|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
1-215 |
2.34e-141 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 415.35 E-value: 2.34e-141
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:PRK07561 123 FNEITKNAIQEAFENPRELDINLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEE 202
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHADTLTAGKENFRLQVAQRNGSVFKP---LTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAAST 157
Cdd:PRK07561 203 YWDIHADLTTPRGDAFEARLTHLDGKKFAPvdlLNEAQAEAAVAALEGARYSVASVEDKPTTRKPSAPFTTSTLQQEASR 282
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 117956961 158 RLGYGVKKTMMLAQRLYEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASPI 215
Cdd:PRK07561 283 KLGFSVKKTMRIAQRLYEAGYITYMRTDSTNLSQEAINAARGYIGDNYGKKYLPEKPR 340
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-214 |
7.10e-114 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 335.53 E-value: 7.10e-114
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:COG0550 107 FNEITKKAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEE 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHADTLTAGKEnFRLQVAQRNGSVFKplTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAASTRLG 160
Cdd:COG0550 187 YWTIEATFKTGGGE-FTAKLVKIDGKKIL--DEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLG 263
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....
gi 117956961 161 YGVKKTMMLAQRLYEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASP 214
Cdd:COG0550 264 FSAKKTMSIAQRLYEVGLITYMRTDSVRLSEDAVAAAREYIEALYGKEYLPEKP 317
|
|
| topA_bact |
TIGR01051 |
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ... |
1-214 |
1.25e-103 |
|
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: 311.24 E-value: 1.25e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:TIGR01051 106 FNEITKKAIRAALKNPREIDMNLVNAQQARRILDRLVGYTLSPLLWKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEE 185
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHAdTLTAGKENFRLQVAQRNGSVFKP---LTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAAST 157
Cdd:TIGR01051 186 YWTIDA-TFQKGEETFEALLTEVNGKKLKAgsdLDEAEATALKEQLKGEELVVEEIEKKPKKSRPPPPFTTSTLQQEASR 264
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 117956961 158 RLGYGVKKTMMLAQRLYEG--------GYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASP 214
Cdd:TIGR01051 265 KLGFSAKKTMMIAQRLYEGvstgdgtiGLITYMRTDSTRLSNQAVNEARNLIDKNYGKEYLGPKP 329
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
24-214 |
5.44e-66 |
|
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: 208.64 E-value: 5.44e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 24 VNAQQARRFLDRVVGFMASPLLWKKV--ARGLSAGRVQSVAVKVLVEREREINAFIPEEFWDIHAdTLTAGKENFRLQVA 101
Cdd:pfam01131 7 VDAQLARRELDWLIGFNLSRLLTLKLkgNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEA-TLKDGGGVFANAKW 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 102 QRnGSVFkplTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYE-GGYIT 180
Cdd:pfam01131 86 KR-GRIF---DKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEkHGLIT 161
|
170 180 190
....*....|....*....|....*....|....*
gi 117956961 181 YMRTDSTNLSKEA-VETLREFIGSEYGDsYLPASP 214
Cdd:pfam01131 162 YPRTDSTYLSDDAtLKAILEYLTKNYGK-YLPYAP 195
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
21-216 |
2.66e-65 |
|
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: 206.30 E-value: 2.66e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 21 MPGVNAQQARRFLDRVVGFMASPLLWKKVAR--GLSAGRVQSVAVKVLVEREREINAFIPEEFWDIHadtltagkenfrl 98
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRkgVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK------------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 99 qvaqrngsvfkpltqadteaavsilekaEYEVCKREDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYEGGY 178
Cdd:cd00186 68 ----------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGL 119
|
170 180 190
....*....|....*....|....*....|....*...
gi 117956961 179 ITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASPIT 216
Cdd:cd00186 120 ITYPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLL 157
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
1-83 |
2.51e-39 |
|
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: 130.40 E-value: 2.51e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVAR-GLSAGRVQSVAVKVLVEREREINAFIPE 79
Cdd:smart00436 6 FSEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRNgVLSAGRVQTPTLGLIVEREREIKNFVPK 85
|
....
gi 117956961 80 EFWD 83
Cdd:smart00436 86 PYWE 89
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| PRK07561 |
PRK07561 |
DNA topoisomerase I subunit omega; Validated |
1-215 |
2.34e-141 |
|
DNA topoisomerase I subunit omega; Validated
Pssm-ID: 236048 [Multi-domain] Cd Length: 859 Bit Score: 415.35 E-value: 2.34e-141
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:PRK07561 123 FNEITKNAIQEAFENPRELDINLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEE 202
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHADTLTAGKENFRLQVAQRNGSVFKP---LTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAAST 157
Cdd:PRK07561 203 YWDIHADLTTPRGDAFEARLTHLDGKKFAPvdlLNEAQAEAAVAALEGARYSVASVEDKPTTRKPSAPFTTSTLQQEASR 282
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*...
gi 117956961 158 RLGYGVKKTMMLAQRLYEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASPI 215
Cdd:PRK07561 283 KLGFSVKKTMRIAQRLYEAGYITYMRTDSTNLSQEAINAARGYIGDNYGKKYLPEKPR 340
|
|
| TopA |
COG0550 |
DNA topoisomerase IA [Replication, recombination and repair]; |
1-214 |
7.10e-114 |
|
DNA topoisomerase IA [Replication, recombination and repair];
Pssm-ID: 440316 [Multi-domain] Cd Length: 541 Bit Score: 335.53 E-value: 7.10e-114
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:COG0550 107 FNEITKKAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEE 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHADTLTAGKEnFRLQVAQRNGSVFKplTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAASTRLG 160
Cdd:COG0550 187 YWTIEATFKTGGGE-FTAKLVKIDGKKIL--DEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLG 263
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....
gi 117956961 161 YGVKKTMMLAQRLYEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASP 214
Cdd:COG0550 264 FSAKKTMSIAQRLYEVGLITYMRTDSVRLSEDAVAAAREYIEALYGKEYLPEKP 317
|
|
| PRK06599 |
PRK06599 |
DNA topoisomerase I; Validated |
1-214 |
2.11e-108 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235840 [Multi-domain] Cd Length: 675 Bit Score: 325.27 E-value: 2.11e-108
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:PRK06599 113 FNEITKKAVQEAIENPRDIDMDLVDAQQARRALDYLVGFKLSPLLWKKVRRGLSAGRVQSVALRLICEREDEIEAFIPQE 192
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHADTLTAGKENFRLQVAQRNG---SVFKPLTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAAST 157
Cdd:PRK06599 193 YWTIEADLATSNGEPFTAKLVEVNGkklEKFSITNEEQAKALVKALEGQAYTVDKIEKKERKRNPPPPFITSTLQQEASR 272
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 117956961 158 RLGYGVKKTMMLAQRLYEG--------GYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASP 214
Cdd:PRK06599 273 KLGFSAKKTMRIAQKLYEGidlgegtvGLITYMRTDSVRLSNEALDEARKYITKKYGKEYLPAKP 337
|
|
| topA_bact |
TIGR01051 |
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ... |
1-214 |
1.25e-103 |
|
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: 311.24 E-value: 1.25e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:TIGR01051 106 FNEITKKAIRAALKNPREIDMNLVNAQQARRILDRLVGYTLSPLLWKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEE 185
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHAdTLTAGKENFRLQVAQRNGSVFKP---LTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAAST 157
Cdd:TIGR01051 186 YWTIDA-TFQKGEETFEALLTEVNGKKLKAgsdLDEAEATALKEQLKGEELVVEEIEKKPKKSRPPPPFTTSTLQQEASR 264
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 117956961 158 RLGYGVKKTMMLAQRLYEG--------GYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASP 214
Cdd:TIGR01051 265 KLGFSAKKTMMIAQRLYEGvstgdgtiGLITYMRTDSTRLSNQAVNEARNLIDKNYGKEYLGPKP 329
|
|
| PRK08780 |
PRK08780 |
DNA topoisomerase I; Provisional |
1-214 |
5.53e-74 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 181555 [Multi-domain] Cd Length: 780 Bit Score: 238.12 E-value: 5.53e-74
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE 80
Cdd:PRK08780 114 FTEITPRAIKEAMAKPRDIASDLVDAQQARRALDYLVGFNLSPLLWRKIQRGLSAGRVQSPALRMIVEREEEIEAFIARE 193
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 81 FWDIHADtLTAGKENFRLQVAQRNGSVFKPLTQAD---TEAAVSILEKA---EYEVCKREDRPTKSKPSAPFITSTLQQA 154
Cdd:PRK08780 194 YWSIEAD-CAHPSQPFNAKLIKLDGQKFEQFTITDgdtAEAARLRIQQAaqgTLHVTDVESKERKRNPAPPFTTSTLQQE 272
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 117956961 155 ASTRLGYGVKKTMMLAQRLYEG---------GYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASP 214
Cdd:PRK08780 273 ASRKLGFTTRRTMQVAQKLYEGvdlgdegsvGLITYMRTDSVNLSQDALAEIRDVIARDYGTASLPDQP 341
|
|
| Topoisom_bac |
pfam01131 |
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ... |
24-214 |
5.44e-66 |
|
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: 208.64 E-value: 5.44e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 24 VNAQQARRFLDRVVGFMASPLLWKKV--ARGLSAGRVQSVAVKVLVEREREINAFIPEEFWDIHAdTLTAGKENFRLQVA 101
Cdd:pfam01131 7 VDAQLARRELDWLIGFNLSRLLTLKLkgNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEA-TLKDGGGVFANAKW 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 102 QRnGSVFkplTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYE-GGYIT 180
Cdd:pfam01131 86 KR-GRIF---DKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYEkHGLIT 161
|
170 180 190
....*....|....*....|....*....|....*
gi 117956961 181 YMRTDSTNLSKEA-VETLREFIGSEYGDsYLPASP 214
Cdd:pfam01131 162 YPRTDSTYLSDDAtLKAILEYLTKNYGK-YLPYAP 195
|
|
| TOP1Ac |
cd00186 |
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ... |
21-216 |
2.66e-65 |
|
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: 206.30 E-value: 2.66e-65
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 21 MPGVNAQQARRFLDRVVGFMASPLLWKKVAR--GLSAGRVQSVAVKVLVEREREINAFIPEEFWDIHadtltagkenfrl 98
Cdd:cd00186 1 ENLVNAQLARRILDRLVGFNLSRLLTKKLRRkgVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK------------- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 99 qvaqrngsvfkpltqadteaavsilekaEYEVCKREDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYEGGY 178
Cdd:cd00186 68 ----------------------------EAVVVSVEKKEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGL 119
|
170 180 190
....*....|....*....|....*....|....*...
gi 117956961 179 ITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPASPIT 216
Cdd:cd00186 120 ITYPRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLL 157
|
|
| PRK06319 |
PRK06319 |
DNA topoisomerase I/SWI domain fusion protein; Validated |
1-214 |
6.29e-64 |
|
DNA topoisomerase I/SWI domain fusion protein; Validated
Pssm-ID: 235778 [Multi-domain] Cd Length: 860 Bit Score: 212.37 E-value: 6.29e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVAR--GLSAGRVQSVAVKVLVEREREINAFIP 78
Cdd:PRK06319 109 FNAITKGAVTEALKHPREIDMALVNAQQARRLLDRIVGYKISPILSRKLQRrsGVSAGRVQSVALKLVVDREKAIEAFVP 188
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 79 EEFWDIHAdTLTAGKEN--FRLQVAQRNGSVF-KPLTQADTE-------------AAVSILEKAEYEVCKREDRPTKSKP 142
Cdd:PRK06319 189 VEYWNIRV-HLKDPKTQktFWAHLYSVDGKKWeKEIPEGKTEdevllinskekadHIVELLESATYTVTRVESKEKRRNA 267
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 143 SAPFITSTLQQAASTRLGYGVKKTMMLAQRLYEG---------GYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLPAS 213
Cdd:PRK06319 268 YPPFITSTLQQEASRHFRFSSSRTMNIAQTLYEGvdldsegatGLITYMRTDSVRTDPEALKQVRKYIEGTFGKEFLPSS 347
|
.
gi 117956961 214 P 214
Cdd:PRK06319 348 P 348
|
|
| TOP1Bc |
smart00436 |
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ... |
1-83 |
2.51e-39 |
|
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: 130.40 E-value: 2.51e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVAR-GLSAGRVQSVAVKVLVEREREINAFIPE 79
Cdd:smart00436 6 FSEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRNgVLSAGRVQTPTLGLIVEREREIKNFVPK 85
|
....
gi 117956961 80 EFWD 83
Cdd:smart00436 86 PYWE 89
|
|
| TopG2 |
COG1110 |
Reverse gyrase [Replication, recombination and repair]; |
1-210 |
2.88e-37 |
|
Reverse gyrase [Replication, recombination and repair];
Pssm-ID: 440727 [Multi-domain] Cd Length: 1219 Bit Score: 137.41 E-value: 2.88e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARG-LSAGRVQSVAVKVLVEREREinaFIPE 79
Cdd:COG1110 787 FHEVTRKAILEALKNPREIDENLVEAQIVRRIEDRWIGFTLSQKLWKVFGNRnLSAGRVQTPVLGWIIERYEE---SRKS 863
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 80 EFWDIHAdTLTAGKENFRLQVAQRNGSVFKPLTQADtEAAVSILEKAEYEVckredrptksKPSAPFITSTLQQAASTRL 159
Cdd:COG1110 864 KKYLIIL-TLENGRLELSIEDLKEAEEVRKALEKEV-KVKVKKVEEEEEEL----------NPLPPYTTDTLLRDASRRL 931
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|.
gi 117956961 160 GYGVKKTMMLAQRLYEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYL 210
Cdd:COG1110 932 GLSAEETMRLAQDLFESGLITYHRTDSTRVSDAGIAVAKEYISERFGEEYF 982
|
|
| PRK07219 |
PRK07219 |
DNA topoisomerase I; Validated |
1-207 |
8.92e-35 |
|
DNA topoisomerase I; Validated
Pssm-ID: 235971 [Multi-domain] Cd Length: 822 Bit Score: 130.12 E-value: 8.92e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVG------FMASPllwKKVARG--LSAGRVQSVAVKVLVERERE 72
Cdd:PRK07219 135 FSSLTKKEIRKAFENPDEIDFNLADAGEARQIIDLYWGaaltrfLSLSV---RQLGRWdfLSVGRVQTPTLAFIVDRERE 211
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 73 INAFIPEEFWDIHADtLTAGKENFRLQVA--QRNGSVFkpltqaDTEAAVSILEK----AEYEVCKREDRPTKSKPSAPF 146
Cdd:PRK07219 212 IRAFDPEDYWKIEAL-LDKEAQYFYRDLIggHEAEKFW------DEEEAEEIYEKlkgaKEATVSSVKKRERTISPPAPF 284
|
170 180 190 200 210 220
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 117956961 147 ITSTLQQAASTRLGYGVKKTMMLAQRLYEGGYITYMRTDSTNL--SKEAVETLREFIG-SEYGD 207
Cdd:PRK07219 285 NTTEFLREASKIFGISPKRAMEIAEKLYTAGYISYPRTDNTVYpdDLDPKELLKKLSKkKEYGP 348
|
|
| rgy |
TIGR01054 |
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial ... |
1-210 |
3.66e-34 |
|
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: 128.79 E-value: 3.66e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVA-RGLSAGRVQSVAVKVLVEREREinafipe 79
Cdd:TIGR01054 756 FHEVTRRAILEALESPRSVDENLVKAQVVRRIEDRWIGFTLSQKLWEAFNkRWLSAGRVQTPVLGWIIDRYRE------- 828
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 80 efWDI--HADTLTAGKENFRLQVAQRNGSVFKPLTQADTEAAVSILEkaEYEvckrEDRPtkskPSAPFITSTLQQAAST 157
Cdd:TIGR01054 829 --SREkrGYLLIFALESDFRLGLEHDNRLEAKEFEKDLTWLDVEDIA--ERE----EERN----PLPPYTTDTMLEDANR 896
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|...
gi 117956961 158 RLGYGVKKTMMLAQRLYEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYL 210
Cdd:TIGR01054 897 KLGLSVKETMQIAQELFENGLITYHRTDSTRVSDVGMRVAKEYLASRLGGEYF 949
|
|
| TOP1Ac |
smart00437 |
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ... |
134-211 |
3.81e-33 |
|
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: 119.66 E-value: 3.81e-33
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 117956961 134 EDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYLP 211
Cdd:smart00437 1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKLYGKEYLD 78
|
|
| PRK07220 |
PRK07220 |
DNA topoisomerase I; Validated |
1-216 |
1.18e-28 |
|
DNA topoisomerase I; Validated
Pssm-ID: 180892 [Multi-domain] Cd Length: 740 Bit Score: 112.54 E-value: 1.18e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGfmASPLLWKKVARG------LSAGRVQSVAVKVLVEREREIN 74
Cdd:PRK07220 136 YSAITKKEIERAFSNPVEVDFNLADAGHSRQVIDLVWG--AALTRYISLAAGrlgkmfLSVGRVQSPTLALIVDREKERE 213
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 75 AFIPEEFWDIHAdTLTAGKENFrlqVAQRNGSVFKpltqaDTEAAVSILEK--AEYEVCKREDRPTKSKPSAPFITSTLQ 152
Cdd:PRK07220 214 AFVPTPYWEIYA-TLENNGETF---VAQHSTRRFW-----EKEEADRVFEKlgKTAEVTEVEKGTKTDKPPTPFNTTEFI 284
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 153 QAASTrLGYGVKKTMMLAQRLYEGGYITYMRTDST------NLsKEAVETLREFIGSEYGDSYLPASPIT 216
Cdd:PRK07220 285 SAANS-IGFSAANAMRIAESLYTNGYISYPRTDNTvypeslDL-REQIEIFAEGPFGEYAQKLLEKGELV 352
|
|
| PRK07726 |
PRK07726 |
DNA topoisomerase 3; |
53-199 |
1.14e-27 |
|
DNA topoisomerase 3;
Pssm-ID: 236078 [Multi-domain] Cd Length: 658 Bit Score: 109.48 E-value: 1.14e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 53 LSAGRVQSVAVKVLVEREREINAFIPEEFWDIHADTltAGKENFRLQVAQRNGSVFKP---LTQADTEAAVSILEKAEYE 129
Cdd:PRK07726 187 LSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEAHL--TPGERFTAKWQPSEPYQDEEgrlLDRPLAEQVVARIQGQPAK 264
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 117956961 130 VCKREDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYE-GGYITYMRTDSTNLSKEAVETLRE 199
Cdd:PRK07726 265 VTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYEtHKLITYPRTDSRYLPEDMVATLPE 335
|
|
| PRK14973 |
PRK14973 |
DNA topoisomerase I; Provisional |
1-187 |
2.55e-25 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 184936 [Multi-domain] Cd Length: 936 Bit Score: 103.00 E-value: 2.55e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFETPGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARG----LSAGRVQSVAVKVLVEREREINAF 76
Cdd:PRK14973 135 FSAITKEEIVTAFAEPTDLDFALAAAGEARQIIDLIWGASLTRFISLAAHRGgdniLSVGRVQSPTLAMIVDREKEIEAF 214
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 77 IPEEFWDIHADTLTAGKENFRLQVAQRngsvFKPLTQADT--EAAVSILEKAEYEVCKREDR-PTkskpsaPFITSTLQQ 153
Cdd:PRK14973 215 VPEKYWMLSLATEKDGEGIEARHTHGR----FTDSAAAEAayDATKEPLVVTEVKEGHKVDRaPT------PFDTTTFIV 284
|
170 180 190
....*....|....*....|....*....|....
gi 117956961 154 AAStRLGYGVKKTMMLAQRLYEGGYITYMRTDST 187
Cdd:PRK14973 285 AAS-RLGFSAANAMRIAEDLYMNGYISYPRTDNT 317
|
|
| PRK05776 |
PRK05776 |
DNA topoisomerase I; Provisional |
1-191 |
5.22e-21 |
|
DNA topoisomerase I; Provisional
Pssm-ID: 235602 [Multi-domain] Cd Length: 670 Bit Score: 90.44 E-value: 5.22e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 1 FNEITKNAIQQAFE--TPGELSMpgVNAQQARRFLDRVVGFMASPLLWK--KVARG----LSAGRVQSVAVKVLVERERE 72
Cdd:PRK05776 132 FSALTKSDIRRAFRnlETLDYEM--INAGIARHELDWLWGINVSRALMSsvRDASGkrviLSAGRVQSPTLKYVVEREIE 209
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 73 INAFIPEEFWDIhadTLTAGKEN--FRLQVaqrNGSVFKPLTQADtEAAVSILEKAEYEVCKREDRPTKSKPSAPFITST 150
Cdd:PRK05776 210 RNLFVPLPYFSV---SIIIEKNGyeFTLKY---ENKKFETKEEAK-EILEEIKKTGYLKVTKVEVKIEILEPPPPFNLGD 282
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 117956961 151 LQQAASTRLGYGVKKTMMLAQRLYEGGYITYMRTDSTNLSK 191
Cdd:PRK05776 283 LQVEAARIYGFSPYKTQSIAEDLYLDGLISYPRTNSQKLPP 323
|
|
| topB |
TIGR01056 |
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ... |
2-201 |
1.07e-19 |
|
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: 86.82 E-value: 1.07e-19
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 2 NEITKNAIQQAFET--PGELSMPGVNAQQARRFLDRVVGFMASPLLWKKVARG-----LSAGRVQSVAVKVLVEREREIN 74
Cdd:TIGR01056 134 SSLVDSSIRKAFKNlrPKSETEGLYKSGVARARADWLVGINLTRAFTKLGREAgndgvLSVGRVQTPTLAMVVKRENEIK 213
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 75 AFIPEEFWDIHAdTLTAGKENFRLQVAQRNGSVFKPLTQADTEAAVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQA 154
Cdd:TIGR01056 214 NFVGKPFYEVSA-TINKDEQEFTTEWQPYKDEEERELHEFLAENVVTDLTQKPALVTDIEKERKKTSAPLFYDLSALQED 292
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 117956961 155 ASTRLGYGVKKTMMLAQRLYE-GGYITYMRTDSTNLSKEAVETLREFI 201
Cdd:TIGR01056 293 ANKRFGISAKRTLDIAQKLYEtHKLITYPRTDSRYLPEDEKEMLLEVL 340
|
|
| PRK08173 |
PRK08173 |
DNA topoisomerase III; Validated |
56-211 |
6.94e-17 |
|
DNA topoisomerase III; Validated
Pssm-ID: 236172 [Multi-domain] Cd Length: 862 Bit Score: 78.56 E-value: 6.94e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 56 GRVQSVAVKVLVEREREINAFIPEEFWDIHADTLTA-----GK---ENFRlqvaqrnGSVFKPLTQA----DTEAAVSIL 123
Cdd:PRK08173 194 GRVQTPTLSIVVEREEKIRRFVPRDYWEVRAEFVAAagfyeGRwfdPKFK-------KDEFDPEKRAsrlwSEAAAEAIV 266
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 124 EKAEYE--VCKREDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYEG-GYITYMRTDSTNLSKEAVETLREF 200
Cdd:PRK08173 267 AACRGKpgTVTEESKPSTQLSPLLFDLTSLQREANGRFGFSAKNTLGLAQALYEKhKVLTYPRTDSRALPEDYLGTVKQT 346
|
170
....*....|..
gi 117956961 201 IGSEYGDS-YLP 211
Cdd:PRK08173 347 LEMLKESNnYLP 358
|
|
| PRK14724 |
PRK14724 |
DNA topoisomerase III; Provisional |
54-199 |
2.34e-14 |
|
DNA topoisomerase III; Provisional
Pssm-ID: 237803 [Multi-domain] Cd Length: 987 Bit Score: 71.14 E-value: 2.34e-14
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 54 SAGRVQSVAVKVLVEREREINAFIPEEFWDIHAdtltagkeNFRLQVAQRNGSVFKPL---TQADTEA------------ 118
Cdd:PRK14724 200 TVGRVQTPTLSLVVEREEKIRKFVSRDYWEIHA--------GFHAEAGEYLGKWFDPQwkkASDDPEAradrvwserear 271
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 119 AVSILEKAEYEVCKREDRPTKSKPSAPFITSTLQQAASTRLGYGVKKTMMLAQRLYE-GGYITYMRTDSTNLSKEAVETL 197
Cdd:PRK14724 272 AIADAVRGKAATVTEESKPTTQASPLLFDLTSLQREANGKFGFSAKTTLALAQSLYErHKALTYPRTDSRALPEDYLPVA 351
|
..
gi 117956961 198 RE 199
Cdd:PRK14724 352 KQ 353
|
|
| PTZ00407 |
PTZ00407 |
DNA topoisomerase IA; Provisional |
25-210 |
2.32e-12 |
|
DNA topoisomerase IA; Provisional
Pssm-ID: 173597 [Multi-domain] Cd Length: 805 Bit Score: 65.35 E-value: 2.32e-12
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 25 NAQQARRFLDRVVGFMASPLLWKKVARGLSAGRVQSVAVKVLVEREREINAFIPEE--FWDIHADTLTAGKENFRL-QVA 101
Cdd:PTZ00407 191 NAAETRHAMDRIFGFLGSSVVRAANSQMRSIGRVQTPALILINEREDKIKAFLESNksTFEVQAMCQFPSPHGTTFsQVV 270
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 117956961 102 QRNGSVFKPLTQADTEAAVS------ILEKAEYEVCKREDRPTKSK--PSAPFITSTLQQAASTRLGYGVKKTMMLAQRL 173
Cdd:PTZ00407 271 TITPDRKGGASHWATEAEARrcleqwKLNNCTGFSVPLEPKPQPSVvpPPQPFTMATAIAKANRQLKYSSEMVSGCLQDL 350
|
170 180 190
....*....|....*....|....*....|....*..
gi 117956961 174 YEGGYITYMRTDSTNLSKEAVETLREFIGSEYGDSYL 210
Cdd:PTZ00407 351 FQLGHITYPRTDSTRIDESALPDIYAAVKKEFGKEFL 387
|
|
| |
