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Conserved domains on  [gi|2295387466|gb|UWI15886|]
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MAG: hypothetical protein [Bacteriophage sp.]

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:0000150|GO:0003677|GO:0006310
PubMed:  21645851|26104451
SCOP:  3000065

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 ...
 7-372 5.82e-67

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


:

Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 221.05  E-value: 5.82e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEQSIEGQLRDCYAYAQREGLQVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:COG1961     4 AAGYARVSTDDQEGLSLERQREALRAYAEKAGWEIVRIYVDEGVSGTSKDRPGLQRLLADLRAGKFDTLVVWKLDRLGRN 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENI-SDEPEGIILEGLLESMAEYYSANLSKHVRRGQRESIINGTYLgGVPPIGYKVeN 165
Cdd:COG1961    84 LADLLELVEELKERGVRLISLTEGIdTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYL-GRPPYGYRD-P 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 166 KRLVIDERTAPTIRYMFEQYAKGVPKREIIAELNARGIRNkkgkpLTLSSMQAALRNEKYIGIYRYSGQEVTGGCEALID 245
Cdd:COG1961   162 KKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERGIPT-----WSRSTVYRILKNPVYGGLGVYGLGKKIVTEKGERK 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 246 EATFRKVQERLDKVKHAPAAAKAKIDYLLQGKAFCGYCGSRMVGESGRGKMGNTYHYYACGKRKKEHTCAKKNEKKDFIE 325
Cdd:COG1961   237 VRRRRKRRVIREEEERVRRRELAAKRARRLLKGKLLRGLRGRKKRGGGRKRRRGGGRRLCGRLGRLRKGGRLRRCRLGRR 316

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 2295387466 326 WYVVEQTVEYVLTPDRMDYIAAALVAQYEKDFGDNRIKDYEKQLERI 372
Cdd:COG1961   317 LKASARKLARGKLKEALLLEVLLELLELLLDLALLLLLEELAALLEL 363
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 7-372 5.82e-67

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 221.05  E-value: 5.82e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEQSIEGQLRDCYAYAQREGLQVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:COG1961     4 AAGYARVSTDDQEGLSLERQREALRAYAEKAGWEIVRIYVDEGVSGTSKDRPGLQRLLADLRAGKFDTLVVWKLDRLGRN 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENI-SDEPEGIILEGLLESMAEYYSANLSKHVRRGQRESIINGTYLgGVPPIGYKVeN 165
Cdd:COG1961    84 LADLLELVEELKERGVRLISLTEGIdTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYL-GRPPYGYRD-P 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 166 KRLVIDERTAPTIRYMFEQYAKGVPKREIIAELNARGIRNkkgkpLTLSSMQAALRNEKYIGIYRYSGQEVTGGCEALID 245
Cdd:COG1961   162 KKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERGIPT-----WSRSTVYRILKNPVYGGLGVYGLGKKIVTEKGERK 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 246 EATFRKVQERLDKVKHAPAAAKAKIDYLLQGKAFCGYCGSRMVGESGRGKMGNTYHYYACGKRKKEHTCAKKNEKKDFIE 325
Cdd:COG1961   237 VRRRRKRRVIREEEERVRRRELAAKRARRLLKGKLLRGLRGRKKRGGGRKRRRGGGRRLCGRLGRLRKGGRLRRCRLGRR 316

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 2295387466 326 WYVVEQTVEYVLTPDRMDYIAAALVAQYEKDFGDNRIKDYEKQLERI 372
Cdd:COG1961   317 LKASARKLARGKLKEALLLEVLLELLELLLDLALLLLLEELAALLEL 363
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 7-152 5.31e-46

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: 157.79  E-value: 5.31e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466    7 AVIYARYSSHSQQEQSIEGQLRDCYAYAQREGLQVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:smart00857   1 AAGYARVSTDDQADGSLERQLEALRAYAERNGWEVVRIYEDEGVSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRS 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2295387466   87 RYDSAHYKAKLKKYGVKVVSATENISDE--PEGIILEGLLESMAEYYSANLSKHVRRGQRESIINGTY 152
Cdd:smart00857  81 LRDLLALLELLEEKGVRLVSLKEGILDTstPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 9-142 7.01e-41

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: 143.56  E-value: 7.01e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   9 IYARYSSHSQ-QEQSIEGQLRDCYAYAQREGLQVVGEYIDRAISGKT-DERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:cd00338     1 IYARVSTDKQeQGDSLERQREALREYAARNGLEVVGEYEDAGSSATSlVDRPGLQRLLADVKAGKIDVVLVEKLDRLSRN 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENIS-DEPEGIILEGLLESMAEYYSANLSKHVRRG 142
Cdd:cd00338    81 LVDLLELLELLEAHGVRVVTADGEIDlDSEDGRLMLGILAAMAEEESKLISERTKRG 137
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 7-152 5.97e-36

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: 130.47  E-value: 5.97e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHsQQEQSIEGQLRDCYAYAQREGlqVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:pfam00239   1 AIGYARVSTE-DQDDSLERQLEALRAYAACNG--KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLGRS 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENI-SDEPEGIILEGLLESMAEYYSANLSKHVRRGQRESIINGTY 152
Cdd:pfam00239  78 LRDLLTLVEELREKGVDLVSLDEGIdTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
transpos_IS607 NF033518
IS607 family transposase;
7-125 3.34e-08

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 53.41  E-value: 3.34e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEqSIEGQLRDCYAYAQREGLQVVgEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:NF033518   56 TVIYARVSSADQKD-DLERQVARLTQYATAKGWQVD-EVVTDIGSGLNEKRKGLLKLLDDILNGEVSRVVVEHKDRLTRF 133

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2295387466  87 RYDsaHYKAKLKKYGVKVVSATENiSDEPEGIILEGLLE 125
Cdd:NF033518  134 GFE--YLEALFKANGVEIVVVNED-EKSPEEELVEDLIE 169
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 7-372 5.82e-67

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 221.05  E-value: 5.82e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEQSIEGQLRDCYAYAQREGLQVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:COG1961     4 AAGYARVSTDDQEGLSLERQREALRAYAEKAGWEIVRIYVDEGVSGTSKDRPGLQRLLADLRAGKFDTLVVWKLDRLGRN 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENI-SDEPEGIILEGLLESMAEYYSANLSKHVRRGQRESIINGTYLgGVPPIGYKVeN 165
Cdd:COG1961    84 LADLLELVEELKERGVRLISLTEGIdTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYL-GRPPYGYRD-P 161

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 166 KRLVIDERTAPTIRYMFEQYAKGVPKREIIAELNARGIRNkkgkpLTLSSMQAALRNEKYIGIYRYSGQEVTGGCEALID 245
Cdd:COG1961   162 KKLVIDEEEAEVVRRIFELYLEGKSLREIARELNERGIPT-----WSRSTVYRILKNPVYGGLGVYGLGKKIVTEKGERK 236

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 246 EATFRKVQERLDKVKHAPAAAKAKIDYLLQGKAFCGYCGSRMVGESGRGKMGNTYHYYACGKRKKEHTCAKKNEKKDFIE 325
Cdd:COG1961   237 VRRRRKRRVIREEEERVRRRELAAKRARRLLKGKLLRGLRGRKKRGGGRKRRRGGGRRLCGRLGRLRKGGRLRRCRLGRR 316

                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....*..
gi 2295387466 326 WYVVEQTVEYVLTPDRMDYIAAALVAQYEKDFGDNRIKDYEKQLERI 372
Cdd:COG1961   317 LKASARKLARGKLKEALLLEVLLELLELLLDLALLLLLEELAALLEL 363
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 7-152 5.31e-46

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: 157.79  E-value: 5.31e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466    7 AVIYARYSSHSQQEQSIEGQLRDCYAYAQREGLQVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:smart00857   1 AAGYARVSTDDQADGSLERQLEALRAYAERNGWEVVRIYEDEGVSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRS 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2295387466   87 RYDSAHYKAKLKKYGVKVVSATENISDE--PEGIILEGLLESMAEYYSANLSKHVRRGQRESIINGTY 152
Cdd:smart00857  81 LRDLLALLELLEEKGVRLVSLKEGILDTstPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 9-142 7.01e-41

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: 143.56  E-value: 7.01e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   9 IYARYSSHSQ-QEQSIEGQLRDCYAYAQREGLQVVGEYIDRAISGKT-DERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:cd00338     1 IYARVSTDKQeQGDSLERQREALREYAARNGLEVVGEYEDAGSSATSlVDRPGLQRLLADVKAGKIDVVLVEKLDRLSRN 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENIS-DEPEGIILEGLLESMAEYYSANLSKHVRRG 142
Cdd:cd00338    81 LVDLLELLELLEAHGVRVVTADGEIDlDSEDGRLMLGILAAMAEEESKLISERTKRG 137
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 7-152 5.97e-36

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: 130.47  E-value: 5.97e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHsQQEQSIEGQLRDCYAYAQREGlqVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:pfam00239   1 AIGYARVSTE-DQDDSLERQLEALRAYAACNG--KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLGRS 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENI-SDEPEGIILEGLLESMAEYYSANLSKHVRRGQRESIINGTY 152
Cdd:pfam00239  78 LRDLLTLVEELREKGVDLVSLDEGIdTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 7-142 8.61e-17

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: 76.75  E-value: 8.61e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSShsqQEQSIEGQLRDCYAYAQreglqVVGEYIDRaISGKTDERPDFQRMIADAskKQFQRVIVWKLDRFARN 86
Cdd:cd03768     1 VIGYARVST---DDQSLERQLEALKAAGE-----CDKIFEEK-GSGGKKERPELQKLLEDL--REGDTLVVTKLDRLGRS 69

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2295387466  87 RYDSAHYKAKLKKYGVKVVSATENISDE-PEGIILEGLLESMAEYYSANLSKHVRRG 142
Cdd:cd03768    70 TKDLLEIVEELREKGVSLRSLTEGIDTStPSGKLMLTILGAFAEFERELIRERTKEG 126
Recombinase pfam07508
Recombinase; This domain is usually found associated with pfam00239 in putative integrases ...
 172-257 6.17e-15

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: 70.50  E-value: 6.17e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 172 ERTAPTIRYMFEQYAKGVPKREIIAELNARGIRNKKGKPLTLSSMQAALRNEKYIGIYRYSGQE--------------VT 237
Cdd:pfam07508   1 PEEAEIVRLIFELYLEGKSLRSIARYLNEQGIPTPRGKDWSPSTVRRILTNPAYIGILVYGKTKkkrrkrnpdeewivIE 80

                          90       100
                  ....*....|....*....|
gi 2295387466 238 GGCEALIDEATFRKVQERLD 257
Cdd:pfam07508  81 GAHPPIISEELFEAVQERLS 100
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 7-142 2.34e-14

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: 70.09  E-value: 2.34e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEQ---SIEGQLRDCYAYAQREGLQVVGEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRF 83
Cdd:cd03770     1 TALYCRLSRDDDLDGesnSIENQKAILEEYAKENGLENIRHYIDDGFSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466  84 ARNRYDSAHYKAKLK-KYGVKVVSATENISDEPEGIILEGLLESMAEYYSANLSKHVRRG 142
Cdd:cd03770    81 GRNYLKVGLYMEILFpKKGVRFIAINDGVDSADGDDDFIPFKNILNEWYAKDISRKIKAS 140
Zn_ribbon_recom pfam13408
Recombinase zinc beta ribbon domain; This short bacterial protein contains a zinc ribbon ...
 273-331 3.33e-08

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: 49.93  E-value: 3.33e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466 273 LLQGKAFCGYCGSRMVGESGRGKmgntYHYYACGKRKKEH-TCAKKNEKKDFIEWYVVEQ 331
Cdd:pfam13408   1 LLSGLLRCGECGSPMTGRTSKGG----KRYYRCSTRRRKGkKCSNHSIREEELEEAVLEA 56
transpos_IS607 NF033518
IS607 family transposase;
7-125 3.34e-08

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 53.41  E-value: 3.34e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEqSIEGQLRDCYAYAQREGLQVVgEYIDRAISGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:NF033518   56 TVIYARVSSADQKD-DLERQVARLTQYATAKGWQVD-EVVTDIGSGLNEKRKGLLKLLDDILNGEVSRVVVEHKDRLTRF 133

                          90       100       110
                  ....*....|....*....|....*....|....*....
gi 2295387466  87 RYDsaHYKAKLKKYGVKVVSATENiSDEPEGIILEGLLE 125
Cdd:NF033518  134 GFE--YLEALFKANGVEIVVVNED-EKSPEEELVEDLIE 169
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 7-125 5.91e-08

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: 51.49  E-value: 5.91e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEqSIEGQLRDCYAYAQREGlQVVGEYIDRAiSGKTDERPDFQRMIADASKKQFQRVIVWKLDRFARN 86
Cdd:cd03769     1 TVLYARVSSHDQKD-DLERQIERLEAYATAQG-WIVEVIKDIG-SGLNEKRKGLLKLLEDVLAGKVERVVITYKDRLARF 77

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 2295387466  87 RYDsaHYKAKLKKYGVK--VVSATENISDEPEgiILEGLLE 125
Cdd:cd03769    78 GFE--LLEELFKAYGVEivVINQEENEELEQE--LVEDLIE 114
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 9-107 4.20e-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: 4.20e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   9 IYARYSShsqQEQSIEGQLRDCYAYAQREGLQVVGEYIDRAiSGKTDERPDFQRMIADASKKQFqrVIVWKLDRFAR-NR 87
Cdd:cd03767     3 AYLRAST---DEQDATRAKESLEAFATERGFYIAGFYVENA-SGAKLDRPELFRLLDDAQSGDV--LLVEQIDRLSRlPL 76

                          90       100
                  ....*....|....*....|
gi 2295387466  88 YDSAHYKAKLKKYGVKVVSA 107
Cdd:cd03767    77 DDWETLKASIAAKGLRVVSL 96
COG2452 COG2452
Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];
7-105 1.00e-04

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


Pssm-ID: 441988 [Multi-domain]  Cd Length: 178  Bit Score: 43.06  E-value: 1.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2295387466   7 AVIYARYSSHSQQEQsIEGQLRDCYAYAQREGLQVvgEYIDRAISGKTDERPDFQRMIADASKKqfqRVIVWKLDRFARN 86
Cdd:COG2452    50 TVIYARVSSADQKDD-LERQVERLEEYATAKGYQD--EVIKDVGSGLNYKRKGLLKLLERIEVE---RVVVEHKDRLARF 123

                          90
                  ....*....|....*....
gi 2295387466  87 RYDsaHYKAKLKKYGVKVV 105
Cdd:COG2452   124 GFE--LLEALCEAYGVEIV 140
 
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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