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Conserved domains on  [gi|779874225|ref|WP_045358070|]
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recombinase family protein [Enterobacter asburiae]

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 ...
 4-223 3.81e-22

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


:

Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 93.55  E-value: 3.81e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225   4 AIGYMRYSSKLQGAGStIHRQKSLINKWVEDQKthhgkVYEVKFYTDKGLSGWTGEnllAGALGRLIEEVEAGgypEGTP 83
Cdd:COG1961    4 AAGYARVSTDDQEGLS-LERQREALRAYAEKAG-----WEIVRIYVDEGVSGTSKD---RPGLQRLLADLRAG---KFDT 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225  84 IILESIDSLSRQGHEeATAILRRLTSTGCVVHSildrqVVQRSDLKTFIGAMQIIAVAERGREESDIKSERVSSSKERNy 163
Cdd:COG1961   72 LVVWKLDRLGRNLAD-LLELVEELKERGVRLIS-----LTEGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAA- 144

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225 164 elAKLGKKLVTRNLpGWiylDQKGKMQIDPAKQKLVKEIFEMRLAGHTYQGIAETMTNRG 223
Cdd:COG1961  145 --KARGKYLGRPPY-GY---RDPKKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERG 198
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 4-223 3.81e-22

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 93.55  E-value: 3.81e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225   4 AIGYMRYSSKLQGAGStIHRQKSLINKWVEDQKthhgkVYEVKFYTDKGLSGWTGEnllAGALGRLIEEVEAGgypEGTP 83
Cdd:COG1961    4 AAGYARVSTDDQEGLS-LERQREALRAYAEKAG-----WEIVRIYVDEGVSGTSKD---RPGLQRLLADLRAG---KFDT 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225  84 IILESIDSLSRQGHEeATAILRRLTSTGCVVHSildrqVVQRSDLKTFIGAMQIIAVAERGREESDIKSERVSSSKERNy 163
Cdd:COG1961   72 LVVWKLDRLGRNLAD-LLELVEELKERGVRLIS-----LTEGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAA- 144

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225 164 elAKLGKKLVTRNLpGWiylDQKGKMQIDPAKQKLVKEIFEMRLAGHTYQGIAETMTNRG 223
Cdd:COG1961  145 --KARGKYLGRPPY-GY---RDPKKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERG 198
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 7-158 4.24e-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: 72.29  E-value: 4.24e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225   7 YMRYSSKLQGAGSTIHRQKSLINKWVEDqktHHGKVYEVkfYTDKGLSGWTGENllAGALGRLIEEVEAGgypEGTPIIL 86
Cdd:cd00338    2 YARVSTDKQEQGDSLERQREALREYAAR---NGLEVVGE--YEDAGSSATSLVD--RPGLQRLLADVKAG---KIDVVLV 71

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 779874225  87 ESIDSLSRQGHEEATaILRRLTSTGCVVHSIlDRQVvqrsDLKTFIGAMQIIAVAERGREESDIKSERVSSS 158
Cdd:cd00338   72 EKLDRLSRNLVDLLE-LLELLEAHGVRVVTA-DGEI----DLDSEDGRLMLGILAAMAEEESKLISERTKRG 137
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 4-171 3.80e-15

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: 69.96  E-value: 3.80e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225     4 AIGYMRYSSKLQGAGStIHRQKSLINKWVEDQkthhgKVYEVKFYTDKGLSGWTGENllaGALGRLIEEVEAGGYPEgtp 83
Cdd:smart00857   1 AAGYARVSTDDQADGS-LERQLEALRAYAERN-----GWEVVRIYEDEGVSGKKADR---PGLQRLLADLRAGDIDV--- 68

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225    84 IILESIDSLSRQGhEEATAILRRLTSTGCVVHSILDrqvvQRSDLKTFIGAM--QIIA-VAErgrEESDIKSERVSSSKE 160
Cdd:smart00857  69 LVVYKLDRLGRSL-RDLLALLELLEEKGVRLVSLKE----GILDTSTPAGRLllDILAaLAE---FERELISERTKAGLA 140

                          170
                   ....*....|.
gi 779874225   161 RnyeLAKLGKK 171
Cdd:smart00857 141 R---AAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 4-161 1.81e-11

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: 59.98  E-value: 1.81e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225    4 AIGYMRYSSKLQGAGstIHRQKSLINKWVEDqkthHGKVYEvkfYTDKGLSGWTGENllaGALGRLIEEVEAGgypEGTP 83
Cdd:pfam00239   1 AIGYARVSTEDQDDS--LERQLEALRAYAAC----NGKIVE---FEDKGVSGRKLDR---PGLQRLLALLRAG---KGDV 65

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 779874225   84 IILESIDSLSRQGHEEATaILRRLTSTGCVVHSILDRQvvqrsDLKTFIGAMQIIAVAERGREESDIKSERVSSSKER 161
Cdd:pfam00239  66 LVVYKLDRLGRSLRDLLT-LVEELREKGVDLVSLDEGI-----DTSTPMGRLLLTILAALAEFERALIRERTRAGLAA 137
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 4-223 3.81e-22

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 93.55  E-value: 3.81e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225   4 AIGYMRYSSKLQGAGStIHRQKSLINKWVEDQKthhgkVYEVKFYTDKGLSGWTGEnllAGALGRLIEEVEAGgypEGTP 83
Cdd:COG1961    4 AAGYARVSTDDQEGLS-LERQREALRAYAEKAG-----WEIVRIYVDEGVSGTSKD---RPGLQRLLADLRAG---KFDT 71

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225  84 IILESIDSLSRQGHEeATAILRRLTSTGCVVHSildrqVVQRSDLKTFIGAMQIIAVAERGREESDIKSERVSSSKERNy 163
Cdd:COG1961   72 LVVWKLDRLGRNLAD-LLELVEELKERGVRLIS-----LTEGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAA- 144

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225 164 elAKLGKKLVTRNLpGWiylDQKGKMQIDPAKQKLVKEIFEMRLAGHTYQGIAETMTNRG 223
Cdd:COG1961  145 --KARGKYLGRPPY-GY---RDPKKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERG 198
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 7-158 4.24e-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: 72.29  E-value: 4.24e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225   7 YMRYSSKLQGAGSTIHRQKSLINKWVEDqktHHGKVYEVkfYTDKGLSGWTGENllAGALGRLIEEVEAGgypEGTPIIL 86
Cdd:cd00338    2 YARVSTDKQEQGDSLERQREALREYAAR---NGLEVVGE--YEDAGSSATSLVD--RPGLQRLLADVKAG---KIDVVLV 71

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 779874225  87 ESIDSLSRQGHEEATaILRRLTSTGCVVHSIlDRQVvqrsDLKTFIGAMQIIAVAERGREESDIKSERVSSS 158
Cdd:cd00338   72 EKLDRLSRNLVDLLE-LLELLEAHGVRVVTA-DGEI----DLDSEDGRLMLGILAAMAEEESKLISERTKRG 137
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 4-171 3.80e-15

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: 69.96  E-value: 3.80e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225     4 AIGYMRYSSKLQGAGStIHRQKSLINKWVEDQkthhgKVYEVKFYTDKGLSGWTGENllaGALGRLIEEVEAGGYPEgtp 83
Cdd:smart00857   1 AAGYARVSTDDQADGS-LERQLEALRAYAERN-----GWEVVRIYEDEGVSGKKADR---PGLQRLLADLRAGDIDV--- 68

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225    84 IILESIDSLSRQGhEEATAILRRLTSTGCVVHSILDrqvvQRSDLKTFIGAM--QIIA-VAErgrEESDIKSERVSSSKE 160
Cdd:smart00857  69 LVVYKLDRLGRSL-RDLLALLELLEEKGVRLVSLKE----GILDTSTPAGRLllDILAaLAE---FERELISERTKAGLA 140

                          170
                   ....*....|.
gi 779874225   161 RnyeLAKLGKK 171
Cdd:smart00857 141 R---AAARGRW 148
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 4-161 1.81e-11

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: 59.98  E-value: 1.81e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225    4 AIGYMRYSSKLQGAGstIHRQKSLINKWVEDqkthHGKVYEvkfYTDKGLSGWTGENllaGALGRLIEEVEAGgypEGTP 83
Cdd:pfam00239   1 AIGYARVSTEDQDDS--LERQLEALRAYAAC----NGKIVE---FEDKGVSGRKLDR---PGLQRLLALLRAG---KGDV 65

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 779874225   84 IILESIDSLSRQGHEEATaILRRLTSTGCVVHSILDRQvvqrsDLKTFIGAMQIIAVAERGREESDIKSERVSSSKER 161
Cdd:pfam00239  66 LVVYKLDRLGRSLRDLLT-LVEELREKGVDLVSLDEGI-----DTSTPMGRLLLTILAALAEFERALIRERTRAGLAA 137
Recombinase pfam07508
Recombinase; This domain is usually found associated with pfam00239 in putative integrases ...
 193-223 4.93e-04

Recombinase; This domain is usually found associated with pfam00239 in putative integrases/recombinases of mobile genetic elements of diverse bacteria and phages.


Pssm-ID: 429502 [Multi-domain]  Cd Length: 102  Bit Score: 38.53  E-value: 4.93e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 779874225  193 PAKQKLVKEIFEMRLAGHTYQGIAETMTNRG 223
Cdd:pfam07508   1 PEEAEIVRLIFELYLEGKSLRSIARYLNEQG 31
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 6-76 7.91e-04

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: 38.50  E-value: 7.91e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 779874225   6 GYMRYSS--KLQGAGSTIHRQKSLINKWVEDQKthhgkVYEVKFYTDKGLSGWTGENllaGALGRLIEEVEAG 76
Cdd:cd03770    3 LYCRLSRddDLDGESNSIENQKAILEEYAKENG-----LENIRHYIDDGFSGTTFDR---PGFNRMIEDIEAG 67
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 4-119 1.44e-03

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: 37.46  E-value: 1.44e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 779874225   4 AIGYMRYSSKLQgagsTIHRQKSLINKWVEDqkthhgkvyeVKFYTDKGLSGWTGENllagALGRLIEEVEaggypEGTP 83
Cdd:cd03768    1 VIGYARVSTDDQ----SLERQLEALKAAGEC----------DKIFEEKGSGGKKERP----ELQKLLEDLR-----EGDT 57

                         90       100       110
                 ....*....|....*....|....*....|....*.
gi 779874225  84 IILESIDSLSRQGhEEATAILRRLTSTGCVVHSILD 119
Cdd:cd03768   58 LVVTKLDRLGRST-KDLLEIVEELREKGVSLRSLTE 92
 
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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