NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|514971476|ref|WP_016659757|]
View 

MULTISPECIES: IS607 family transposase [Acinetobacter]

Protein Classification

IS607 family transposase( domain architecture ID 1750179)

IS607 family transposase binds to the end of a transposon and catalyzes the movement of the transposon to another part of the genome by a cut and paste mechanism or a replicative transposition mechanism; belongs to the site-specific recombinase resolvase superfamily

Gene Ontology:  GO:0003677|GO:0032196|GO:0015074|GO:0006310|GO:0004803
PubMed:  30289389|20215432|11774877|11972771|10986230

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
transpos_IS607 NF033518
IS607 family transposase;
5-190 2.82e-81

IS607 family transposase;


:

Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 239.46  E-value: 2.82e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476   5 AKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQYLEYIG-IKATEAKSSVIVYSRVSSVAQKPDLANQVSALET 83
Cdd:NF033518   1 GEAAERLGVSRQTLRRWDREGLIKVPRTPGGRRRYPEEEVGRLLGvKVPAGDERKTVIYARVSSADQKDDLERQVARLTQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  84 FCTVNGYAVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGFEWFESFAERHGCKVIIMNQESLSPT 163
Cdd:NF033518  81 YATAKGWQVDEVVTDIGSGLNEKRKGLLKLLDDILNGEVSRVVVEHKDRLTRFGFEYLEALFKANGVEIVVVNEDEKSPE 160

                        170       180
                 ....*....|....*....|....*..
gi 514971476 164 EEVTQDLLAIIHCFSSRLYGLRKYKEK 190
Cdd:NF033518 161 EELVEDLIEILTSFSARLYGKRSAKNR 187
 
Name Accession Description Interval E-value
transpos_IS607 NF033518
IS607 family transposase;
5-190 2.82e-81

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 239.46  E-value: 2.82e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476   5 AKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQYLEYIG-IKATEAKSSVIVYSRVSSVAQKPDLANQVSALET 83
Cdd:NF033518   1 GEAAERLGVSRQTLRRWDREGLIKVPRTPGGRRRYPEEEVGRLLGvKVPAGDERKTVIYARVSSADQKDDLERQVARLTQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  84 FCTVNGYAVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGFEWFESFAERHGCKVIIMNQESLSPT 163
Cdd:NF033518  81 YATAKGWQVDEVVTDIGSGLNEKRKGLLKLLDDILNGEVSRVVVEHKDRLTRFGFEYLEALFKANGVEIVVVNEDEKSPE 160

                        170       180
                 ....*....|....*....|....*..
gi 514971476 164 EEVTQDLLAIIHCFSSRLYGLRKYKEK 190
Cdd:NF033518 161 EELVEDLIEILTSFSARLYGKRSAKNR 187
COG2452 COG2452
Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];
2-193 6.95e-76

Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];


Pssm-ID: 441988 [Multi-domain]  Cd Length: 178  Bit Score: 225.64  E-value: 6.95e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476   2 YSPAKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQYLEYigikateaKSSVIVYSRVSSVAQKPDLANQVSAL 81
Cdd:COG2452    1 LTPGEAAELLGVSPKTLRRWEKEGKLPAIRTPGGHRRYPESEVERL--------ERRTVIYARVSSADQKDDLERQVERL 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  82 ETFCTVNGYAvDDWVSEVGSGLNYKRKKFNQLFLDIEmgkVSMLVIAHKDRLVRFGFEWFESFAERHGCKVIIMNQEslS 161
Cdd:COG2452   73 EEYATAKGYQ-DEVIKDVGSGLNYKRKGLLKLLERIE---VERVVVEHKDRLARFGFELLEALCEAYGVEIVVVNQE--S 146

                        170       180       190
                 ....*....|....*....|....*....|..
gi 514971476 162 PTEEVTQDLLAIIHCFSSRLYGLRKYKEKVKE 193
Cdd:COG2452  147 PEQELVEDLIAIITSFSARLYGLRSYKKAVKE 178
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 59-190 1.21e-49

Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.


Pssm-ID: 239738  Cd Length: 134  Bit Score: 157.42  E-value: 1.21e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  59 VIVYSRVSSVAQKPDLANQVSALETFCTVNGYaVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGF 138
Cdd:cd03769    1 TVLYARVSSHDQKDDLERQIERLEAYATAQGW-IVEVIKDIGSGLNEKRKGLLKLLEDVLAGKVERVVITYKDRLARFGF 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 514971476 139 EWFESFAERHGCKVIIMNQESLSPTE-EVTQDLLAIIHCFSSRLYGLRKYKEK 190
Cdd:cd03769   80 ELLEELFKAYGVEIVVINQEENEELEqELVEDLIEIITSFSARLYGKRSHKKK 132
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 59-185 1.55e-22

Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.


Pssm-ID: 214861 [Multi-domain]  Cd Length: 148  Bit Score: 88.45  E-value: 1.55e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476    59 VIVYSRVSSVAQK-PDLANQVSALETFCTVNGYAVDDWVSEVG-SGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRF 136
Cdd:smart00857   1 AAGYARVSTDDQAdGSLERQLEALRAYAERNGWEVVRIYEDEGvSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRS 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 514971476   137 GFEWFE--SFAERHGCKVIIMNQE---SLSPTEEVTQDLLAIIHCFSSRLYGLR 185
Cdd:smart00857  81 LRDLLAllELLEEKGVRLVSLKEGildTSTPAGRLLLDILAALAEFERELISER 134
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 59-185 1.11e-17

Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase - see pfam02796.


Pssm-ID: 425548 [Multi-domain]  Cd Length: 144  Bit Score: 75.77  E-value: 1.11e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476   59 VIVYSRVSSVAQKPDLANQVSALETFCTVNGyAVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGF 138
Cdd:pfam00239   1 AIGYARVSTEDQDDSLERQLEALRAYAACNG-KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLGRSLR 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 514971476  139 EWFE--SFAERHGCKVIIMNQ--ESLSPTEEVTQDLLAIIHCFSSRLYGLR 185
Cdd:pfam00239  80 DLLTlvEELREKGVDLVSLDEgiDTSTPMGRLLLTILAALAEFERALIRER 130
recomb_XisF NF041201
fdxN element excision recombinase XisF;
62-192 4.23e-08

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 52.27  E-value: 4.23e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  62 YSRVSSVAQKPD---LANQVSALETfctvngYAVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGF 138
Cdd:NF041201   4 YARVSTREQADDghaLEQQIARLKK------AGASEIFFDIESGRSDKRKGFNQLLKLVKSGKVTEIIITRIDRLTRSVV 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 514971476 139 EWFESFAE--RHGCKVIIMNQESL---SPTEEVTQDLLAIIHCFSSRL------YGLRKYKEKVK 192
Cdd:NF041201  78 TIYKAIEVlqKKGVKLVILDAPLDdlsSPGGWFTINQLAALAEFESRLlservrHGLEYFREQKK 142
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
59-135 1.87e-04

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 40.86  E-value: 1.87e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 514971476  59 VIVYSRVSSvaQKPDLANQVSALETFCTVNGYAVDDWVSEVGSGL-NYKRKKFNQLFLdiEMGKVSMLVIAHKDRLVR 135
Cdd:PRK13413   2 IYAYIRVST--DKQTVENQRFEITNFAEKNNLTIDKWIEETISGTkSYKDRKLGKLLK--KMRKGDILIVSELSRLGR 75
 
Name Accession Description Interval E-value
transpos_IS607 NF033518
IS607 family transposase;
5-190 2.82e-81

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 239.46  E-value: 2.82e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476   5 AKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQYLEYIG-IKATEAKSSVIVYSRVSSVAQKPDLANQVSALET 83
Cdd:NF033518   1 GEAAERLGVSRQTLRRWDREGLIKVPRTPGGRRRYPEEEVGRLLGvKVPAGDERKTVIYARVSSADQKDDLERQVARLTQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  84 FCTVNGYAVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGFEWFESFAERHGCKVIIMNQESLSPT 163
Cdd:NF033518  81 YATAKGWQVDEVVTDIGSGLNEKRKGLLKLLDDILNGEVSRVVVEHKDRLTRFGFEYLEALFKANGVEIVVVNEDEKSPE 160

                        170       180
                 ....*....|....*....|....*..
gi 514971476 164 EEVTQDLLAIIHCFSSRLYGLRKYKEK 190
Cdd:NF033518 161 EELVEDLIEILTSFSARLYGKRSAKNR 187
COG2452 COG2452
Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];
2-193 6.95e-76

Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];


Pssm-ID: 441988 [Multi-domain]  Cd Length: 178  Bit Score: 225.64  E-value: 6.95e-76
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476   2 YSPAKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQYLEYigikateaKSSVIVYSRVSSVAQKPDLANQVSAL 81
Cdd:COG2452    1 LTPGEAAELLGVSPKTLRRWEKEGKLPAIRTPGGHRRYPESEVERL--------ERRTVIYARVSSADQKDDLERQVERL 72

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  82 ETFCTVNGYAvDDWVSEVGSGLNYKRKKFNQLFLDIEmgkVSMLVIAHKDRLVRFGFEWFESFAERHGCKVIIMNQEslS 161
Cdd:COG2452   73 EEYATAKGYQ-DEVIKDVGSGLNYKRKGLLKLLERIE---VERVVVEHKDRLARFGFELLEALCEAYGVEIVVVNQE--S 146

                        170       180       190
                 ....*....|....*....|....*....|..
gi 514971476 162 PTEEVTQDLLAIIHCFSSRLYGLRKYKEKVKE 193
Cdd:COG2452  147 PEQELVEDLIAIITSFSARLYGLRSYKKAVKE 178
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 59-190 1.21e-49

Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.


Pssm-ID: 239738  Cd Length: 134  Bit Score: 157.42  E-value: 1.21e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  59 VIVYSRVSSVAQKPDLANQVSALETFCTVNGYaVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGF 138
Cdd:cd03769    1 TVLYARVSSHDQKDDLERQIERLEAYATAQGW-IVEVIKDIGSGLNEKRKGLLKLLEDVLAGKVERVVITYKDRLARFGF 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 514971476 139 EWFESFAERHGCKVIIMNQESLSPTE-EVTQDLLAIIHCFSSRLYGLRKYKEK 190
Cdd:cd03769   80 ELLEELFKAYGVEIVVINQEENEELEqELVEDLIEIITSFSARLYGKRSHKKK 132
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 59-185 1.55e-22

Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.


Pssm-ID: 214861 [Multi-domain]  Cd Length: 148  Bit Score: 88.45  E-value: 1.55e-22
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476    59 VIVYSRVSSVAQK-PDLANQVSALETFCTVNGYAVDDWVSEVG-SGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRF 136
Cdd:smart00857   1 AAGYARVSTDDQAdGSLERQLEALRAYAERNGWEVVRIYEDEGvSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRS 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....
gi 514971476   137 GFEWFE--SFAERHGCKVIIMNQE---SLSPTEEVTQDLLAIIHCFSSRLYGLR 185
Cdd:smart00857  81 LRDLLAllELLEEKGVRLVSLKEGildTSTPAGRLLLDILAALAEFERELISER 134
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 59-185 1.11e-17

Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase - see pfam02796.


Pssm-ID: 425548 [Multi-domain]  Cd Length: 144  Bit Score: 75.77  E-value: 1.11e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476   59 VIVYSRVSSVAQKPDLANQVSALETFCTVNGyAVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGF 138
Cdd:pfam00239   1 AIGYARVSTEDQDDSLERQLEALRAYAACNG-KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLGRSLR 79

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 514971476  139 EWFE--SFAERHGCKVIIMNQ--ESLSPTEEVTQDLLAIIHCFSSRLYGLR 185
Cdd:pfam00239  80 DLLTlvEELREKGVDLVSLDEgiDTSTPMGRLLLTILAALAEFERALIRER 130
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 61-174 8.95e-16

Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are proteins with N-terminal DNA binding domains similar to IS607- and IS1535-transposases from Helicobacter and Mycobacterium.


Pssm-ID: 238206 [Multi-domain]  Cd Length: 137  Bit Score: 70.37  E-value: 8.95e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  61 VYSRVSSVAQKPD--LANQVSALETFCTVNGYAVDDWVSEVGSG--LNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRF 136
Cdd:cd00338    1 IYARVSTDKQEQGdsLERQREALREYAARNGLEVVGEYEDAGSSatSLVDRPGLQRLLADVKAGKIDVVLVEKLDRLSRN 80

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 514971476 137 GFEWFESF--AERHGCKVIIMNQEsLSPTEEVTQDLLAII 174
Cdd:cd00338   81 LVDLLELLelLEAHGVRVVTADGE-IDLDSEDGRLMLGIL 119
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 59-174 7.35e-15

Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and repair];


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 71.98  E-value: 7.35e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  59 VIVYSRVSSVAQKP-DLANQVSALETFCTVNGYAVDDWVSEVG-SGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRF 136
Cdd:COG1961    4 AAGYARVSTDDQEGlSLERQREALRAYAEKAGWEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGKFDTLVVWKLDRLGRN 83

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|..
gi 514971476 137 GFEWFE--SFAERHGCKVIIMNQ--ESLSPTEEVTQDLLAII 174
Cdd:COG1961   84 LADLLElvEELKERGVRLISLTEgiDTSTPMGRLLLTILAAF 125
HTH_MerR-trunc cd04762
Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Proteins in this family ...
 2-50 5.78e-09

Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.


Pssm-ID: 133390 [Multi-domain]  Cd Length: 49  Bit Score: 50.28  E-value: 5.78e-09
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 514971476   2 YSPAKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQYLEYIGI 50
Cdd:cd04762    1 LTTKEAAELLGVSPSTLRRWVKEGKLKAIRTPGGHRRFPEEDLERLLGI 49
recomb_XisF NF041201
fdxN element excision recombinase XisF;
62-192 4.23e-08

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 52.27  E-value: 4.23e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  62 YSRVSSVAQKPD---LANQVSALETfctvngYAVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRLVRFGF 138
Cdd:NF041201   4 YARVSTREQADDghaLEQQIARLKK------AGASEIFFDIESGRSDKRKGFNQLLKLVKSGKVTEIIITRIDRLTRSVV 77

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 514971476 139 EWFESFAE--RHGCKVIIMNQESL---SPTEEVTQDLLAIIHCFSSRL------YGLRKYKEKVK 192
Cdd:NF041201  78 TIYKAIEVlqKKGVKLVILDAPLDdlsSPGGWFTINQLAALAEFESRLlservrHGLEYFREQKK 142
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 59-135 4.75e-08

Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. Resolvases and invertases affect resolution or inversion and comprise a major phylogenic group. Resolvases (e.g. Tn3, gamma-delta, and Tn5044) normally recombine two sites in direct repeat causing deletion of the DNA between the sites. Invertases (e.g. Gin and Hin) recombine sites in inverted repeat to invert the DNA between the sites. Cointegrate resolution with gamma-delta resolvase requires the formation of a synaptosome of three resolvase dimers bound to each of two res sites on the DNA. Also included in this subfamily are some putative integrases including a sequence from bacteriophage phi-FC1.


Pssm-ID: 239737 [Multi-domain]  Cd Length: 126  Bit Score: 49.79  E-value: 4.75e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 514971476  59 VIVYSRVSSVAQkpDLANQVSALETFCTvngyaVDDWVSEVGSGLNYKRKKFNQLFLDIEMGKVsmLVIAHKDRLVR 135
Cdd:cd03768    1 VIGYARVSTDDQ--SLERQLEALKAAGE-----CDKIFEEKGSGGKKERPELQKLLEDLREGDT--LVVTKLDRLGR 68
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 59-156 6.40e-07

Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.


Pssm-ID: 239739 [Multi-domain]  Cd Length: 140  Bit Score: 46.98  E-value: 6.40e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 514971476  59 VIVYSRVSSVAQKP----DLANQVSALETFCTVNGYAVDDWVSEVG-SGLNYKRKKFNQLFLDIEMGKVSMLVIAHKDRL 133
Cdd:cd03770    1 TALYCRLSRDDDLDgesnSIENQKAILEEYAKENGLENIRHYIDDGfSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRL 80

                         90       100
                 ....*....|....*....|....*..
gi 514971476 134 VR----FGFeWFESFAERHGCKVIIMN 156
Cdd:cd03770   81 GRnylkVGL-YMEILFPKKGVRFIAIN 106
MerR_1 pfam13411
MerR HTH family regulatory protein;
2-43 2.15e-05

MerR HTH family regulatory protein;


Pssm-ID: 463870  Cd Length: 66  Bit Score: 41.00  E-value: 2.15e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 514971476    2 YSPAKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQ 43
Cdd:pfam13411   1 YTISELARLLGVTPRTLRYWEREGLLPPPRTERGRRYYTDED 42
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
59-135 1.87e-04

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 40.86  E-value: 1.87e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 514971476  59 VIVYSRVSSvaQKPDLANQVSALETFCTVNGYAVDDWVSEVGSGL-NYKRKKFNQLFLdiEMGKVSMLVIAHKDRLVR 135
Cdd:PRK13413   2 IYAYIRVST--DKQTVENQRFEITNFAEKNNLTIDKWIEETISGTkSYKDRKLGKLLK--KMRKGDILIVSELSRLGR 75
HTH_MerR-like cd00592
Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Helix-turn-helix ...
 2-43 6.02e-04

Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.


Pssm-ID: 133378 [Multi-domain]  Cd Length: 100  Bit Score: 37.61  E-value: 6.02e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 514971476   2 YSPAKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYTHDQ 43
Cdd:cd00592    1 YTIGEVAKLLGVSVRTLRYYEEKGLLPPERSENGYRLYSEED 42
HTH_MerR-SF cd04761
Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; ...
 2-40 1.21e-03

Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.


Pssm-ID: 133389 [Multi-domain]  Cd Length: 49  Bit Score: 35.65  E-value: 1.21e-03
                         10        20        30
                 ....*....|....*....|....*....|....*....
gi 514971476   2 YSPAKFGEMIGKSVKTLQRWDAEGILVACRNPKNRRYYT 40
Cdd:cd04761    1 YTIGELAKLTGVSPSTLRYYERIGLLSPARTEGGYRLYS 39
SoxR COG0789
DNA-binding transcriptional regulator, MerR family [Transcription];
9-43 5.31e-03

DNA-binding transcriptional regulator, MerR family [Transcription];


Pssm-ID: 440552 [Multi-domain]  Cd Length: 100  Bit Score: 35.27  E-value: 5.31e-03
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 514971476   9 EMIGKSVKTLQRWDAEGILVAC-RNPKNRRYYTHDQ 43
Cdd:COG0789    6 RLTGVSVRTLRYYERIGLLPPPeRTEGGYRLYSEED 41
 
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