NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|488632505|ref|WP_002569190|]
View 

MULTISPECIES: recombinase family protein [Bacteria]

Protein Classification

recombinase family protein( domain architecture ID 10133161)

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:0000150|GO:0003677|GO:0006310
PubMed:  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_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 8-147 1.19e-66

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: 212.61  E-value: 1.19e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   8 TALYCRLSQEDMQAGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLSRL 87
Cdd:cd03770    1 TALYCRLSRDDDLDGESNSIENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRL 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  88 GRNYLKTGELIEIVFPEYEVRYIAINDGVDTAREDNEFTPLRNWFNEFYARDTSKKIRAV 147
Cdd:cd03770   81 GRNYLKVGLYMEILFPKKGVRFIAINDGVDSADGDDDFIPFKNILNEWYAKDISRKIKAS 140
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 6-424 8.77e-55

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


:

Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 189.85  E-value: 8.77e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   6 KITALYCRLSQEDmqaGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLS 85
Cdd:COG1961    2 MRAAGYARVSTDD---QEGLSLERQREALRAYAEKAGWEIVRIYVDEGVSGTSKDRPGLQRLLADLRAGKFDTLVVWKLD 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  86 RLGRNYLKTGELIEIvFPEYEVRYIAINDGVDTAREDNEFT-PLRNWFNEFYARDTSKKIRAVKQAKAQKGeRVNGEAPY 164
Cdd:COG1961   79 RLGRNLADLLELVEE-LKERGVRLISLTEGIDTSTPMGRLLlTILAAFAEFERELISERTRAGLAAAKARG-KYLGRPPY 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 165 GYlidpDNRNHLIPDPETAHVVKQIFAMYVRGDRMCEIQNWLRDNEILTvgelryrrtgskrhprpqlnawynWPDKTLY 244
Cdd:COG1961  157 GY----RDPKKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERGIPT------------------------WSRSTVY 208

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 245 DILTRKEYLGHTITGKTYKVSYKSKKTKKNPEEKRYFFPNTHEPLIDEETFELAQKRIATRQRPTKVDEIDLFSGLLFCG 324
Cdd:COG1961  209 RILKNPVYGGLGVYGLGKKIVTEKGERKVRRRRKRRVIREEEERVRRRELAAKRARRLLKGKLLRGLRGRKKRGGGRKRR 288

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 325 DCGYKMYAVRGAGTLERKHAYTCGNYRNRARNDMLCTTHYIRKSVLKELVLADLQRVTSYVKEHEQEFIETANECSAKAV 404
Cdd:COG1961  289 RGGGRRLCGRLGRLRKGGRLRRCRLGRRLKASARKLARGKLKEALLLEVLLELLELLLDLALLLLLEELAALLELLAAEL 368

                        410       420
                 ....*....|....*....|
gi 488632505 405 QKTLTQQRKELDKAQNRINE 424
Cdd:COG1961  369 ELELEEERAQALLELKLLLL 388
DUF4368 pfam14287
Domain of unknown function (DUF4368); This domain family is found in bacteria, and is ...
 473-534 1.03e-20

Domain of unknown function (DUF4368); This domain family is found in bacteria, and is approximately 70 amino acids in length. The family is found in association with pfam00239 and pfam07508. There is a single completely conserved residue G that may be functionally important.


:

Pssm-ID: 433840 [Multi-domain]  Cd Length: 64  Bit Score: 85.64  E-value: 1.03e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488632505  473 NATERSADVKRFVALVRRYTAIEELTYENVHEFIDRILIHELDKETNTR--KIEIFYSFVGRVD 534
Cdd:pfam14287   1 KLEQKAADVDKFIALVRKYTDITELTPEILNEFIEKIEVHEPEKRDGKRtqRIDIYYNFVGAID 64
 
Name Accession Description Interval E-value
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 8-147 1.19e-66

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: 212.61  E-value: 1.19e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   8 TALYCRLSQEDMQAGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLSRL 87
Cdd:cd03770    1 TALYCRLSRDDDLDGESNSIENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRL 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  88 GRNYLKTGELIEIVFPEYEVRYIAINDGVDTAREDNEFTPLRNWFNEFYARDTSKKIRAV 147
Cdd:cd03770   81 GRNYLKVGLYMEILFPKKGVRFIAINDGVDSADGDDDFIPFKNILNEWYAKDISRKIKAS 140
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 6-424 8.77e-55

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 189.85  E-value: 8.77e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   6 KITALYCRLSQEDmqaGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLS 85
Cdd:COG1961    2 MRAAGYARVSTDD---QEGLSLERQREALRAYAEKAGWEIVRIYVDEGVSGTSKDRPGLQRLLADLRAGKFDTLVVWKLD 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  86 RLGRNYLKTGELIEIvFPEYEVRYIAINDGVDTAREDNEFT-PLRNWFNEFYARDTSKKIRAVKQAKAQKGeRVNGEAPY 164
Cdd:COG1961   79 RLGRNLADLLELVEE-LKERGVRLISLTEGIDTSTPMGRLLlTILAAFAEFERELISERTRAGLAAAKARG-KYLGRPPY 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 165 GYlidpDNRNHLIPDPETAHVVKQIFAMYVRGDRMCEIQNWLRDNEILTvgelryrrtgskrhprpqlnawynWPDKTLY 244
Cdd:COG1961  157 GY----RDPKKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERGIPT------------------------WSRSTVY 208

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 245 DILTRKEYLGHTITGKTYKVSYKSKKTKKNPEEKRYFFPNTHEPLIDEETFELAQKRIATRQRPTKVDEIDLFSGLLFCG 324
Cdd:COG1961  209 RILKNPVYGGLGVYGLGKKIVTEKGERKVRRRRKRRVIREEEERVRRRELAAKRARRLLKGKLLRGLRGRKKRGGGRKRR 288

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 325 DCGYKMYAVRGAGTLERKHAYTCGNYRNRARNDMLCTTHYIRKSVLKELVLADLQRVTSYVKEHEQEFIETANECSAKAV 404
Cdd:COG1961  289 RGGGRRLCGRLGRLRKGGRLRRCRLGRRLKASARKLARGKLKEALLLEVLLELLELLLDLALLLLLEELAALLELLAAEL 368

                        410       420
                 ....*....|....*....|
gi 488632505 405 QKTLTQQRKELDKAQNRINE 424
Cdd:COG1961  369 ELELEEERAQALLELKLLLL 388
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 8-157 1.20e-29

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: 113.87  E-value: 1.20e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505     8 TALYCRLSQEDmqaGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLSRL 87
Cdd:smart00857   1 AAGYARVSTDD---QADGSLERQLEALRAYAERNGWEVVRIYEDEGVSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRL 77

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488632505    88 GRNYLKTGELIEiVFPEYEVRYIAINDGV-DTAREDNEFT-PLRNWFNEFYARDTSKKIRAVKQAKAQKGER 157
Cdd:smart00857  78 GRSLRDLLALLE-LLEEKGVRLVSLKEGIlDTSTPAGRLLlDILAALAEFERELISERTKAGLARAAARGRW 148
DUF4368 pfam14287
Domain of unknown function (DUF4368); This domain family is found in bacteria, and is ...
 473-534 1.03e-20

Domain of unknown function (DUF4368); This domain family is found in bacteria, and is approximately 70 amino acids in length. The family is found in association with pfam00239 and pfam07508. There is a single completely conserved residue G that may be functionally important.


Pssm-ID: 433840 [Multi-domain]  Cd Length: 64  Bit Score: 85.64  E-value: 1.03e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488632505  473 NATERSADVKRFVALVRRYTAIEELTYENVHEFIDRILIHELDKETNTR--KIEIFYSFVGRVD 534
Cdd:pfam14287   1 KLEQKAADVDKFIALVRKYTDITELTPEILNEFIEKIEVHEPEKRDGKRtqRIDIYYNFVGAID 64
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 9-157 1.02e-19

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: 85.78  E-value: 1.02e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505    9 ALYCRLSQEDmqagESESIQNQKLILQKYADEHHffNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLSRLG 88
Cdd:pfam00239   2 IGYARVSTED----QDDSLERQLEALRAYAACNG--KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLG 75

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488632505   89 RNylkTGELIEIV--FPEYEVRYIAINDGVDTAR-EDNEFTPLRNWFNEFYARDTSKKIRAVKQAKAQKGER 157
Cdd:pfam00239  76 RS---LRDLLTLVeeLREKGVDLVSLDEGIDTSTpMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
Recombinase pfam07508
Recombinase; This domain is usually found associated with pfam00239 in putative integrases ...
 180-305 1.37e-18

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: 80.90  E-value: 1.37e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  180 PETAHVVKQIFAMYVRGDRMCEIQNWLRDNEILTvgelryrRTGskrhprpqlnawYNWPDKTLYDILTRKEYLGHTITG 259
Cdd:pfam07508   1 PEEAEIVRLIFELYLEGKSLRSIARYLNEQGIPT-------PRG------------KDWSPSTVRRILTNPAYIGILVYG 61

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 488632505  260 KTykvsyKSKKTKKNPEEKRYFFPNTHEPLIDEETFELAQKRIATR 305
Cdd:pfam07508  62 KT-----KKKRRKRNPDEEWIVIEGAHPPIISEELFEAVQERLSER 102
GumC COG3206
Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];
381-490 8.17e-03

Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442439 [Multi-domain]  Cd Length: 687  Bit Score: 39.23  E-value: 8.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 381 VTSYVKEHEQEFIETANEcSAKAVQKTLTQQRKELDKAQNRINElnilFRKLYEDNALgklsdeqfafltsgyDEEKKTL 460
Cdd:COG3206  158 AEAYLEQNLELRREEARK-ALEFLEEQLPELRKELEEAEAALEE----FRQKNGLVDL---------------SEEAKLL 217

                         90       100       110
                 ....*....|....*....|....*....|
gi 488632505 461 TRRIAELSQEIDNATERSADVKRFVALVRR 490
Cdd:COG3206  218 LQQLSELESQLAEARAELAEAEARLAALRA 247
 
Name Accession Description Interval E-value
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 8-147 1.19e-66

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: 212.61  E-value: 1.19e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   8 TALYCRLSQEDMQAGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLSRL 87
Cdd:cd03770    1 TALYCRLSRDDDLDGESNSIENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRL 80

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  88 GRNYLKTGELIEIVFPEYEVRYIAINDGVDTAREDNEFTPLRNWFNEFYARDTSKKIRAV 147
Cdd:cd03770   81 GRNYLKVGLYMEILFPKKGVRFIAINDGVDSADGDDDFIPFKNILNEWYAKDISRKIKAS 140
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 6-424 8.77e-55

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 189.85  E-value: 8.77e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   6 KITALYCRLSQEDmqaGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLS 85
Cdd:COG1961    2 MRAAGYARVSTDD---QEGLSLERQREALRAYAEKAGWEIVRIYVDEGVSGTSKDRPGLQRLLADLRAGKFDTLVVWKLD 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  86 RLGRNYLKTGELIEIvFPEYEVRYIAINDGVDTAREDNEFT-PLRNWFNEFYARDTSKKIRAVKQAKAQKGeRVNGEAPY 164
Cdd:COG1961   79 RLGRNLADLLELVEE-LKERGVRLISLTEGIDTSTPMGRLLlTILAAFAEFERELISERTRAGLAAAKARG-KYLGRPPY 156

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 165 GYlidpDNRNHLIPDPETAHVVKQIFAMYVRGDRMCEIQNWLRDNEILTvgelryrrtgskrhprpqlnawynWPDKTLY 244
Cdd:COG1961  157 GY----RDPKKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERGIPT------------------------WSRSTVY 208

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 245 DILTRKEYLGHTITGKTYKVSYKSKKTKKNPEEKRYFFPNTHEPLIDEETFELAQKRIATRQRPTKVDEIDLFSGLLFCG 324
Cdd:COG1961  209 RILKNPVYGGLGVYGLGKKIVTEKGERKVRRRRKRRVIREEEERVRRRELAAKRARRLLKGKLLRGLRGRKKRGGGRKRR 288

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 325 DCGYKMYAVRGAGTLERKHAYTCGNYRNRARNDMLCTTHYIRKSVLKELVLADLQRVTSYVKEHEQEFIETANECSAKAV 404
Cdd:COG1961  289 RGGGRRLCGRLGRLRKGGRLRRCRLGRRLKASARKLARGKLKEALLLEVLLELLELLLDLALLLLLEELAALLELLAAEL 368

                        410       420
                 ....*....|....*....|
gi 488632505 405 QKTLTQQRKELDKAQNRINE 424
Cdd:COG1961  369 ELELEEERAQALLELKLLLL 388
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 8-157 1.20e-29

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: 113.87  E-value: 1.20e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505     8 TALYCRLSQEDmqaGESESIQNQKLILQKYADEHHFFNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLSRL 87
Cdd:smart00857   1 AAGYARVSTDD---QADGSLERQLEALRAYAERNGWEVVRIYEDEGVSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRL 77

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488632505    88 GRNYLKTGELIEiVFPEYEVRYIAINDGV-DTAREDNEFT-PLRNWFNEFYARDTSKKIRAVKQAKAQKGER 157
Cdd:smart00857  78 GRSLRDLLALLE-LLEEKGVRLVSLKEGIlDTSTPAGRLLlDILAALAEFERELISERTKAGLARAAARGRW 148
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 10-146 5.71e-22

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: 91.94  E-value: 5.71e-22
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  10 LYCRLSQEDMQAGESesIQNQKLILQKYADEHHFFNTRFFVDDGFSGVS-FEREGLQAMLHEVEAGNVATVITKDLSRLG 88
Cdd:cd00338    1 IYARVSTDKQEQGDS--LERQREALREYAARNGLEVVGEYEDAGSSATSlVDRPGLQRLLADVKAGKIDVVLVEKLDRLS 78

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 488632505  89 RNYLKTGELIEIvFPEYEVRYIAINDGVDTAREDNEFT-PLRNWFNEFYARDTSKKIRA 146
Cdd:cd00338   79 RNLVDLLELLEL-LEAHGVRVVTADGEIDLDSEDGRLMlGILAAMAEEESKLISERTKR 136
DUF4368 pfam14287
Domain of unknown function (DUF4368); This domain family is found in bacteria, and is ...
 473-534 1.03e-20

Domain of unknown function (DUF4368); This domain family is found in bacteria, and is approximately 70 amino acids in length. The family is found in association with pfam00239 and pfam07508. There is a single completely conserved residue G that may be functionally important.


Pssm-ID: 433840 [Multi-domain]  Cd Length: 64  Bit Score: 85.64  E-value: 1.03e-20
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488632505  473 NATERSADVKRFVALVRRYTAIEELTYENVHEFIDRILIHELDKETNTR--KIEIFYSFVGRVD 534
Cdd:pfam14287   1 KLEQKAADVDKFIALVRKYTDITELTPEILNEFIEKIEVHEPEKRDGKRtqRIDIYYNFVGAID 64
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 9-157 1.02e-19

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: 85.78  E-value: 1.02e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505    9 ALYCRLSQEDmqagESESIQNQKLILQKYADEHHffNTRFFVDDGFSGVSFEREGLQAMLHEVEAGNVATVITKDLSRLG 88
Cdd:pfam00239   2 IGYARVSTED----QDDSLERQLEALRAYAACNG--KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLG 75

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 488632505   89 RNylkTGELIEIV--FPEYEVRYIAINDGVDTAR-EDNEFTPLRNWFNEFYARDTSKKIRAVKQAKAQKGER 157
Cdd:pfam00239  76 RS---LRDLLTLVeeLREKGVDLVSLDEGIDTSTpMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
Recombinase pfam07508
Recombinase; This domain is usually found associated with pfam00239 in putative integrases ...
 180-305 1.37e-18

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: 80.90  E-value: 1.37e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505  180 PETAHVVKQIFAMYVRGDRMCEIQNWLRDNEILTvgelryrRTGskrhprpqlnawYNWPDKTLYDILTRKEYLGHTITG 259
Cdd:pfam07508   1 PEEAEIVRLIFELYLEGKSLRSIARYLNEQGIPT-------PRG------------KDWSPSTVRRILTNPAYIGILVYG 61

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*.
gi 488632505  260 KTykvsyKSKKTKKNPEEKRYFFPNTHEPLIDEETFELAQKRIATR 305
Cdd:pfam07508  62 KT-----KKKRRKRNPDEEWIVIEGAHPPIISEELFEAVQERLSER 102
Zn_ribbon_recom pfam13408
Recombinase zinc beta ribbon domain; This short bacterial protein contains a zinc ribbon ...
 316-379 1.22e-14

Recombinase zinc beta ribbon domain; This short bacterial protein contains a zinc ribbon domain that is likely to be DNA-binding. This domain is found in site specific recombinase proteins. This family appears most closely related to pfam04606.


Pssm-ID: 433183 [Multi-domain]  Cd Length: 58  Bit Score: 68.42  E-value: 1.22e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 488632505  316 LFSGLLFCGDCGYKMYAVRGAGtleRKHAYTCGNYRNRARNdmlCTTHYIRKSVLKELVLADLQ 379
Cdd:pfam13408   1 LLSGLLRCGECGSPMTGRTSKG---GKRYYRCSTRRRKGKK---CSNHSIREEELEEAVLEALR 58
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 8-119 3.98e-12

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: 63.27  E-value: 3.98e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   8 TALYCRLSQEDmqagesESIQNQKLILQKYADEHHFFntrffvDDGFSGVSFEREGLQAMLHEVEAGNvaTVITKDLSRL 87
Cdd:cd03768    1 VIGYARVSTDD------QSLERQLEALKAAGECDKIF------EEKGSGGKKERPELQKLLEDLREGD--TLVVTKLDRL 66

                         90       100       110
                 ....*....|....*....|....*....|....
gi 488632505  88 GRNYLktgELIEIV--FPEYEVRYIAINDGVDTA 119
Cdd:cd03768   67 GRSTK---DLLEIVeeLREKGVSLRSLTEGIDTS 97
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 8-122 4.09e-05

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: 43.40  E-value: 4.09e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505   8 TALYCRLSQEDMQagesESIQNQKLILQKYADEHhFFNTRFFVDDGfSGVSFEREGLQAMLHEVEAGNVATVIT--KD-L 84
Cdd:cd03769    1 TVLYARVSSHDQK----DDLERQIERLEAYATAQ-GWIVEVIKDIG-SGLNEKRKGLLKLLEDVLAGKVERVVItyKDrL 74

                         90       100       110
                 ....*....|....*....|....*....|....*...
gi 488632505  85 SRLGrnylktGELIEIVFPEYEVRYIAINDGVDTARED 122
Cdd:cd03769   75 ARFG------FELLEELFKAYGVEIVVINQEENEELEQ 106
GumC COG3206
Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];
381-490 8.17e-03

Exopolysaccharide export protein/domain GumC/Wzc1 [Cell wall/membrane/envelope biogenesis];


Pssm-ID: 442439 [Multi-domain]  Cd Length: 687  Bit Score: 39.23  E-value: 8.17e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 488632505 381 VTSYVKEHEQEFIETANEcSAKAVQKTLTQQRKELDKAQNRINElnilFRKLYEDNALgklsdeqfafltsgyDEEKKTL 460
Cdd:COG3206  158 AEAYLEQNLELRREEARK-ALEFLEEQLPELRKELEEAEAALEE----FRQKNGLVDL---------------SEEAKLL 217

                         90       100       110
                 ....*....|....*....|....*....|
gi 488632505 461 TRRIAELSQEIDNATERSADVKRFVALVRR 490
Cdd:COG3206  218 LQQLSELESQLAEARAELAEAEARLAALRA 247
 
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