 670 680 690 700 710
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 619 AMDAKISARINETPAansavqegadgsapshgiiqsifqCPKCNEAPLALKPKKnqqGWYIGCNNFPDCK 688
Cdd:PRK07726 598 QSSEKYKFDNLTGPK------------------------CPDCGKPMLKVKGKN---GKMLVCQDRECGK 640
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
107-714 |
2.23e-48 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 184.68 E-value: 2.23e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 107 DAPVKKGvGSD--------YEPIK------RTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCR-AIKPNISVYRATFS 171
Cdd:PRK06599 36 DLPKKKG-GVDpdndfapkYEIIEgkekvvDALKKAAKKADAVYLATDPDREGEAIAWHIAEVLKeAKLKDKNVKRVVFN 114
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 172 EITTVAVRRALQQLGQPDKRQSDAVDVRTELDLRTGAAITRFqtmrLQRLFPEKIadkliSYGSCQIPTLGFVAERYKEI 251
Cdd:PRK06599 115 EITKKAVQEAIENPRDIDMDLVDAQQARRALDYLVGFKLSPL----LWKKVRRGL-----SAGRVQSVALRLICEREDEI 185
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 252 EAFVSEPFWKIKV-------------LHTIDDLTVEfnwaRNRLFDKEACENYLLLCLAEPdprALVESVTVKPKHKWRP 318
Cdd:PRK06599 186 EAFIPQEYWTIEAdlatsngepftakLVEVNGKKLE----KFSITNEEQAKALVKALEGQA---YTVDKIEKKERKRNPP 258
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 319 TPLDTVEMEKLGSRKLKLSAKETMTIAEKLY--------TKGFISYPRTETNQFSKEfALAPlvemqtghrdwgafAQRV 390
Cdd:PRK06599 259 PPFITSTLQQEASRKLGFSAKKTMRIAQKLYegidlgegTVGLITYMRTDSVRLSNE-ALDE--------------ARKY 323
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 391 IE--WGP-----NPR---NGNKSDQ-AHPPIHPT-------KLAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHID 452
Cdd:PRK06599 324 ITkkYGKeylpaKPRvykKKSKNAQeAHEAIRPTsinrtpeSLKPYLTPDQFKLYELIWKRTVASQMAPAILDQTSVDIA 403
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 453 IAGEKFT--ANGLVIHERNYLDVYVYDK-----WSAKQIHHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGI 525
Cdd:PRK06599 404 SENGKYVfrATGSVILFPGFLKVYGESKddeeeDDEKLLPPLKEGEKLKLDELLPEQHFTEPPPRYSEASLVKKLEEYGI 483
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 526 GTDATHAEHINTIKERGYIGVLDKGFlVPGVIGM---GLYEGY--DAMELALAkpqlrAEFELDLKLICQGQKDPKVVLT 600
Cdd:PRK06599 484 GRPSTYASIISTLQDREYVELEKKRF-IPTDLGRivnDFLVEHfpKYVDYDFT-----AGLEDELDEIAEGKKDWKPVLR 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 601 E-------QIAKYKQayQQITDKITAMdakisaRINETpaansavqegadgsapshgiiqsifqCPKCNEAPLALKPKKN 673
Cdd:PRK06599 558 EfwepfisNLEKVEE--DVRTEKVTQE------ETDET--------------------------CPKCGGGPLVLKLGKN 603
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 24585251 674 qqGWYIGCNNFPDCKNAVWLPTECKDASVLDEC-----CPTCGDGY 714
Cdd:PRK06599 604 --GKFLGCSGYPECKYTKNITRDEDEPIEEEEIveeekCPKCGGPL 647
|
|
| TOPRIM_TopoIA_TopoIII |
cd03362 |
TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type ... |
27-185 |
2.95e-46 |
|
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: 163.17 E-value: 2.95e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 27 KYLNVAEKNDAAKTIAGLLSNGAAQRREGysvynkvfdFEAPVRGQNAKMVMTSVSGHMMQLAFQVSYKNWRTVDPRS-- 104
Cdd:cd03362 1 MVLIIAEKPSVAKAIAKILGGGSKKKGKG---------RYYEFYGEGGGYVVTWASGHLLELDFPEEYDPWDKVWPLEdp 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 105 LFDAPVKKGVGSDYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKpNISVYRATFSEITTVAVRRALQQ 184
Cdd:cd03362 72 LFPAPFKLKVDKGKKKQFKVLKKLAKRADEIVIATDADREGELIGREILEYAKCVK-RKPVKRAWFSSLTPKAIRRAFKN 150
|
.
gi 24585251 185 L 185
Cdd:cd03362 151 L 151
|
|
| TOPRIM_TopoIA |
cd01028 |
TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the ... |
27-185 |
5.92e-43 |
|
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: 153.15 E-value: 5.92e-43
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 27 KYLNVAEKNDAAKTIAGLLSNGAAQRREGYsvynkvfdfeapvrgQNAKMVMTSVSGHMMQLAFQVSYKNWRTVDPRSLF 106
Cdd:cd01028 1 KVLIIAEKPSKAKTIAKILGKGSKKKGFYG---------------EGGGYVVTASVGHLLELPFPEEYVDWDKDWPLELF 65
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24585251 107 DAPVKKGVGSDYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAikPNISVYRATFSEITTVAVRRALQQL 185
Cdd:cd01028 66 PFEPKYVVIPDKKKQLKALKKLAKKADEIVLATDPDREGELIAWEILEVLKC--DNKPVKRAWFSEITPKAIREAFKNL 142
|
|
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
100-705 |
4.57e-41 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 164.20 E-value: 4.57e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 100 VDPRSLFDA-----PVKKGVGSDyepIKRTLErevrGCQGLIIWTDCDREGENIGYEIIDVCRaiKPNISVYRATFSEIT 174
Cdd:PRK07561 57 VDPDHDFEAlyevlPGKEKVVSE---LKKAAK----DADELYLATDPDREGEAIAWHLLEVLG--GDDVPVKRVVFNEIT 127
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 175 TVAVRRALQQLGQPDKRQSDAVDVRteldlrtgaaitRFqtmrLQRLF-----P---EKIADKLiSYGSCQIPTLGFVAE 246
Cdd:PRK07561 128 KNAIQEAFENPRELDINLVNAQQAR------------RF----LDRLVgymvsPllwKKIARGL-SAGRVQSVAVRLIVE 190
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 247 RYKEIEAFVSEPFWKIKV-LHTIDDLTVEFnwarnRL--FDKEACENYLLlcLAEPDPRALVESVTVKpkhKW------- 316
Cdd:PRK07561 191 REREIEAFVPEEYWDIHAdLTTPRGDAFEA-----RLthLDGKKFAPVDL--LNEAQAEAAVAALEGA---RYsvasved 260
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 317 RPT------PLDTVEMEKLGSRKLKLSAKETMTIAEKLYTKGFISYPRTETNQFSKEfAlaplVEMqtghrdwgafAQRV 390
Cdd:PRK07561 261 KPTtrkpsaPFTTSTLQQEASRKLGFSVKKTMRIAQRLYEAGYITYMRTDSTNLSQE-A----INA----------ARGY 325
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 391 IE--WG-----PNPRN-GNKSD---QAHPPIHPTKLA------ENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDI 453
Cdd:PRK07561 326 IGdnYGkkylpEKPRQySSKAKnaqEAHEAIRPSDVFrtpdqlKGLEGDAQRLYELIWKRFVASQMAPARYDSTTVTIAA 405
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 454 AGEKFTANGLVIHERNYLDVYVYDKWSA-----KQIHHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTD 528
Cdd:PRK07561 406 GDAELRATGRVLRFDGFLKVYVEGRDDAlddedRRLPALKVGDALTLEKLDPTQHFTKPPARYSEASLVKELEKLGIGRP 485
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 529 ATHAEHINTIKERGYIgVLDKGFLVPGVIGM---GLYEG-------YD---AMelalakpqlraEFELDlkLICQGQKDP 595
Cdd:PRK07561 486 STYASIISTIQDRGYV-RLENRRFYPEKMGRivtDRLEEffprlvdYDftaRM-----------EEELD--DIANGEADW 551
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 596 KVVLTEqiaKYKQAYQQItdkitamdAKISARINEtpaansavqegaDGSAPSHGIIQSIfQCPKCNEaPLALKPKKNqq 675
Cdd:PRK07561 552 KPVLDD---FYKDFSQQL--------EKAEELREE------------GGMRPNQMVITDR-DCPTCGR-GMGIRTGKT-- 604
|
650 660 670
....*....|....*....|....*....|...
gi 24585251 676 GWYIGCNNF---PDCKNAVWLPTECKDASVLDE 705
Cdd:PRK07561 605 GVFLGCSGYalkERCKTTRNLTPEEETLNVLEG 637
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
117-720 |
9.89e-34 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 140.73 E-value: 9.89e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 117 DYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVcraIKPNISVYRATFSEITTVAVRRALQQLGQPDKRQSDAV 196
Cdd:PRK06319 59 DKEEVINKICKLAKKCDVVYLSPDPDREGEAIAWHIANQ---LPKNTKIQRISFNAITKGAVTEALKHPREIDMALVNAQ 135
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 197 DVRTELDLRTGAAITRFQTMRLQRlfpekiaDKLISYGSCQIPTLGFVAERYKEIEAFVSEPFWKIKVlHTIDDLTVEFN 276
Cdd:PRK06319 136 QARRLLDRIVGYKISPILSRKLQR-------RSGVSAGRVQSVALKLVVDREKAIEAFVPVEYWNIRV-HLKDPKTQKTF 207
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 277 WAR-----NRLFDKEA----CENYLLLCLAEPDPRALVE----------SVTVKPKHKWRPTPLDTVEMEKLGSRKLKLS 337
Cdd:PRK06319 208 WAHlysvdGKKWEKEIpegkTEDEVLLINSKEKADHIVEllesatytvtRVESKEKRRNAYPPFITSTLQQEASRHFRFS 287
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 338 AKETMTIAEKLY---------TKGFISYPRTETNQFSKEfALAPLVEMQTGHrdwgaFAQRVIEWGPNPRNGNKSDQ-AH 407
Cdd:PRK06319 288 SSRTMNIAQTLYegvdldsegATGLITYMRTDSVRTDPE-ALKQVRKYIEGT-----FGKEFLPSSPNVYTTKKMAQdAH 361
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 408 PPIHPTKLA---ENLQG----NEARVYELVVRHFLACVSKDAVgSETLVhIDIAGEK---FTANGLVIHERNYLDVY--- 474
Cdd:PRK06319 362 EAIRPTDITltpEKLRSklteDQYKLYSLIWKRFVASQMIPAI-YDTLA-IRITTNKgidLRATGSLLKFKGFLAVYeek 439
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 475 ---VYDKWSAKQIHHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIgVLDKGF 551
Cdd:PRK06319 440 rddEGDEEENIHLPKLHEQDVLTKEELSAEQAFTKPLPRFTEASLVKELEKSGIGRPSTYATIMNKIQSREYT-LKENQR 518
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 552 LVPGVIGMGLYEGYDAMELALAKPQLRAEFELDLKLICQGQKDPKVVLTE--------QIAKYKQAYqqITDKITAMD-- 621
Cdd:PRK06319 519 LRPTELGKIISQFLETNFPRIMDIGFTALMEDELELIADNKKPWKLLLQEfwelflpvVVTAEKEAF--IPRIVTEIDcp 596
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 622 -------AKISAR------INETPAAN--SAVQE----------GADGSAPshgiiqsifqCPKCNEaplALKPKKNQQG 676
Cdd:PRK06319 597 kchkgklVKIWAKnryfygCSEYPECDykTSEEEltfnkedyaeDTPWDSP----------CPLCGG---EMKVRHGRFG 663
|
650 660 670 680
....*....|....*....|....*....|....*....|....*.
gi 24585251 677 WYIGCNNFPDCKNAVWLPTECKDASVLDEC--CPTCGDGYRMLKFR 720
Cdd:PRK06319 664 TFLGCENYPECRGIINIHKKGEEGIEPEETvpCPAIGCTGHIVKRR 709
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
100-627 |
3.63e-33 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 138.74 E-value: 3.63e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 100 VDPRSlfdapvkkGVGSDYEPIKRTlEREV-------RGCQGLIIWTDCDREGENIGYEIIDVC--RAIKPNISVYRATF 170
Cdd:PRK08780 44 VDPEN--------GFAMRYDLIDKN-EKHVeaiakaaKSADDLYLATDPDREGEAISWHLAEILkeRGLLKDKPMQRVVF 114
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 171 SEITTVAVRRALQQlgqPDKRQSDAVDV---RTELDLRTGaaitrfqtMRLQRLFPEKIADKLiSYGSCQIPTLGFVAER 247
Cdd:PRK08780 115 TEITPRAIKEAMAK---PRDIASDLVDAqqaRRALDYLVG--------FNLSPLLWRKIQRGL-SAGRVQSPALRMIVER 182
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 248 YKEIEAFVSEPFWKIKV------------LHTIDDLTVE-FNwarnrLFDKEACENYLLLCLAEPDPRALVESVTVKPKH 314
Cdd:PRK08780 183 EEEIEAFIAREYWSIEAdcahpsqpfnakLIKLDGQKFEqFT-----ITDGDTAEAARLRIQQAAQGTLHVTDVESKERK 257
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 315 KWRPTPLDTVEMEKLGSRKLKLSAKETMTIAEKLY---------TKGFISYPRTETNQFSKEfALAPLVEMQTGHrdwga 385
Cdd:PRK08780 258 RNPAPPFTTSTLQQEASRKLGFTTRRTMQVAQKLYegvdlgdegSVGLITYMRTDSVNLSQD-ALAEIRDVIARD----- 331
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 386 FAQRVIEWGPNP-RNGNKSDQ-AHPPIHPT-------KLAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGE 456
Cdd:PRK08780 332 YGTASLPDQPNTyKTKSKNAQeAHEAVRPTsalrtpaQVARFLSDDQRRLYELIWKRAVACQMIPATLNTVSVDLAAGSE 411
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 457 K-FTANGLVIHERNYLDVYVYDKWSAKQiHHYENGQRFEPTE----VSLHEGA-----TTAPPLLTEADLIALMEKHGIG 526
Cdd:PRK08780 412 HvFRATGSTVVVPGFLAVYEEGKDDKSA-EDEDEGRKLPPMKegdnVPLERIRaeqhfTEPPPRYTEASLVKALEEYGIG 490
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 527 TDATHAEHINTIKERGYIgVLDKGFLVPGVIGMGL----------YEGYDamelalakpqLRAEFELDLKLICQGQKDPK 596
Cdd:PRK08780 491 RPSTYASIISTLQFRKYV-EMEGRRFRPTDVGRAVnkfltghftrYVDYD----------FTARLEDDLDAVSRGEKEWI 559
|
570 580 590
....*....|....*....|....*....|.
gi 24585251 597 VVLTEQIAKYKQAYQQITDKITAMDAkISAR 627
Cdd:PRK08780 560 PLMEKFWGPFKELVEEKKDSVDRTEA-GQVR 589
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
27-617 |
4.58e-28 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 122.47 E-value: 4.58e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 27 KYLNVAEKNDAAKTIAGLLsnGAAQRREGYsvynkvfdFEapvrgqNAKMVMTSVSGHMMQLA----FQVSYKNWR---- 98
Cdd:PRK08173 3 KALIIAEKPSVANDIARAL--GGFTKHDEY--------FE------SDEYVLSSAVGHLLEIAapeeYEVKRGKWSfahl 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 99 -TVDPRslFD-APVKKgVGSDYEPIKRTLERevRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPnisVYRATFSEITTV 176
Cdd:PRK08173 67 pVIPPH--FDlNPIAK-TESRLKVLTKLIKR--KDVTRLINACDAGREGELIFRLIAQHAKAKKP---VKRLWLQSMTPQ 138
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 177 AVRRALQQLGQPDKRQS--DAVDVRTELDLRTGAAITRFQTMrlqrlFPEKIAD-KLISYGSCQIPTLGFVAERYKEIEA 253
Cdd:PRK08173 139 AIRDGFANLRSDEDMQPlaDAARCRSEADWLVGINGTRAMTA-----FNSKGGGfFLTTVGRVQTPTLSIVVEREEKIRR 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 254 FVSEPFWKIKVLHTIDDLTVEFNW-------------AR-NRLFDKEACENYLLLCLAEPDpralveSVT--VKPKHKWR 317
Cdd:PRK08173 214 FVPRDYWEVRAEFVAAAGFYEGRWfdpkfkkdefdpeKRaSRLWSEAAAEAIVAACRGKPG------TVTeeSKPSTQLS 287
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 318 PTPLDTVEMEKLGSRKLKLSAKETMTIAEKLYTK-GFISYPRTETNQFSKEFaLAPL---VEMQTGHRDWGAFAQRVIEW 393
Cdd:PRK08173 288 PLLFDLTSLQREANGRFGFSAKNTLGLAQALYEKhKVLTYPRTDSRALPEDY-LGTVkqtLEMLKESNNYLPHAKQILDK 366
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 394 G---PNPR---NGNKSDqaHPPIHPTKLA-ENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIH 466
Cdd:PRK08173 367 GwvkPNKRifdNSKISD--HFAIIPTLQApKSLSEPEQKLYDLVVKRFLAVFFPAAEFLVTTRITEVAGHHFKTEGKVLV 444
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 467 ERNYLDVYVYDKWSA-KQIHHYENGQRFEPTEVSLHEGATTAPPLLTEADLIALME----------------KHGIGTDA 529
Cdd:PRK08173 445 NPGWLAVYGKEAQGAdANLVPVQKGEKVKTDKIEAVALTTKPPARYNEATLLSAMEgagklveddelreamaEKGLGTPA 524
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 530 THAEHINTIKERGYIgVLDKGFLVPGVIG---MGLYEGYDAMElaLAKPQLRAEFELDLKLICQGQKDPKVVLTEqIAky 606
Cdd:PRK08173 525 TRAAIIEGLLGEKYL-VREGRELIPTAKAfqlMTLLRGLGVEE--LTSPELTGEWEYKLSQIERGKLSRDAFMQE-IA-- 598
|
650
....*....|.
gi 24585251 607 kQAYQQITDKI 617
Cdd:PRK08173 599 -QMTQQIVKRA 608
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
165-261 |
3.13e-27 |
|
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: 106.13 E-value: 3.13e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 165 VYRATFSEITTVAVRRALQQLGQPDKRQSDAVDVRTELDLRTGAAITRFQTmrlqrlfpEKIADKLISYGSCQIPTLGFV 244
Cdd:smart00436 1 IKRIEFSEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLT--------KKLRNGVLSAGRVQTPTLGLI 72
|
90
....*....|....*..
gi 24585251 245 AERYKEIEAFVSEPFWK 261
Cdd:smart00436 73 VEREREIKNFVPKPYWE 89
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
26-614 |
1.32e-24 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 111.59 E-value: 1.32e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 26 MKYLNVAEKNDAAKTIAGLLS--NGAAQRREGYsvynkvfdFEapvrgqNAKMVMTSVSGHMMQLA----FQV-----SY 94
Cdd:PRK14724 1 TKTLVIAEKPSVAQDIVRALTpvAGKFEKHDEH--------FE------SDSYVVTSAVGHLVEIQapeeFDVkrgkwSF 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 95 KNWRTVDPRslFD-APVKKGVGSDYEPIKRTLEREVrgcQGLIIWTDCDREGENIGYEIIDVCRAIKPNIS--VYRATFS 171
Cdd:PRK14724 67 ANLPVIPPY--FDlKPVDKTKTRLNAVVKLAKRKDV---TELVNACDAGREGELIFRLIEQYAGGAKGGLGkpVKRLWLQ 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 172 EITTVAVRRALQQLGQPDKRQ--SDAVDVRTELDLRTGAAITRFQTMRLQR---LFpekiadkLISYGSCQIPTLGFVAE 246
Cdd:PRK14724 142 SMTPQAIRDGFDNLRSDAQMQglASAARSRSEADWLVGINGTRAMTAFNSRdggFF-------LTTVGRVQTPTLSLVVE 214
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 247 RYKEIEAFVSEPFWKIKVlhTIDDLTVEF-------NWARNRLfDKEACENYLllcLAEPDPRALVESV-----TV---- 310
Cdd:PRK14724 215 REEKIRKFVSRDYWEIHA--GFHAEAGEYlgkwfdpQWKKASD-DPEARADRV---WSEREARAIADAVrgkaaTVtees 288
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 311 KPKHKWRPTPLDTVEMEKLGSRKLKLSAKETMTIAEKLYTK-GFISYPRTETNQFSKEFalAPLV----EM--QTGHRDW 383
Cdd:PRK14724 289 KPTTQASPLLFDLTSLQREANGKFGFSAKTTLALAQSLYERhKALTYPRTDSRALPEDY--LPVAkqtfEMlaTSGMRHL 366
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 384 GAFAQRVIEWG---PNPR---NGNKSDqaHPPIHPTKLAEN-LQGNEARVYELVVRHFLACVSKDAvgsETLVHIDI--- 453
Cdd:PRK14724 367 APFAQQALDGNyvrPSKRifdNSKVSD--HFAIIPTTQAPSgLSEAEQKLYDLVVRRFMAVFFPSA---EYQVTTRIsqv 441
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 454 AGEKFTANGLVIHERNYLDvyVYDKWSAKQIHHYENGQRFEP-----------TEVSLHEGATTAPPL-LTEADLIALME 521
Cdd:PRK14724 442 VGHSFKTEGKVLVKPGWLA--IYGKEAANEVEDAKDGDKGQPlvpvkpgemvrTEFAEAKGLKTKPPArYSEATLLGAME 519
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 522 ----------------KHGIGTDATHAEHINTIKERGYIgvLDKGF-LVPGVIG---MGLYEGYDAMElaLAKPQLRAEF 581
Cdd:PRK14724 520 sagkqidddelreamqEKGLGTPATRAAIIEGLLTEKYM--LREGReLIPTAKAfqlMTLLRGLGVEE--LSRAELTGEW 595
|
650 660 670
....*....|....*....|....*....|....*....
gi 24585251 582 ELDLKLICQGQKDPKV------VLTEQIAKYKQAYQQIT 614
Cdd:PRK14724 596 EYKLAQMEKGQLSREAfmqqiaAMTEKLVKKAKEYDRDT 634
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
1150-1193 |
2.73e-20 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 85.15 E-value: 2.73e-20
10 20 30 40
....*....|....*....|....*....|....*....|....*
gi 24585251 1150 VMCNCGQLASQLTVRKDGPNQGRPFYACPT-REKSCGFFKWGDED 1193
Cdd:pfam06839 1 PLCPCGQRAVLLTVRKTGPNPGRQFYKCPVgREKQCGFFQWADEV 45
|
|
| zf-GRF |
pfam06839 |
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding ... |
1033-1076 |
3.59e-17 |
|
GRF zinc finger; This presumed zinc binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to pfam01396.
Pssm-ID: 462017 Cd Length: 45 Bit Score: 76.29 E-value: 3.59e-17
10 20 30 40
....*....|....*....|....*....|....*....|....*.
gi 24585251 1033 VLCTgCQQPARQNTVRKNGPNLGRLYYKCPKPDE--CNFFQWADEP 1076
Cdd:pfam06839 1 PLCP-CGQRAVLLTVRKTGPNPGRQFYKCPVGREkqCGFFQWADEV 45
|
|
| YrdD |
COG0551 |
DNA topoisomerase I, ssDNA-binding Zn-finger and Zn-ribbon domains [Replication, recombination ... |
100-711 |
3.89e-15 |
|
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: 80.29 E-value: 3.89e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 100 VDPRSLFDAPVKKGVGSDYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPNISVYRATFSEITTVAVR 179
Cdd:COG0551 53 LKKLVENEKLIAELDIKDLKKLKKDKKKKAKALAAALAAADDDAIEAAAAADEEEALKAAEALEAIRKAVVEEVKSRARK 132
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 180 RALQQLGQPDKRQSDAVDVRTELDLRTGAAITRFQTMRLQRLFPEKIADKLISYGSCQIptlgfVAERYKEIEAFVSEPF 259
Cdd:COG0551 133 RAARAPADVAAAAAAAALARLLLLAAASRALRLLLLLAAGRLRLLSAVAAGLLELEELL-----KEFEEEEEEEAAEEEE 207
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 260 WKIKVLHTIDDLTVEFNWARNRLFDKEACENYLLLCLAEPDPRALVESVTVKPKHKWRPTPLDTVEMEKLGSRKLKLSAK 339
Cdd:COG0551 208 EEEEAKKKKEEDKKKKKKKKKKDKEEETKAIKKKKKAAEAVLAAKKAAKEAKAKKELPTTTTDALPEALATTSLTAAAAA 287
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 340 ET------MTIAEKLYTKGFISYPRTETNQFSKEFALAPLVEMQTGHRDWGAFAQRVIEWGPNPRNGNKSDQAHPPIHPT 413
Cdd:COG0551 288 SAlaaallEEEGELLYTGGYIRYTRTPKSSEADALAALEALKKIAEEPPDERAKKKKKKAKKKKASEAKETTDHPPIPPT 367
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 414 K---LAENLQGNEARVYELVVRHFLACVSKDAVGSETLVHIDIAGEKFTANGLVIhERNYLDVYVYDKWSAKQIHHYEN- 489
Cdd:COG0551 368 TaaaLLELLEDRKLLLELLVRRRFAAAADLAKVEELTKVEEADEEELVEAEGGLL-EVLGEEEEDDEDEEEELLLPPLEe 446
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 490 GQRFEPTEVSLHEGATTAPPLLTEADLIALMEKHGIGTDATHAEHINTIKERGYIGVLDKGFLVPGVIGmglyEGYDAME 569
Cdd:COG0551 447 GEPLLLEELLLEKQTTTPPPRYTTELLLKKLEEEGGGGRGTTATIIILILKRRYVVLEEKKTTPTELLV----EVVLLLL 522
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 570 LALAKPQLRAEFELDLKLICQGQKDPKVVLTEQIAKYKQAYQQITD-KITAMDAKISARINETpaansavqegadgsaps 648
Cdd:COG0551 523 LPFPKLEDTTETAEEEEALLDKEEGKEDKVVEIREEEYPFFKKLLEiAEEEGEEELSEEDEVL----------------- 585
|
570 580 590 600 610 620
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24585251 649 hGIIqsifqCPKCNeAPLALKpkKNQQGWYIGCNNFPDCKNAVWLPTEckdaSVLDECCPTCG 711
Cdd:COG0551 586 -GEK-----CPKCG-KPLVIK--KGRYGKFLGCSNYPECKYTKPLPKP----EVTGVKCPKCG 635
|
|
| Toprim |
pfam01751 |
Toprim domain; This is a conserved region from DNA primase. This corresponds to the Toprim ... |
31-173 |
3.34e-10 |
|
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: 58.14 E-value: 3.34e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 31 VAEKNDAAKTIAGLLSNGAaqrregysvynkvfdfeapvrgqnakMVMTSVSGHMMQLAFQvsyknwrtvdprslfdapv 110
Cdd:pfam01751 4 IVEGPSDAIALEKALGGGF--------------------------QAVVAVLGHLLSLEKG------------------- 38
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24585251 111 kkgvgsDYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPNIsvYRATFSEI 173
Cdd:pfam01751 39 ------PKKKALKALKELALKAKEVILATDPDREGEAIALKLLELKELLENAG--GRVEFSEL 93
|
|
| TOPRIM_TopoIA_TopoI |
cd03363 |
TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TOPRIM) domain found in members of the type IA ... |
77-184 |
9.62e-10 |
|
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: 57.57 E-value: 9.62e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 77 VMTSVsGHMMQLAfqvsyKNWRTVDPRSLFDAPVKKgVGSDYEPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVc 156
Cdd:cd03363 25 VLASV-GHIRDLP-----KKGLGVDGEDDGFEPKYV-VIPGKKKVVKELKKLAKKADEIYLATDPDREGEAIAWHLAEV- 96
|
90 100
....*....|....*....|....*...
gi 24585251 157 raIKPNISVYRATFSEITTVAVRRALQQ 184
Cdd:cd03363 97 --LKLKKNVKRVVFNEITKEAIKEALKN 122
|
|
| zf-C4_Topoisom |
pfam01396 |
Topoisomerase DNA binding C4 zinc finger; |
658-694 |
8.94e-08 |
|
Topoisomerase DNA binding C4 zinc finger;
Pssm-ID: 307520 [Multi-domain] Cd Length: 39 Bit Score: 49.18 E-value: 8.94e-08
10 20 30
....*....|....*....|....*....|....*..
gi 24585251 658 CPKCNeAPLALKPKKNqqGWYIGCNNFPDCKNAVWLP 694
Cdd:pfam01396 4 CPKCG-GDLVLKRGRF--GKFVGCSNYPECRFTRPLK 37
|
|
| TOPRIM_TopoIA_RevGyr |
cd03361 |
TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA ... |
29-183 |
1.39e-07 |
|
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: 52.70 E-value: 1.39e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 29 LNVAEKNDAAKTIAGLLSNGAAQRREGYSVYnkvfdfEAPVrgQNAKMVMTSVSGHMMQLA-----FQVSYKN------- 96
Cdd:cd03361 3 LMIVESPNKARTIANFFGRPSVRRLGGLVVY------EVST--GDGVLMITASGGHVYDLVtkeggHGVVEDDgryvpvy 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24585251 97 ---WRTVDPRSLF--DAPVKKGVGSDYEPIK-------RTLEREVrgcQGLIIWTDCDREGENIGYeiiDVCRAIKP-NI 163
Cdd:cd03361 75 dsiKRCRDCGYQFteDSDKCPRCGSENIDDKletlealRELALEV---DEVLIATDPDTEGEKIAW---DVYLALRPyNK 148
|
170 180
....*....|....*....|
gi 24585251 164 SVYRATFSEITTVAVRRALQ 183
Cdd:cd03361 149 NIKRAEFHEVTRRAILEALR 168
|
|
| TOPRIM |
smart00493 |
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins; |
119-158 |
1.56e-06 |
|
topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins;
Pssm-ID: 214695 [Multi-domain] Cd Length: 75 Bit Score: 46.87 E-value: 1.56e-06
10 20 30 40
....*....|....*....|....*....|....*....|
gi 24585251 119 EPIKRTLEREVRGCQgLIIWTDCDREGENIGYEIIDVCRA 158
Cdd:smart00493 35 KEQIKLLKKLAKKAE-VILATDPDREGEAIAWELAELLKP 73
|
|
| TOPRIM |
cd00188 |
Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type ... |
119-165 |
2.99e-06 |
|
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: 46.27 E-value: 2.99e-06
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 24585251 119 EPIKRTLEREVRGCQGLIIWTDCDREGENIGYEIIDVCRAIKPNISV 165
Cdd:cd00188 34 NKTRELLKRLLGEAKEVIIATDADREGEAIALRLLELLKSLGKKVRR 80
|
|
| |
