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Conserved domains on  [gi|1589831833|ref|WP_131255918|]
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MULTISPECIES: recombinase family protein [Bacillus cereus group]

Protein Classification

recombinase family protein( domain architecture ID 10132964)

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

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List of domain hits

 Name Accession Description Interval E-value
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 5-145 2.83e-29

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: 105.64  E-value: 2.83e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   5 TFGYVRISTDDQNEGRQIEKMKELGIMERdIIIDKKTGTNMDRENYQMLKHHLvRSGDTIVFDSLTRLGRNMENTLEEYK 84
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKAAGECDK-IFEEKGSGGKKERPELQKLLEDL-REGDTLVVTKLDRLGRSTKDLLEIVE 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1589831833  85 FFENNKINLKFIEEPYinlihtddqTTNDiiqvAIKKSTLTVLSAFAQKEREDTHKRQAEG 145
Cdd:cd03768    79 ELREKGVSLRSLTEGI---------DTST----PSGKLMLTILGAFAEFERELIRERTKEG 126
 
Name Accession Description Interval E-value
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 5-145 2.83e-29

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: 105.64  E-value: 2.83e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   5 TFGYVRISTDDQNEGRQIEKMKELGIMERdIIIDKKTGTNMDRENYQMLKHHLvRSGDTIVFDSLTRLGRNMENTLEEYK 84
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKAAGECDK-IFEEKGSGGKKERPELQKLLEDL-REGDTLVVTKLDRLGRSTKDLLEIVE 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1589831833  85 FFENNKINLKFIEEPYinlihtddqTTNDiiqvAIKKSTLTVLSAFAQKEREDTHKRQAEG 145
Cdd:cd03768    79 ELREKGVSLRSLTEGI---------DTST----PSGKLMLTILGAFAEFERELIRERTKEG 126
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 5-155 2.76e-25

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: 95.77  E-value: 2.76e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833    5 TFGYVRISTDDQNEG---RQIEKMKEL----GIMERDIIIDK-KTGTNMDRENYQ-MLKHhlVRSGD--TIVFDSLTRLG 73
Cdd:smart00857   1 AAGYARVSTDDQADGsleRQLEALRAYaernGWEVVRIYEDEgVSGKKADRPGLQrLLAD--LRAGDidVLVVYKLDRLG 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   74 RNMENTLEEYKFFENNKINLKFIEEPYInlihtDDQTTNDiiqvaikKSTLTVLSAFAQKEREDTHKRQAEGIALARKNG 153
Cdd:smart00857  79 RSLRDLLALLELLEEKGVRLVSLKEGIL-----DTSTPAG-------RLLLDILAALAEFERELISERTKAGLARAAARG 146


                   ..
gi 1589831833  154 KH 155
Cdd:smart00857 147 RW 148
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 4-159 4.15e-25

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 100.87  E-value: 4.15e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   4 KTFGYVRISTDDQNEG---RQIEKMKEL----GIMERDIIIDK-KTGTNMDRENYQ-MLKHhlVRSG--DTIVFDSLTRL 72
Cdd:COG1961     3 RAAGYARVSTDDQEGLsleRQREALRAYaekaGWEIVRIYVDEgVSGTSKDRPGLQrLLAD--LRAGkfDTLVVWKLDRL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833  73 GRNMENTLEEYKFFENNKINLKFIEEPYinlihtDDQTTNDiiqvaikKSTLTVLSAFAQKEREDTHKRQAEGIALARKN 152
Cdd:COG1961    81 GRNLADLLELVEELKERGVRLISLTEGI------DTSTPMG-------RLLLTILAAFAEFERELISERTRAGLAAAKAR 147


                  ....*..
gi 1589831833 153 GKHLGRP 159
Cdd:COG1961   148 GKYLGRP 154
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 6-155 1.68e-23

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: 91.18  E-value: 1.68e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   6 FGYVRISTDDQNEG--RQIEKMKELGIMERDI--IIDK-KTGTNMDRENYQ-MLKHHLVRSGDTIVFDSLTRLGRNMENT 79
Cdd:pfam00239   2 IGYARVSTEDQDDSleRQLEALRAYAACNGKIveFEDKgVSGRKLDRPGLQrLLALLRAGKGDVLVVYKLDRLGRSLRDL 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1589831833  80 LEEYKFFENNKINLKFIEEPYinlihtDDQTTNDiiqvaikKSTLTVLSAFAQKEREDTHKRQAEGIALARKNGKH 155
Cdd:pfam00239  82 LTLVEELREKGVDLVSLDEGI------DTSTPMG-------RLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
6-155 4.68e-05

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 42.40  E-value: 4.68e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   6 FGYVRISTDDQ---NEGRQIEKMKElgimERDIIIDK-------KTGTNMDRENYQMLKHhlVRSGDTIVFDSLTRLGRN 75
Cdd:PRK13413    3 YAYIRVSTDKQtveNQRFEITNFAE----KNNLTIDKwieetisGTKSYKDRKLGKLLKK--MRKGDILIVSELSRLGRN 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833  76 MENTLEEYKFFENNKINLKFIEEPYinliHTDDQTTNDIIQVAIKKSTLTVLSAFAQKEREDTHKRQAEGIALARKNGKH 155
Cdd:PRK13413   77 LMEIMSILNICMEKEVIVYTIKEGY----ELGDDINSKVLAFAFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKGST 152
 
Name Accession Description Interval E-value
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 5-145 2.83e-29

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: 105.64  E-value: 2.83e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   5 TFGYVRISTDDQNEGRQIEKMKELGIMERdIIIDKKTGTNMDRENYQMLKHHLvRSGDTIVFDSLTRLGRNMENTLEEYK 84
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKAAGECDK-IFEEKGSGGKKERPELQKLLEDL-REGDTLVVTKLDRLGRSTKDLLEIVE 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1589831833  85 FFENNKINLKFIEEPYinlihtddqTTNDiiqvAIKKSTLTVLSAFAQKEREDTHKRQAEG 145
Cdd:cd03768    79 ELREKGVSLRSLTEGI---------DTST----PSGKLMLTILGAFAEFERELIRERTKEG 126
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 5-155 2.76e-25

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: 95.77  E-value: 2.76e-25
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833    5 TFGYVRISTDDQNEG---RQIEKMKEL----GIMERDIIIDK-KTGTNMDRENYQ-MLKHhlVRSGD--TIVFDSLTRLG 73
Cdd:smart00857   1 AAGYARVSTDDQADGsleRQLEALRAYaernGWEVVRIYEDEgVSGKKADRPGLQrLLAD--LRAGDidVLVVYKLDRLG 78

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   74 RNMENTLEEYKFFENNKINLKFIEEPYInlihtDDQTTNDiiqvaikKSTLTVLSAFAQKEREDTHKRQAEGIALARKNG 153
Cdd:smart00857  79 RSLRDLLALLELLEEKGVRLVSLKEGIL-----DTSTPAG-------RLLLDILAALAEFERELISERTKAGLARAAARG 146


                   ..
gi 1589831833  154 KH 155
Cdd:smart00857 147 RW 148
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 4-159 4.15e-25

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 100.87  E-value: 4.15e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   4 KTFGYVRISTDDQNEG---RQIEKMKEL----GIMERDIIIDK-KTGTNMDRENYQ-MLKHhlVRSG--DTIVFDSLTRL 72
Cdd:COG1961     3 RAAGYARVSTDDQEGLsleRQREALRAYaekaGWEIVRIYVDEgVSGTSKDRPGLQrLLAD--LRAGkfDTLVVWKLDRL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833  73 GRNMENTLEEYKFFENNKINLKFIEEPYinlihtDDQTTNDiiqvaikKSTLTVLSAFAQKEREDTHKRQAEGIALARKN 152
Cdd:COG1961    81 GRNLADLLELVEELKERGVRLISLTEGI------DTSTPMG-------RLLLTILAAFAEFERELISERTRAGLAAAKAR 147


                  ....*..
gi 1589831833 153 GKHLGRP 159
Cdd:COG1961   148 GKYLGRP 154
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 6-155 1.68e-23

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: 91.18  E-value: 1.68e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   6 FGYVRISTDDQNEG--RQIEKMKELGIMERDI--IIDK-KTGTNMDRENYQ-MLKHHLVRSGDTIVFDSLTRLGRNMENT 79
Cdd:pfam00239   2 IGYARVSTEDQDDSleRQLEALRAYAACNGKIveFEDKgVSGRKLDRPGLQrLLALLRAGKGDVLVVYKLDRLGRSLRDL 81

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1589831833  80 LEEYKFFENNKINLKFIEEPYinlihtDDQTTNDiiqvaikKSTLTVLSAFAQKEREDTHKRQAEGIALARKNGKH 155
Cdd:pfam00239  82 LTLVEELREKGVDLVSLDEGI------DTSTPMG-------RLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 8-145 3.31e-14

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: 66.52  E-value: 3.31e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   8 YVRISTDDQNEG----RQIEKMKEL----GIMERDIIIDKKTG--TNMDRENYQ-MLKHHLVRSGDTIVFDSLTRLGRNM 76
Cdd:cd00338     2 YARVSTDKQEQGdsleRQREALREYaarnGLEVVGEYEDAGSSatSLVDRPGLQrLLADVKAGKIDVVLVEKLDRLSRNL 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1589831833  77 ENTLEEYKFFENNKINLKFIEEPYinlihtDDQTTNDIIQvaikkstLTVLSAFAQKEREDTHKRQAEG 145
Cdd:cd00338    82 VDLLELLELLEAHGVRVVTADGEI------DLDSEDGRLM-------LGILAAMAEEESKLISERTKRG 137
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 7-145 1.46e-05

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: 43.47  E-value: 1.46e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   7 GYVRISTDDQNEGRQIEKM----KELGIMERDIIIDKKTGTNMDR-ENYQMLKHhlVRSGDTIVFDSLTRLGRNMENTLE 81
Cdd:cd03767     3 AYLRASTDEQDATRAKESLeafaTERGFYIAGFYVENASGAKLDRpELFRLLDD--AQSGDVLLVEQIDRLSRLPLDDWE 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1589831833  82 EYKFFENNK---INLKFIEEPYINLIHTDDQTTNDIIQvAIKKSTLTVLSAFAQKEREDTHKRQAEG 145
Cdd:cd03767    81 TLKASIAAKglrVVSLDLPTSHSALAAEDNDFTGRILS-AINDMLLDLLAAMARKDYEDRRERQKQG 146
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
6-155 4.68e-05

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 42.40  E-value: 4.68e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833   6 FGYVRISTDDQ---NEGRQIEKMKElgimERDIIIDK-------KTGTNMDRENYQMLKHhlVRSGDTIVFDSLTRLGRN 75
Cdd:PRK13413    3 YAYIRVSTDKQtveNQRFEITNFAE----KNNLTIDKwieetisGTKSYKDRKLGKLLKK--MRKGDILIVSELSRLGRN 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1589831833  76 MENTLEEYKFFENNKINLKFIEEPYinliHTDDQTTNDIIQVAIKKSTLTVLSAFAQKEREDTHKRQAEGIALARKNGKH 155
Cdd:PRK13413   77 LMEIMSILNICMEKEVIVYTIKEGY----ELGDDINSKVLAFAFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKGST 152
 
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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