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Conserved domains on  [gi|16129504|ref|NP_416063|]
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putative recombinase PinQ [Escherichia coli str. K-12 substr. MG1655]

Protein Classification

recombinase family protein( domain architecture ID 11449350)

recombinase family protein is a serine recombinase that catalyzes the 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

CATH:  3.40.50.1390
Gene Ontology:  GO:0015074|GO:0000150|GO:0003677
PubMed:  11972771|16077726|9348666

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 1-192 5.84e-46

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


:

Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 155.57  E-value: 5.84e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   1 MSQIFAYCRISTLDQ---TTENQRRE----IESAGFKIkPQQIIEEHISGsaATSERPGFNRLLARLKCG--DQLIVTKL 71
Cdd:COG1961   1 MMRAAGYARVSTDDQeglSLERQREAlrayAEKAGWEI-VRIYVDEGVSG--TSKDRPGLQRLLADLRAGkfDTLVVWKL 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504  72 DRLGCNAMDIRKTVEQLTETGIRVHCLAlGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKRFGRPP- 150
Cdd:COG1961  78 DRLGRNLADLLELVEELKERGVRLISLT-EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGRPPy 156

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 16129504 151 --------VLNEEQKQAV---FERIKSGVSISAIAREFKT------SRQTILRAKAKLQ 192
Cdd:COG1961 157 gyrdpkklVIDEEEAEVVrriFELYLEGKSLREIARELNErgiptwSRSTVYRILKNPV 215
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 1-192 5.84e-46

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 155.57  E-value: 5.84e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   1 MSQIFAYCRISTLDQ---TTENQRRE----IESAGFKIkPQQIIEEHISGsaATSERPGFNRLLARLKCG--DQLIVTKL 71
Cdd:COG1961   1 MMRAAGYARVSTDDQeglSLERQREAlrayAEKAGWEI-VRIYVDEGVSG--TSKDRPGLQRLLADLRAGkfDTLVVWKL 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504  72 DRLGCNAMDIRKTVEQLTETGIRVHCLAlGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKRFGRPP- 150
Cdd:COG1961  78 DRLGRNLADLLELVEELKERGVRLISLT-EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGRPPy 156

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 16129504 151 --------VLNEEQKQAV---FERIKSGVSISAIAREFKT------SRQTILRAKAKLQ 192
Cdd:COG1961 157 gyrdpkklVIDEEEAEVVrriFELYLEGKSLREIARELNErgiptwSRSTVYRILKNPV 215
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 4-135 1.86e-45

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: 146.47  E-value: 1.86e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   4 IFAYCRISTLDQTTENQRREIESAGfkiKPQQIIEEHISGsaATSERPGFNRLLARLKCGDQLIVTKLDRLGCNAMDIRK 83
Cdd:cd03768   1 VIGYARVSTDDQSLERQLEALKAAG---ECDKIFEEKGSG--GKKERPELQKLLEDLREGDTLVVTKLDRLGRSTKDLLE 75

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 16129504  84 TVEQLTETGIRVHCLaLGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSG 135
Cdd:cd03768  76 IVEELREKGVSLRSL-TEGIDTSTPSGKLMLTILGAFAEFERELIRERTKEG 126
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 4-145 1.32e-38

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: 129.67  E-value: 1.32e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504      4 IFAYCRISTLDQ---TTENQRREIESA----GFKIKpQQIIEEHISGSaaTSERPGFNRLLARLKCGDQ--LIVTKLDRL 74
Cdd:smart00857   1 AAGYARVSTDDQadgSLERQLEALRAYaernGWEVV-RIYEDEGVSGK--KADRPGLQRLLADLRAGDIdvLVVYKLDRL 77

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16129504     75 GCNAMDIRKTVEQLTETGIRVHCLALGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKR 145
Cdd:smart00857  78 GRSLRDLLALLELLEEKGVRLVSLKEGILDTSTPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 4-145 4.76e-38

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: 128.16  E-value: 4.76e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504     4 IFAYCRISTLDQ--TTENQRREIESAGFKIKPQQIIEEHIsGSAATSERPGFNRLLARLK--CGDQLIVTKLDRLGCNAM 79
Cdd:pfam00239   1 AIGYARVSTEDQddSLERQLEALRAYAACNGKIVEFEDKG-VSGRKLDRPGLQRLLALLRagKGDVLVVYKLDRLGRSLR 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16129504    80 DIRKTVEQLTETGIRVHCLAlGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKR 145
Cdd:pfam00239  80 DLLTLVEELREKGVDLVSLD-EGIDTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
4-186 1.78e-24

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 94.78  E-value: 1.78e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504    4 IFAYCRISTLDQTTENQRREI----ESAGFKIkpQQIIEEHISGSAATSERPgFNRLLARLKCGDQLIVTKLDRLGCNAM 79
Cdd:PRK13413   2 IYAYIRVSTDKQTVENQRFEItnfaEKNNLTI--DKWIEETISGTKSYKDRK-LGKLLKKMRKGDILIVSELSRLGRNLM 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   80 DIRKTVEQLTETGIRVHCLALG---GIDLTSptgKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKRFGRPP-VLNEE 155
Cdd:PRK13413  79 EIMSILNICMEKEVIVYTIKEGyelGDDINS---KVLAFAFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKgSTPKK 155

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 16129504  156 -----QKQAVFERIKSGVSISAIAREFKTSRQTILR 186
Cdd:PRK13413 156 ykltgKEEKIKKLLDKGTSKSEIARKLGVSRTTLAR 191
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 1-192 5.84e-46

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 155.57  E-value: 5.84e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   1 MSQIFAYCRISTLDQ---TTENQRRE----IESAGFKIkPQQIIEEHISGsaATSERPGFNRLLARLKCG--DQLIVTKL 71
Cdd:COG1961   1 MMRAAGYARVSTDDQeglSLERQREAlrayAEKAGWEI-VRIYVDEGVSG--TSKDRPGLQRLLADLRAGkfDTLVVWKL 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504  72 DRLGCNAMDIRKTVEQLTETGIRVHCLAlGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKRFGRPP- 150
Cdd:COG1961  78 DRLGRNLADLLELVEELKERGVRLISLT-EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGRPPy 156

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 16129504 151 --------VLNEEQKQAV---FERIKSGVSISAIAREFKT------SRQTILRAKAKLQ 192
Cdd:COG1961 157 gyrdpkklVIDEEEAEVVrriFELYLEGKSLREIARELNErgiptwSRSTVYRILKNPV 215
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 4-135 1.86e-45

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: 146.47  E-value: 1.86e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   4 IFAYCRISTLDQTTENQRREIESAGfkiKPQQIIEEHISGsaATSERPGFNRLLARLKCGDQLIVTKLDRLGCNAMDIRK 83
Cdd:cd03768   1 VIGYARVSTDDQSLERQLEALKAAG---ECDKIFEEKGSG--GKKERPELQKLLEDLREGDTLVVTKLDRLGRSTKDLLE 75

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|..
gi 16129504  84 TVEQLTETGIRVHCLaLGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSG 135
Cdd:cd03768  76 IVEELREKGVSLRSL-TEGIDTSTPSGKLMLTILGAFAEFERELIRERTKEG 126
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 4-145 1.32e-38

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: 129.67  E-value: 1.32e-38
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504      4 IFAYCRISTLDQ---TTENQRREIESA----GFKIKpQQIIEEHISGSaaTSERPGFNRLLARLKCGDQ--LIVTKLDRL 74
Cdd:smart00857   1 AAGYARVSTDDQadgSLERQLEALRAYaernGWEVV-RIYEDEGVSGK--KADRPGLQRLLADLRAGDIdvLVVYKLDRL 77

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 16129504     75 GCNAMDIRKTVEQLTETGIRVHCLALGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKR 145
Cdd:smart00857  78 GRSLRDLLALLELLEEKGVRLVSLKEGILDTSTPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 4-145 4.76e-38

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: 128.16  E-value: 4.76e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504     4 IFAYCRISTLDQ--TTENQRREIESAGFKIKPQQIIEEHIsGSAATSERPGFNRLLARLK--CGDQLIVTKLDRLGCNAM 79
Cdd:pfam00239   1 AIGYARVSTEDQddSLERQLEALRAYAACNGKIVEFEDKG-VSGRKLDRPGLQRLLALLRagKGDVLVVYKLDRLGRSLR 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 16129504    80 DIRKTVEQLTETGIRVHCLAlGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKR 145
Cdd:pfam00239  80 DLLTLVEELREKGVDLVSLD-EGIDTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 6-135 6.15e-25

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: 94.25  E-value: 6.15e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   6 AYCRISTLDQ----TTENQRREIES--AGFKIKPQQIIEEHISGSAATSERPGFNRLLARLKCG--DQLIVTKLDRLGCN 77
Cdd:cd00338   1 IYARVSTDKQeqgdSLERQREALREyaARNGLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGkiDVVLVEKLDRLSRN 80

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 16129504  78 AMDIRKTVEQLTETGIRVHCLAlGGIDLTSPTGKMMMQVISAVAEFERDLLLERTHSG 135
Cdd:cd00338  81 LVDLLELLELLEAHGVRVVTAD-GEIDLDSEDGRLMLGILAAMAEEESKLISERTKRG 137
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
4-186 1.78e-24

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 94.78  E-value: 1.78e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504    4 IFAYCRISTLDQTTENQRREI----ESAGFKIkpQQIIEEHISGSAATSERPgFNRLLARLKCGDQLIVTKLDRLGCNAM 79
Cdd:PRK13413   2 IYAYIRVSTDKQTVENQRFEItnfaEKNNLTI--DKWIEETISGTKSYKDRK-LGKLLKKMRKGDILIVSELSRLGRNLM 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   80 DIRKTVEQLTETGIRVHCLALG---GIDLTSptgKMMMQVISAVAEFERDLLLERTHSGIVRARGAGKRFGRPP-VLNEE 155
Cdd:PRK13413  79 EIMSILNICMEKEVIVYTIKEGyelGDDINS---KVLAFAFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKgSTPKK 155

                        170       180       190
                 ....*....|....*....|....*....|....*.
gi 16129504  156 -----QKQAVFERIKSGVSISAIAREFKTSRQTILR 186
Cdd:PRK13413 156 ykltgKEEKIKKLLDKGTSKSEIARKLGVSRTTLAR 191
HTH_Hin_like cd00569
Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of ...
 147-187 5.10e-12

Helix-turn-helix domain of Hin and related proteins; This domain model summarizes a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a C-terminal DNA-binding domain (HTH_Hin) and a catalytic domain.


Pssm-ID: 259851 [Multi-domain]  Cd Length: 42  Bit Score: 58.11  E-value: 5.10e-12
                        10        20        30        40
                ....*....|....*....|....*....|....*....|.
gi 16129504 147 GRPPVLNEEQKQAVFERIKSGVSISAIAREFKTSRQTILRA 187
Cdd:cd00569   1 GRPPKLTPEQIAEARRLLAAGESVAEIARELGVSRSTLYRY 41
HTH_7 pfam02796
Helix-turn-helix domain of resolvase;
147-191 7.83e-09

Helix-turn-helix domain of resolvase;


Pssm-ID: 397088 [Multi-domain]  Cd Length: 45  Bit Score: 49.66  E-value: 7.83e-09
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 16129504   147 GRPPVLNEEQKQAVFERIKSGVSISAIAREFKTSRQTILRAKAKL 191
Cdd:pfam02796   1 GRPPKLNEEDINEVITLLEEGISIKQIAKIFGISRSTVYRYLAAS 45
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 4-129 3.17e-08

Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, 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 subgroup is composed of proteins similar to the E. coli resolvase found in the par region of the RP4 plasmid, which encodes a highly efficient partitioning system. This protein is part of a complex stabilization system involved in the resolution of plasmid dimers during cell division. Similar to Tn3 and other resolvases, members of this family may contain a C-terminal DNA binding domain.


Pssm-ID: 239736 [Multi-domain]  Cd Length: 146  Bit Score: 50.40  E-value: 3.17e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   4 IFAYCRISTLDQTTENQRREIES----AGFKIkpQQIIEEHISGSAAtsERPGFNRLLARLKCGDQLIVTKLDRLG-CNA 78
Cdd:cd03767   1 IRAYLRASTDEQDATRAKESLEAfateRGFYI--AGFYVENASGAKL--DRPELFRLLDDAQSGDVLLVEQIDRLSrLPL 76

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504  79 MDIRKTVEQLTETGIRVHCLALggidltsPTGKMMMQ---------VISAVAEFERDLLL 129
Cdd:cd03767  77 DDWETLKASIAAKGLRVVSLDL-------PTSHSALAaedndftgrILSAINDMLLDLLA 129
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 7-105 2.11e-03

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: 36.96  E-value: 2.11e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 16129504   7 YCRISTLDQTT------ENQRREIE----SAGFKIKpQQIIEEHISGSaaTSERPGFNRLLARLKCG--DQLIVTKLDRL 74
Cdd:cd03770   4 YCRLSRDDDLDgesnsiENQKAILEeyakENGLENI-RHYIDDGFSGT--TFDRPGFNRMIEDIEAGkiDIVIVKDMSRL 80

                        90       100       110
                ....*....|....*....|....*....|..
gi 16129504  75 GCNAMDIRKTVEQL-TETGIRVHCLAlGGIDL 105
Cdd:cd03770  81 GRNYLKVGLYMEILfPKKGVRFIAIN-DGVDS 111
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 156-193 7.57e-03

Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is likely to be DNA-binding.


Pssm-ID: 463908 [Multi-domain]  Cd Length: 52  Bit Score: 33.33  E-value: 7.57e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 16129504   156 QKQAVFERIKSGVSISAIAREFKTSRQTILRAKAKLQT 193
Cdd:pfam13518   1 ERLKIVLLALEGESIKEAARLFGISRSTVYRWIRRYRE 38
 
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.
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