NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|289498515|gb|ADC99296|]
View 

DNA topoisomerase I, partial [Vibrio cyclitrophicus]

Protein Classification

type I DNA topoisomerase( domain architecture ID 1000362)

DNA topoisomerase I is a type IA DNA topoisomerase that releases the supercoiling and torsional tension of DNA, which is introduced during DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex

EC:  5.6.2.1
Gene Ontology:  GO:0003917|GO:0003677|GO:0006265|GO:0046872
PubMed:  19208647|17293019|9748482|7770916|12042765
SCOP:  4007652|4002819

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
PRK07561 super family cl35595
DNA topoisomerase I subunit omega; Validated
 1-218 1.54e-147

DNA topoisomerase I subunit omega; Validated


The actual alignment was detected with superfamily member PRK07561:

Pssm-ID: 236048 [Multi-domain]  Cd Length: 859  Bit Score: 431.52  E-value: 1.54e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:PRK07561 124 NEITKNAIQEAFENPRELDINLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEEY 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  81 WDVHADTKTAEKTDFRLQVAQKDGVAFKPD---NEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTR 157
Cdd:PRK07561 204 WDIHADLTTPRGDAFEARLTHLDGKKFAPVdllNEAQAEAAVAALEGARYSVASVEDKPTTRKPSAPFTTSTLQQEASRK 283

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 289498515 158 LGYGVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVYGS 218
Cdd:PRK07561 284 LGFSVKKTMRIAQRLYEAGYITYMRTDSTNLSQEAINAARGYIGDNYGKKYLPEKPRQYSS 344
 
Name Accession Description Interval E-value
PRK07561 PRK07561
DNA topoisomerase I subunit omega; Validated
 1-218 1.54e-147

DNA topoisomerase I subunit omega; Validated


Pssm-ID: 236048 [Multi-domain]  Cd Length: 859  Bit Score: 431.52  E-value: 1.54e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:PRK07561 124 NEITKNAIQEAFENPRELDINLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEEY 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  81 WDVHADTKTAEKTDFRLQVAQKDGVAFKPD---NEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTR 157
Cdd:PRK07561 204 WDIHADLTTPRGDAFEARLTHLDGKKFAPVdllNEAQAEAAVAALEGARYSVASVEDKPTTRKPSAPFTTSTLQQEASRK 283

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 289498515 158 LGYGVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVYGS 218
Cdd:PRK07561 284 LGFSVKKTMRIAQRLYEAGYITYMRTDSTNLSQEAINAARGYIGDNYGKKYLPEKPRQYSS 344
TopA COG0550
DNA topoisomerase IA [Replication, recombination and repair];
1-216 2.00e-114

DNA topoisomerase IA [Replication, recombination and repair];


Pssm-ID: 440316 [Multi-domain]  Cd Length: 541  Bit Score: 337.07  E-value: 2.00e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:COG0550  108 NEITKKAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEY 187

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  81 WDVHADTKTAEKTdFRLQVAQKDGVafKPDNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTRLGY 160
Cdd:COG0550  188 WTIEATFKTGGGE-FTAKLVKIDGK--KILDEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGF 264

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 289498515 161 GVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVY 216
Cdd:COG0550  265 SAKKTMSIAQRLYEVGLITYMRTDSVRLSEDAVAAAREYIEALYGKEYLPEKPRVY 320
topA_bact TIGR01051
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ...
 1-218 2.12e-106

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: 318.56  E-value: 2.12e-106
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515    1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:TIGR01051 107 NEITKKAIRAALKNPREIDMNLVNAQQARRILDRLVGYTLSPLLWKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEEY 186

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   81 WDVHADTKTAEKTdFRLQVAQKDG---VAFKPDNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTR 157
Cdd:TIGR01051 187 WTIDATFQKGEET-FEALLTEVNGkklKAGSDLDEAEATALKEQLKGEELVVEEIEKKPKKSRPPPPFTTSTLQQEASRK 265

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 289498515  158 LGYGVKKTMMLAQRLYEA--------GYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVYGS 218
Cdd:TIGR01051 266 LGFSAKKTMMIAQRLYEGvstgdgtiGLITYMRTDSTRLSNQAVNEARNLIDKNYGKEYLGPKPKRYKS 334
Topoisom_bac pfam01131
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ...
 17-216 1.03e-68

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: 215.95  E-value: 1.03e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   17 ELNIDGVNAQQARRFMDRVVGFMVSPLLWKKV--ARGLSAGRVQSVAVKLLVEREREINAFIPEEFWDVHAdtkTAEKTD 94
Cdd:pfam01131   1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLkgNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEA---TLKDGG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   95 FRLQVAQKDGVAFkpDNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTRLGYGVKKTMMLAQRLYE 174
Cdd:pfam01131  78 GVFANAKWKRGRI--FDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYE 155

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 289498515  175 -AGYITYMRTDSTNLSSEA-VEAAREYIGSEYGaQYLPPKALVY 216
Cdd:pfam01131 156 kHGLITYPRTDSTYLSDDAtLKAILEYLTKNYG-KYLPYAPRLL 198
TOP1Ac cd00186
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ...
 23-215 4.02e-66

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: 208.23  E-value: 4.02e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  23 VNAQQARRFMDRVVGFMVSPLLWKKVAR--GLSAGRVQSVAVKLLVEREREINAFIPEEFWDVHadtktaektdfrlqva 100
Cdd:cd00186    4 VNAQLARRILDRLVGFNLSRLLTKKLRRkgVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK---------------- 67

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515 101 qkdgvafkpdneaqtQAAVSVLEKaqyevckredRPTKSKPSAPYITSTLQQAASTRLGYGVKKTMMLAQRLYEAGYITY 180
Cdd:cd00186   68 ---------------EAVVVSVEK----------KEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGLITY 122

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 289498515 181 MRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALV 215
Cdd:cd00186  123 PRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLL 157
TOP1Bc smart00436
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ...
 1-82 1.87e-38

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: 128.08  E-value: 1.87e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515     1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVAR-GLSAGRVQSVAVKLLVEREREINAFIPEE 79
Cdd:smart00436   7 SEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRNgVLSAGRVQTPTLGLIVEREREIKNFVPKP 86


                   ...
gi 289498515    80 FWD 82
Cdd:smart00436  87 YWE 89
 
Name Accession Description Interval E-value
PRK07561 PRK07561
DNA topoisomerase I subunit omega; Validated
 1-218 1.54e-147

DNA topoisomerase I subunit omega; Validated


Pssm-ID: 236048 [Multi-domain]  Cd Length: 859  Bit Score: 431.52  E-value: 1.54e-147
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:PRK07561 124 NEITKNAIQEAFENPRELDINLVNAQQARRFLDRLVGYMVSPLLWKKIARGLSAGRVQSVAVRLIVEREREIEAFVPEEY 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  81 WDVHADTKTAEKTDFRLQVAQKDGVAFKPD---NEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTR 157
Cdd:PRK07561 204 WDIHADLTTPRGDAFEARLTHLDGKKFAPVdllNEAQAEAAVAALEGARYSVASVEDKPTTRKPSAPFTTSTLQQEASRK 283

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 289498515 158 LGYGVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVYGS 218
Cdd:PRK07561 284 LGFSVKKTMRIAQRLYEAGYITYMRTDSTNLSQEAINAARGYIGDNYGKKYLPEKPRQYSS 344
TopA COG0550
DNA topoisomerase IA [Replication, recombination and repair];
1-216 2.00e-114

DNA topoisomerase IA [Replication, recombination and repair];


Pssm-ID: 440316 [Multi-domain]  Cd Length: 541  Bit Score: 337.07  E-value: 2.00e-114
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:COG0550  108 NEITKKAIKEAFKNPRDIDMNLVDAQQARRILDRLVGYNLSPLLWKKVKRGLSAGRVQSPALRLIVEREREIEAFVPEEY 187

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  81 WDVHADTKTAEKTdFRLQVAQKDGVafKPDNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTRLGY 160
Cdd:COG0550  188 WTIEATFKTGGGE-FTAKLVKIDGK--KILDEEEAEAILAALKGKTFTVTSVEKKPKKRNPPPPFTTSTLQQEASRKLGF 264

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 289498515 161 GVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVY 216
Cdd:COG0550  265 SAKKTMSIAQRLYEVGLITYMRTDSVRLSEDAVAAAREYIEALYGKEYLPEKPRVY 320
PRK06599 PRK06599
DNA topoisomerase I; Validated
 1-216 6.97e-107

DNA topoisomerase I; Validated


Pssm-ID: 235840 [Multi-domain]  Cd Length: 675  Bit Score: 321.81  E-value: 6.97e-107
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:PRK06599 114 NEITKKAVQEAIENPRDIDMDLVDAQQARRALDYLVGFKLSPLLWKKVRRGLSAGRVQSVALRLICEREDEIEAFIPQEY 193

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  81 WDVHADTKTAEKTDFRLQVAQKDG---VAFKPDNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTR 157
Cdd:PRK06599 194 WTIEADLATSNGEPFTAKLVEVNGkklEKFSITNEEQAKALVKALEGQAYTVDKIEKKERKRNPPPPFITSTLQQEASRK 273

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 289498515 158 LGYGVKKTMMLAQRLYEA--------GYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVY 216
Cdd:PRK06599 274 LGFSAKKTMRIAQKLYEGidlgegtvGLITYMRTDSVRLSNEALDEARKYITKKYGKEYLPAKPRVY 340
topA_bact TIGR01051
DNA topoisomerase I, bacterial; This model describes DNA topoisomerase I among the members of ...
 1-218 2.12e-106

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: 318.56  E-value: 2.12e-106
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515    1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEF 80
Cdd:TIGR01051 107 NEITKKAIRAALKNPREIDMNLVNAQQARRILDRLVGYTLSPLLWKKVAKGLSAGRVQSVALRLIVDREREIKRFVPEEY 186

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   81 WDVHADTKTAEKTdFRLQVAQKDG---VAFKPDNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTR 157
Cdd:TIGR01051 187 WTIDATFQKGEET-FEALLTEVNGkklKAGSDLDEAEATALKEQLKGEELVVEEIEKKPKKSRPPPPFTTSTLQQEASRK 265

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 289498515  158 LGYGVKKTMMLAQRLYEA--------GYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVYGS 218
Cdd:TIGR01051 266 LGFSAKKTMMIAQRLYEGvstgdgtiGLITYMRTDSTRLSNQAVNEARNLIDKNYGKEYLGPKPKRYKS 334
PRK08780 PRK08780
DNA topoisomerase I; Provisional
 2-216 4.66e-70

DNA topoisomerase I; Provisional


Pssm-ID: 181555 [Multi-domain]  Cd Length: 780  Bit Score: 227.72  E-value: 4.66e-70
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   2 EITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIPEEFW 81
Cdd:PRK08780 116 EITPRAIKEAMAKPRDIASDLVDAQQARRALDYLVGFNLSPLLWRKIQRGLSAGRVQSPALRMIVEREEEIEAFIAREYW 195

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  82 DVHADTKtAEKTDFRLQVAQKDGVAFKP---DNEAQTQAAVSVLEKA---QYEVCKREDRPTKSKPSAPYITSTLQQAAS 155
Cdd:PRK08780 196 SIEADCA-HPSQPFNAKLIKLDGQKFEQftiTDGDTAEAARLRIQQAaqgTLHVTDVESKERKRNPAPPFTTSTLQQEAS 274

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515 156 TRLGYGVKKTMMLAQRLYEA---------GYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALVY 216
Cdd:PRK08780 275 RKLGFTTRRTMQVAQKLYEGvdlgdegsvGLITYMRTDSVNLSQDALAEIRDVIARDYGTASLPDQPNTY 344
Topoisom_bac pfam01131
DNA topoisomerase; This subfamily of topoisomerase is divided on the basis that these enzymes ...
 17-216 1.03e-68

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: 215.95  E-value: 1.03e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   17 ELNIDGVNAQQARRFMDRVVGFMVSPLLWKKV--ARGLSAGRVQSVAVKLLVEREREINAFIPEEFWDVHAdtkTAEKTD 94
Cdd:pfam01131   1 EIDENLVDAQLARRELDWLIGFNLSRLLTLKLkgNKLLSAGRVQTPTLALIVEREREIENFVPEPYWTIEA---TLKDGG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   95 FRLQVAQKDGVAFkpDNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTRLGYGVKKTMMLAQRLYE 174
Cdd:pfam01131  78 GVFANAKWKRGRI--FDKEEAEAILEKLKKGTAVVTSVESKEKKKPPPLPFNTTTLQKEASRKLGFSAKKTMSIAQKLYE 155

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....
gi 289498515  175 -AGYITYMRTDSTNLSSEA-VEAAREYIGSEYGaQYLPPKALVY 216
Cdd:pfam01131 156 kHGLITYPRTDSTYLSDDAtLKAILEYLTKNYG-KYLPYAPRLL 198
TOP1Ac cd00186
DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA ...
 23-215 4.02e-66

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: 208.23  E-value: 4.02e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  23 VNAQQARRFMDRVVGFMVSPLLWKKVAR--GLSAGRVQSVAVKLLVEREREINAFIPEEFWDVHadtktaektdfrlqva 100
Cdd:cd00186    4 VNAQLARRILDRLVGFNLSRLLTKKLRRkgVLSAGRVQSPTLGLIVEREREIKAFVPEDYWEIK---------------- 67

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515 101 qkdgvafkpdneaqtQAAVSVLEKaqyevckredRPTKSKPSAPYITSTLQQAASTRLGYGVKKTMMLAQRLYEAGYITY 180
Cdd:cd00186   68 ---------------EAVVVSVEK----------KEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGLITY 122

                        170       180       190
                 ....*....|....*....|....*....|....*
gi 289498515 181 MRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKALV 215
Cdd:cd00186  123 PRTDSTRLSEEAILEAREYIQAIYGKEYLYPAPLL 157
PRK06319 PRK06319
DNA topoisomerase I/SWI domain fusion protein; Validated
 1-218 3.99e-64

DNA topoisomerase I/SWI domain fusion protein; Validated


Pssm-ID: 235778 [Multi-domain]  Cd Length: 860  Bit Score: 212.76  E-value: 3.99e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVAR--GLSAGRVQSVAVKLLVEREREINAFIPE 78
Cdd:PRK06319 110 NAITKGAVTEALKHPREIDMALVNAQQARRLLDRIVGYKISPILSRKLQRrsGVSAGRVQSVALKLVVDREKAIEAFVPV 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  79 EFWDVHADTKTA-EKTDFRLQVAQKDGVAFKP--------------DNEAQTQAAVSVLEKAQYEVCKREDRPTKSKPSA 143
Cdd:PRK06319 190 EYWNIRVHLKDPkTQKTFWAHLYSVDGKKWEKeipegktedevlliNSKEKADHIVELLESATYTVTRVESKEKRRNAYP 269

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515 144 PYITSTLQQAASTRLGYGVKKTMMLAQRLYEA---------GYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKAL 214
Cdd:PRK06319 270 PFITSTLQQEASRHFRFSSSRTMNIAQTLYEGvdldsegatGLITYMRTDSVRTDPEALKQVRKYIEGTFGKEFLPSSPN 349


                 ....
gi 289498515 215 VYGS 218
Cdd:PRK06319 350 VYTT 353
TopG2 COG1110
Reverse gyrase [Replication, recombination and repair];
2-213 2.34e-41

Reverse gyrase [Replication, recombination and repair];


Pssm-ID: 440727 [Multi-domain]  Cd Length: 1219  Bit Score: 149.35  E-value: 2.34e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515    2 EITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARG-LSAGRVQSVAVKLLVERereinafipeef 80
Cdd:COG1110   789 EVTRKAILEALKNPREIDENLVEAQIVRRIEDRWIGFTLSQKLWKVFGNRnLSAGRVQTPVLGWIIER------------ 856

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   81 wdvHADTKTAEKTDFRLQVaQKDGVAFKPDNEAQTQAAVSVLEKAQY-EVCKREDRPTKSKPSAPYITSTLQQAASTRLG 159
Cdd:COG1110   857 ---YEESRKSKKYLIILTL-ENGRLELSIEDLKEAEEVRKALEKEVKvKVKKVEEEEEELNPLPPYTTDTLLRDASRRLG 932

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 289498515  160 YGVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPKA 213
Cdd:COG1110   933 LSAEETMRLAQDLFESGLITYHRTDSTRVSDAGIAVAKEYISERFGEEYFKPRR 986
TOP1Bc smart00436
Bacterial DNA topoisomeraes I ATP-binding domain; Extension of TOPRIM in Bacterial DNA ...
 1-82 1.87e-38

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: 128.08  E-value: 1.87e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515     1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVAR-GLSAGRVQSVAVKLLVEREREINAFIPEE 79
Cdd:smart00436   7 SEITKKAIREALKNPREIDENLVNAQLARRILDRLIGFNLSRLLTKKLRNgVLSAGRVQTPTLGLIVEREREIKNFVPKP 86


                   ...
gi 289498515    80 FWD 82
Cdd:smart00436  87 YWE 89
rgy TIGR01054
reverse gyrase; This model describes reverse gyrase, found in both archaeal and bacterial ...
 1-212 2.01e-38

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: 141.12  E-value: 2.01e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515     1 NEITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVA-RGLSAGRVQSVAVKLLVEREREinafipee 79
Cdd:TIGR01054  757 HEVTRRAILEALESPRSVDENLVKAQVVRRIEDRWIGFTLSQKLWEAFNkRWLSAGRVQTPVLGWIIDRYRE-------- 828

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515    80 fwdvHADTK-----TAEKTDFRLQVAQKDGVAFKPDNEAQTQAAVSVLEKaqyevcKREDRPtkskPSAPYITSTLQQAA 154
Cdd:TIGR01054  829 ----SREKRgylliFALESDFRLGLEHDNRLEAKEFEKDLTWLDVEDIAE------REEERN----PLPPYTTDTMLEDA 894

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 289498515   155 STRLGYGVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPK 212
Cdd:TIGR01054  895 NRKLGLSVKETMQIAQELFENGLITYHRTDSTRVSDVGMRVAKEYLASRLGGEYFYPR 952
TOP1Ac smart00437
Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, ...
 133-212 1.32e-34

Bacterial DNA topoisomerase I DNA-binding domain; Bacterial DNA topoisomerase I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase alpha subunit


Pssm-ID: 214663 [Multi-domain]  Cd Length: 259  Bit Score: 123.51  E-value: 1.32e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   133 EDRPTKSKPSAPYITSTLQQAASTRLGYGVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYLPPK 212
Cdd:smart00437   1 EEKEKKKNPPPPFTTSTLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDSTRLSEEAVLEARNYIQKLYGKEYLDLA 80
PRK07219 PRK07219
DNA topoisomerase I; Validated
 3-186 7.50e-34

DNA topoisomerase I; Validated


Pssm-ID: 235971 [Multi-domain]  Cd Length: 822  Bit Score: 127.81  E-value: 7.50e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   3 ITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVG------FMVSPllwKKVARG--LSAGRVQSVAVKLLVEREREINA 74
Cdd:PRK07219 138 LTKKEIRKAFENPDEIDFNLADAGEARQIIDLYWGaaltrfLSLSV---RQLGRWdfLSVGRVQTPTLAFIVDREREIRA 214

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  75 FIPEEFWDVHADTKtaektdfrlQVAQKDGVAFKPDNEAQT----QAAVSVLEKAQYE----VCKREDRPTKSKPSAPYI 146
Cdd:PRK07219 215 FDPEDYWKIEALLD---------KEAQYFYRDLIGGHEAEKfwdeEEAEEIYEKLKGAkeatVSSVKKRERTISPPAPFN 285

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|
gi 289498515 147 TSTLQQAASTRLGYGVKKTMMLAQRLYEAGYITYMRTDST 186
Cdd:PRK07219 286 TTEFLREASKIFGISPKRAMEIAEKLYTAGYISYPRTDNT 325
PRK07726 PRK07726
DNA topoisomerase 3;
52-198 1.66e-27

DNA topoisomerase 3;


Pssm-ID: 236078 [Multi-domain]  Cd Length: 658  Bit Score: 109.10  E-value: 1.66e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  52 LSAGRVQSVAVKLLVEREREINAFIPEEFWDVHAdtKTAEKTDFRLQVAQKDGVAFKPD---NEAQTQAAVSVLEKAQYE 128
Cdd:PRK07726 187 LSVGRVQTPTLALVVRRDEEIENFVPKPYWEVEA--HLTPGERFTAKWQPSEPYQDEEGrllDRPLAEQVVARIQGQPAK 264

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 289498515 129 VCKREDRPTKSKPSAPYITSTLQQAASTRLGYGVKKTMMLAQRLYE-AGYITYMRTDSTNLSSEAVEAARE 198
Cdd:PRK07726 265 VTEVETKRKKEYAPLLYDLSELQIDANKRFGLSAKETLDIAQSLYEtHKLITYPRTDSRYLPEDMVATLPE 335
PRK07220 PRK07220
DNA topoisomerase I; Validated
 3-186 1.23e-25

DNA topoisomerase I; Validated


Pssm-ID: 180892 [Multi-domain]  Cd Length: 740  Bit Score: 104.07  E-value: 1.23e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   3 ITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVAR-G---LSAGRVQSVAVKLLVEREREINAFIPE 78
Cdd:PRK07220 139 ITKKEIERAFSNPVEVDFNLADAGHSRQVIDLVWGAALTRYISLAAGRlGkmfLSVGRVQSPTLALIVDREKEREAFVPT 218

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  79 EFWDVHADTKTAEKTdFrlqVAQKDGVAFKPDNEAQtqaavSVLEK--AQYEVCKREDRPTKSKPSAPYITSTLQQAAST 156
Cdd:PRK07220 219 PYWEIYATLENNGET-F---VAQHSTRRFWEKEEAD-----RVFEKlgKTAEVTEVEKGTKTDKPPTPFNTTEFISAANS 289

                        170       180       190
                 ....*....|....*....|....*....|
gi 289498515 157 rLGYGVKKTMMLAQRLYEAGYITYMRTDST 186
Cdd:PRK07220 290 -IGFSAANAMRIAESLYTNGYISYPRTDNT 318
PRK14973 PRK14973
DNA topoisomerase I; Provisional
 3-186 1.52e-24

DNA topoisomerase I; Provisional


Pssm-ID: 184936 [Multi-domain]  Cd Length: 936  Bit Score: 101.08  E-value: 1.52e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   3 ITKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARG----LSAGRVQSVAVKLLVEREREINAFIPE 78
Cdd:PRK14973 138 ITKEEIVTAFAEPTDLDFALAAAGEARQIIDLIWGASLTRFISLAAHRGgdniLSVGRVQSPTLAMIVDREKEIEAFVPE 217

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  79 EFWDVHADT-KTAEKTDFRLQVAQKDGVAFKPDNEAQTQAAVSVLEKAQyevCKREDR-PTkskpsaPYITSTLQQAASt 156
Cdd:PRK14973 218 KYWMLSLATeKDGEGIEARHTHGRFTDSAAAEAAYDATKEPLVVTEVKE---GHKVDRaPT------PFDTTTFIVAAS- 287

                        170       180       190
                 ....*....|....*....|....*....|
gi 289498515 157 RLGYGVKKTMMLAQRLYEAGYITYMRTDST 186
Cdd:PRK14973 288 RLGFSAANAMRIAEDLYMNGYISYPRTDNT 317
PRK05776 PRK05776
DNA topoisomerase I; Provisional
 4-188 2.48e-22

DNA topoisomerase I; Provisional


Pssm-ID: 235602 [Multi-domain]  Cd Length: 670  Bit Score: 94.29  E-value: 2.48e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   4 TKNAIQQAFETPGELNIDGVNAQQARRFMDRVVGFMVSPLLWK--KVARG----LSAGRVQSVAVKLLVEREREINAFIP 77
Cdd:PRK05776 136 TKSDIRRAFRNLETLDYEMINAGIARHELDWLWGINVSRALMSsvRDASGkrviLSAGRVQSPTLKYVVEREIERNLFVP 215

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  78 EEFWDVHAdtkTAEKTD--FRLQVAQKdgvafKPDNEAQTQAAVSVLEKAQY-EVCKREDRPTKSKPSAPYITSTLQQAA 154
Cdd:PRK05776 216 LPYFSVSI---IIEKNGyeFTLKYENK-----KFETKEEAKEILEEIKKTGYlKVTKVEVKIEILEPPPPFNLGDLQVEA 287

                        170       180       190
                 ....*....|....*....|....*....|....
gi 289498515 155 STRLGYGVKKTMMLAQRLYEAGYITYMRTDSTNL 188
Cdd:PRK05776 288 ARIYGFSPYKTQSIAEDLYLDGLISYPRTNSQKL 321
topB TIGR01056
DNA topoisomerase III, bacteria and conjugative plasmid; This model describes topoisomerase ...
 1-194 5.09e-18

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: 81.81  E-value: 5.09e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515    1 NEITKNAIQQAFET--PGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARG-----LSAGRVQSVAVKLLVEREREIN 73
Cdd:TIGR01056 134 SSLVDSSIRKAFKNlrPKSETEGLYKSGVARARADWLVGINLTRAFTKLGREAgndgvLSVGRVQTPTLAMVVKRENEIK 213

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   74 AFIPEEFWDVHA--------------DTKTAEKTDFRLQVAQKDgvafkPDNEAQTQAAVSVLEKaqyevcKREdrptKS 139
Cdd:TIGR01056 214 NFVGKPFYEVSAtinkdeqefttewqPYKDEEERELHEFLAENV-----VTDLTQKPALVTDIEK------ERK----KT 278

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 289498515  140 KPSAPYITSTLQQAASTRLGYGVKKTMMLAQRLYEAG-YITYMRTDSTNLSSEAVE 194
Cdd:TIGR01056 279 SAPLFYDLSALQEDANKRFGISAKRTLDIAQKLYETHkLITYPRTDSRYLPEDEKE 334
PRK08173 PRK08173
DNA topoisomerase III; Validated
 55-198 1.51e-15

DNA topoisomerase III; Validated


Pssm-ID: 236172 [Multi-domain]  Cd Length: 862  Bit Score: 74.70  E-value: 1.51e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  55 GRVQSVAVKLLVEREREINAFIPEEFWDVHAdtktaektDFRLQVAQKDGVAFKPD---NEAQTQAAVSVL---EKAQYE 128
Cdd:PRK08173 194 GRVQTPTLSIVVEREEKIRRFVPRDYWEVRA--------EFVAAAGFYEGRWFDPKfkkDEFDPEKRASRLwseAAAEAI 265

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515 129 VCKREDRP----TKSKPS---AP--YITSTLQQAASTRLGYGVKKTMMLAQRLYEA-GYITYMRTDSTNLSSEAVEAARE 198
Cdd:PRK08173 266 VAACRGKPgtvtEESKPStqlSPllFDLTSLQREANGRFGFSAKNTLGLAQALYEKhKVLTYPRTDSRALPEDYLGTVKQ 345
PRK14724 PRK14724
DNA topoisomerase III; Provisional
 20-213 6.03e-15

DNA topoisomerase III; Provisional


Pssm-ID: 237803 [Multi-domain]  Cd Length: 987  Bit Score: 73.07  E-value: 6.03e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  20 IDGVNAQQArrFMDRVVGFMVSpllwkkvarglSAGRVQSVAVKLLVEREREINAFIPEEFWDVHAdtktaektDFRLQV 99
Cdd:PRK14724 180 INGTRAMTA--FNSRDGGFFLT-----------TVGRVQTPTLSLVVEREEKIRKFVSRDYWEIHA--------GFHAEA 238

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515 100 AQKDGVAF-----KPDNEAQTQA----------AVSVLEKAQYEVCKREDRPTKSKPSAPYITSTLQQAASTRLGYGVKK 164
Cdd:PRK14724 239 GEYLGKWFdpqwkKASDDPEARAdrvwserearAIADAVRGKAATVTEESKPTTQASPLLFDLTSLQREANGKFGFSAKT 318

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|..
gi 289498515 165 TMMLAQRLYEA-GYITYMRTDSTNLSSEAVEAAREYIG--SEYGAQYLPPKA 213
Cdd:PRK14724 319 TLALAQSLYERhKALTYPRTDSRALPEDYLPVAKQTFEmlATSGMRHLAPFA 370
PTZ00407 PTZ00407
DNA topoisomerase IA; Provisional
 3-209 3.12e-13

DNA topoisomerase IA; Provisional


Pssm-ID: 173597 [Multi-domain]  Cd Length: 805  Bit Score: 68.04  E-value: 3.12e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515   3 ITKNAIQQAFE--TPGELNIDGVNAQQARRFMDRVVGFMVSPLLWKKVARGLSAGRVQSVAVKLLVEREREINAFIpeef 80
Cdd:PTZ00407 168 ITEDGIRKAMRerHVEACDYDLANAAETRHAMDRIFGFLGSSVVRAANSQMRSIGRVQTPALILINEREDKIKAFL---- 243

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 289498515  81 wDVHADTKTAEKTdfrLQVAQKDGVAFK------PDNE---AQTQAAVSV--------LEKAQYEVCKREDRPTKSK--P 141
Cdd:PTZ00407 244 -ESNKSTFEVQAM---CQFPSPHGTTFSqvvtitPDRKggaSHWATEAEArrcleqwkLNNCTGFSVPLEPKPQPSVvpP 319

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 289498515 142 SAPYITSTLQQAASTRLGYGVKKTMMLAQRLYEAGYITYMRTDSTNLSSEAVEAAREYIGSEYGAQYL 209
Cdd:PTZ00407 320 PQPFTMATAIAKANRQLKYSSEMVSGCLQDLFQLGHITYPRTDSTRIDESALPDIYAAVKKEFGKEFL 387
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH