NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|2529707860|ref|WP_289448593|]
View 

recombinase family protein [Lactococcus lactis]

Protein Classification

recombinase family protein( domain architecture ID 18951323)

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|GO:0006310
PubMed:  11972771|16077726|9348666|21645851|26104451
SCOP:  3000065

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 3-132 1.70e-44

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: 144.16  E-value: 1.70e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   3 KIGYARVSSKEQNLDRQLEALQ---DVSKVFSDKASGQSTERPQLQAMLTYLREGDIVVVTELDRLGRNNKELTELMNQI 79
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKaagECDKIFEEKGSGGKKERPELQKLLEDLREGDTLVVTKLDRLGRSTKDLLEIVEEL 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2529707860  80 QQKGATLEVLNLpsmtGIEDDNlrrLINNLMIELYKYQAESERKRIRERQAQG 132
Cdd:cd03768    81 REKGVSLRSLTE----GIDTST---PSGKLMLTILGAFAEFERELIRERTKEG 126
HTH_CRP super family cl46859
helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic ...
 144-186 6.33e-03

helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.


The actual alignment was detected with superfamily member pfam02796:

Pssm-ID: 481199 [Multi-domain]  Cd Length: 45  Bit Score: 33.48  E-value: 6.33e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 2529707860 144 GRKKKYSfeDEGLQHAFDLYQQGLTEKEIERKTGINRTTFRRY 186
Cdd:pfam02796   1 GRPPKLN--EEDINEVITLLEEGISIKQIAKIFGISRSTVYRY 41
 
Name Accession Description Interval E-value
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 3-132 1.70e-44

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: 144.16  E-value: 1.70e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   3 KIGYARVSSKEQNLDRQLEALQ---DVSKVFSDKASGQSTERPQLQAMLTYLREGDIVVVTELDRLGRNNKELTELMNQI 79
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKaagECDKIFEEKGSGGKKERPELQKLLEDLREGDTLVVTKLDRLGRSTKDLLEIVEEL 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2529707860  80 QQKGATLEVLNLpsmtGIEDDNlrrLINNLMIELYKYQAESERKRIRERQAQG 132
Cdd:cd03768    81 REKGVSLRSLTE----GIDTST---PSGKLMLTILGAFAEFERELIRERTKEG 126
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 1-189 9.49e-35

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 126.29  E-value: 9.49e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   1 MAKIGYARVSSKEQ---NLDRQLEALQ--------DVSKVFSDKA-SGQSTERPQLQAMLTYLREG--DIVVVTELDRLG 66
Cdd:COG1961     2 MRAAGYARVSTDDQeglSLERQREALRayaekagwEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGkfDTLVVWKLDRLG 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860  67 RNNKELTELMNQIQQKGATLEVLNlpsmtgiEDDNLRRLINNLMIELYKYQAESERKRIRERQAQGIAIAKQRGRFKG-- 144
Cdd:COG1961    82 RNLADLLELVEELKERGVRLISLT-------EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGrp 154

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2529707860 145 ----RKKKYSFEDE----GLQHAFDLYQQGLTEKEIERKT---GI---NRTTFRRYRQK 189
Cdd:COG1961   155 pygyRDPKKLVIDEeeaeVVRRIFELYLEGKSLREIARELnerGIptwSRSTVYRILKN 213
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 4-142 4.19e-33

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: 115.80  E-value: 4.19e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860    4 IGYARVSSKEQ---NLDRQLEALQD--------VSKVFSDKA-SGQSTERPQLQAMLTYLREGDI--VVVTELDRLGRNN 69
Cdd:smart00857   2 AGYARVSTDDQadgSLERQLEALRAyaerngweVVRIYEDEGvSGKKADRPGLQRLLADLRAGDIdvLVVYKLDRLGRSL 81

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2529707860   70 KELTELMNQIQQKGATLEVLNLPsmtgieDDNLRRLINNLMIELYKYQAESERKRIRERQAQGIAIAKQRGRF 142
Cdd:smart00857  82 RDLLALLELLEEKGVRLVSLKEG------ILDTSTPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 4-141 1.66e-31

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: 111.59  E-value: 1.66e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQN--LDRQLEALQDVSK------VFSDK-ASGQSTERPQLQAMLTYLRE--GDIVVVTELDRLGRNNKEL 72
Cdd:pfam00239   2 IGYARVSTEDQDdsLERQLEALRAYAAcngkivEFEDKgVSGRKLDRPGLQRLLALLRAgkGDVLVVYKLDRLGRSLRDL 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2529707860  73 TELMNQIQQKGATLEVLNlpsmtgiEDDNLRRLINNLMIELYKYQAESERKRIRERQAQGIAIAKQRGR 141
Cdd:pfam00239  82 LTLVEELREKGVDLVSLD-------EGIDTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGK 143
recomb_XisF NF041201
fdxN element excision recombinase XisF;
3-151 1.21e-15

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 74.23  E-value: 1.21e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   3 KIGYARVSSKEQN-----LDRQLEALQD--VSKVFSDKASGQSTERPQLQAMLTYLREGDI--VVVTELDRLGRNNKELT 73
Cdd:NF041201    1 IVGYARVSTREQAddghaLEQQIARLKKagASEIFFDIESGRSDKRKGFNQLLKLVKSGKVteIIITRIDRLTRSVVTIY 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2529707860  74 ELMNQIQQKGATLEVLNLPSmtgiedDNLRRLINNLMIELYKYQAESERKRIRERqaqgiaIAKQRGRFKGRKKKYSF 151
Cdd:NF041201   81 KAIEVLQKKGVKLVILDAPL------DDLSSPGGWFTINQLAALAEFESRLLSER------VRHGLEYFREQKKAHPK 146
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
4-186 2.07e-10

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 57.42  E-value: 2.07e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQNLDRQLEALQD--------VSKVFSDKASG-QSTERPQLQAMLTYLREGDIVVVTELDRLGRNNKELTE 74
Cdd:PRK13413    3 YAYIRVSTDKQTVENQRFEITNfaeknnltIDKWIEETISGtKSYKDRKLGKLLKKMRKGDILIVSELSRLGRNLMEIMS 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860  75 LMNQIQQKGATLevlnlpsMTGIEDDNLRRLINNLMIEL-YKYQAESERKRIRERQAQGIAIAKQRGRFKGRKK------ 147
Cdd:PRK13413   83 ILNICMEKEVIV-------YTIKEGYELGDDINSKVLAFaFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKgstpkk 155

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 2529707860 148 -KYSFEDEGLQhafDLYQQGLTEKEIERKTGINRTTFRRY 186
Cdd:PRK13413  156 yKLTGKEEKIK---KLLDKGTSKSEIARKLGVSRTTLARF 192
transpos_IS607 NF033518
IS607 family transposase;
4-90 3.03e-10

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 56.88  E-value: 3.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQ--NLDRQLEALQD--------VSKVFSDKASGQSTERPQLQAMLTYLREGDI--VVVTELDRLGRNNKE 71
Cdd:NF033518   57 VIYARVSSADQkdDLERQVARLTQyatakgwqVDEVVTDIGSGLNEKRKGLLKLLDDILNGEVsrVVVEHKDRLTRFGFE 136

                          90
                  ....*....|....*....
gi 2529707860  72 LteLMNQIQQKGATLEVLN 90
Cdd:NF033518  137 Y--LEALFKANGVEIVVVN 153
HTH_7 pfam02796
Helix-turn-helix domain of resolvase;
144-186 6.33e-03

Helix-turn-helix domain of resolvase;


Pssm-ID: 397088 [Multi-domain]  Cd Length: 45  Bit Score: 33.48  E-value: 6.33e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 2529707860 144 GRKKKYSfeDEGLQHAFDLYQQGLTEKEIERKTGINRTTFRRY 186
Cdd:pfam02796   1 GRPPKLN--EEDINEVITLLEEGISIKQIAKIFGISRSTVYRY 41
 
Name Accession Description Interval E-value
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 3-132 1.70e-44

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: 144.16  E-value: 1.70e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   3 KIGYARVSSKEQNLDRQLEALQ---DVSKVFSDKASGQSTERPQLQAMLTYLREGDIVVVTELDRLGRNNKELTELMNQI 79
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKaagECDKIFEEKGSGGKKERPELQKLLEDLREGDTLVVTKLDRLGRSTKDLLEIVEEL 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2529707860  80 QQKGATLEVLNLpsmtGIEDDNlrrLINNLMIELYKYQAESERKRIRERQAQG 132
Cdd:cd03768    81 REKGVSLRSLTE----GIDTST---PSGKLMLTILGAFAEFERELIRERTKEG 126
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 1-189 9.49e-35

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 126.29  E-value: 9.49e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   1 MAKIGYARVSSKEQ---NLDRQLEALQ--------DVSKVFSDKA-SGQSTERPQLQAMLTYLREG--DIVVVTELDRLG 66
Cdd:COG1961     2 MRAAGYARVSTDDQeglSLERQREALRayaekagwEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGkfDTLVVWKLDRLG 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860  67 RNNKELTELMNQIQQKGATLEVLNlpsmtgiEDDNLRRLINNLMIELYKYQAESERKRIRERQAQGIAIAKQRGRFKG-- 144
Cdd:COG1961    82 RNLADLLELVEELKERGVRLISLT-------EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGrp 154

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2529707860 145 ----RKKKYSFEDE----GLQHAFDLYQQGLTEKEIERKT---GI---NRTTFRRYRQK 189
Cdd:COG1961   155 pygyRDPKKLVIDEeeaeVVRRIFELYLEGKSLREIARELnerGIptwSRSTVYRILKN 213
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 4-142 4.19e-33

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: 115.80  E-value: 4.19e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860    4 IGYARVSSKEQ---NLDRQLEALQD--------VSKVFSDKA-SGQSTERPQLQAMLTYLREGDI--VVVTELDRLGRNN 69
Cdd:smart00857   2 AGYARVSTDDQadgSLERQLEALRAyaerngweVVRIYEDEGvSGKKADRPGLQRLLADLRAGDIdvLVVYKLDRLGRSL 81

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2529707860   70 KELTELMNQIQQKGATLEVLNLPsmtgieDDNLRRLINNLMIELYKYQAESERKRIRERQAQGIAIAKQRGRF 142
Cdd:smart00857  82 RDLLALLELLEEKGVRLVSLKEG------ILDTSTPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 4-141 1.66e-31

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: 111.59  E-value: 1.66e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQN--LDRQLEALQDVSK------VFSDK-ASGQSTERPQLQAMLTYLRE--GDIVVVTELDRLGRNNKEL 72
Cdd:pfam00239   2 IGYARVSTEDQDdsLERQLEALRAYAAcngkivEFEDKgVSGRKLDRPGLQRLLALLRAgkGDVLVVYKLDRLGRSLRDL 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2529707860  73 TELMNQIQQKGATLEVLNlpsmtgiEDDNLRRLINNLMIELYKYQAESERKRIRERQAQGIAIAKQRGR 141
Cdd:pfam00239  82 LTLVEELREKGVDLVSLD-------EGIDTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGK 143
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 6-132 1.24e-18

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: 78.07  E-value: 1.24e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   6 YARVSSKEQN----LDRQLEALQ--------DVSKVFSDKASGQST--ERPQLQAMLTYLREG--DIVVVTELDRLGRNN 69
Cdd:cd00338     2 YARVSTDKQEqgdsLERQREALReyaarnglEVVGEYEDAGSSATSlvDRPGLQRLLADVKAGkiDVVLVEKLDRLSRNL 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2529707860  70 KELTELMNQIQQKGATLEVLNlpsmtgiEDDNLRRLINNLMIELYKYQAESERKRIRERQAQG 132
Cdd:cd00338    82 VDLLELLELLEAHGVRVVTAD-------GEIDLDSEDGRLMLGILAAMAEEESKLISERTKRG 137
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 5-132 2.60e-17

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: 74.67  E-value: 2.60e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   5 GYARVSSKEQNLDRQLEALQ--------DVSKVFSDKASGQSTERPQLQAMLTYLREGDIVVVTELDRLGR-NNKELTEL 75
Cdd:cd03767     3 AYLRASTDEQDATRAKESLEafatergfYIAGFYVENASGAKLDRPELFRLLDDAQSGDVLLVEQIDRLSRlPLDDWETL 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2529707860  76 MNQIQQKGATLEVLNLPS----MTGIEDDNLRRL---INNLMIELYKYQAESERKRIRERQAQG 132
Cdd:cd03767    83 KASIAAKGLRVVSLDLPTshsaLAAEDNDFTGRIlsaINDMLLDLLAAMARKDYEDRRERQKQG 146
recomb_XisF NF041201
fdxN element excision recombinase XisF;
3-151 1.21e-15

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 74.23  E-value: 1.21e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   3 KIGYARVSSKEQN-----LDRQLEALQD--VSKVFSDKASGQSTERPQLQAMLTYLREGDI--VVVTELDRLGRNNKELT 73
Cdd:NF041201    1 IVGYARVSTREQAddghaLEQQIARLKKagASEIFFDIESGRSDKRKGFNQLLKLVKSGKVteIIITRIDRLTRSVVTIY 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2529707860  74 ELMNQIQQKGATLEVLNLPSmtgiedDNLRRLINNLMIELYKYQAESERKRIRERqaqgiaIAKQRGRFKGRKKKYSF 151
Cdd:NF041201   81 KAIEVLQKKGVKLVILDAPL------DDLSSPGGWFTINQLAALAEFESRLLSER------VRHGLEYFREQKKAHPK 146
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
4-186 2.07e-10

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 57.42  E-value: 2.07e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQNLDRQLEALQD--------VSKVFSDKASG-QSTERPQLQAMLTYLREGDIVVVTELDRLGRNNKELTE 74
Cdd:PRK13413    3 YAYIRVSTDKQTVENQRFEITNfaeknnltIDKWIEETISGtKSYKDRKLGKLLKKMRKGDILIVSELSRLGRNLMEIMS 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860  75 LMNQIQQKGATLevlnlpsMTGIEDDNLRRLINNLMIEL-YKYQAESERKRIRERQAQGIAIAKQRGRFKGRKK------ 147
Cdd:PRK13413   83 ILNICMEKEVIV-------YTIKEGYELGDDINSKVLAFaFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKgstpkk 155

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|
gi 2529707860 148 -KYSFEDEGLQhafDLYQQGLTEKEIERKTGINRTTFRRY 186
Cdd:PRK13413  156 yKLTGKEEKIK---KLLDKGTSKSEIARKLGVSRTTLARF 192
transpos_IS607 NF033518
IS607 family transposase;
4-90 3.03e-10

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 56.88  E-value: 3.03e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQ--NLDRQLEALQD--------VSKVFSDKASGQSTERPQLQAMLTYLREGDI--VVVTELDRLGRNNKE 71
Cdd:NF033518   57 VIYARVSSADQkdDLERQVARLTQyatakgwqVDEVVTDIGSGLNEKRKGLLKLLDDILNGEVsrVVVEHKDRLTRFGFE 136

                          90
                  ....*....|....*....
gi 2529707860  72 LteLMNQIQQKGATLEVLN 90
Cdd:NF033518  137 Y--LEALFKANGVEIVVVN 153
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 4-90 5.70e-10

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: 54.96  E-value: 5.70e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQ--NLDRQLEALQD-------VSKVFSDKASGQSTERPQLQAMLTYLREG--DIVVVTELDRLGRNNKEL 72
Cdd:cd03769     2 VLYARVSSHDQkdDLERQIERLEAyataqgwIVEVIKDIGSGLNEKRKGLLKLLEDVLAGkvERVVITYKDRLARFGFEL 81

                          90
                  ....*....|....*...
gi 2529707860  73 TELMnqIQQKGATLEVLN 90
Cdd:cd03769    82 LEEL--FKAYGVEIVVIN 97
COG2452 COG2452
Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];
4-93 4.71e-09

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


Pssm-ID: 441988 [Multi-domain]  Cd Length: 178  Bit Score: 53.46  E-value: 4.71e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2529707860   4 IGYARVSSKEQ--NLDRQLEALQD-------VSKVFSDKASGQSTERPQLQAMLTyLREGDIVVVTELDRLGRNNKELTE 74
Cdd:COG2452    51 VIYARVSSADQkdDLERQVERLEEyatakgyQDEVIKDVGSGLNYKRKGLLKLLE-RIEVERVVVEHKDRLARFGFELLE 129

                          90
                  ....*....|....*....
gi 2529707860  75 LMnqIQQKGATLEVLNLPS 93
Cdd:COG2452   130 AL--CEAYGVEIVVVNQES 146
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 32-82 4.28e-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: 36.19  E-value: 4.28e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 2529707860  32 DKASGQSTERPQLQAMLTYLREG--DIVVVTELDRLGRNNKELTELMNQIQQK 82
Cdd:cd03770    45 DGFSGTTFDRPGFNRMIEDIEAGkiDIVIVKDMSRLGRNYLKVGLYMEILFPK 97
HTH_7 pfam02796
Helix-turn-helix domain of resolvase;
144-186 6.33e-03

Helix-turn-helix domain of resolvase;


Pssm-ID: 397088 [Multi-domain]  Cd Length: 45  Bit Score: 33.48  E-value: 6.33e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 2529707860 144 GRKKKYSfeDEGLQHAFDLYQQGLTEKEIERKTGINRTTFRRY 186
Cdd:pfam02796   1 GRPPKLN--EEDINEVITLLEEGISIKQIAKIFGISRSTVYRY 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