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Conserved domains on  [gi|489767783|ref|WP_003671707|]
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recombinase family protein [Limosilactobacillus reuteri]

Protein Classification

recombinase family protein( domain architecture ID 10085488)

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|GO:0015074
PubMed:  21645851|26104451|11972771|16077726|9348666
SCOP:  3000065

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 21-156 1.11e-40

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: 133.15  E-value: 1.11e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  21 AYCRVSTDNVEQLESLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNHRNALKELLVDCHNQRIDLVITKSISRLSR 100
Cdd:cd00338    1 IYARVSTDKQEQGDSLERQREALREYAARN-GLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGKIDVVLVEKLDRLSR 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489767783 101 NTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESNSTAGNLR 156
Cdd:cd00338   80 NLVDLLELLELLEAHGVRVVTADGEIDLDSEDGRLMLGILAAMAEEESKLISERTK 135
 
Name Accession Description Interval E-value
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 21-156 1.11e-40

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: 133.15  E-value: 1.11e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  21 AYCRVSTDNVEQLESLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNHRNALKELLVDCHNQRIDLVITKSISRLSR 100
Cdd:cd00338    1 IYARVSTDKQEQGDSLERQREALREYAARN-GLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGKIDVVLVEKLDRLSR 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489767783 101 NTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESNSTAGNLR 156
Cdd:cd00338   80 NLVDLLELLELLEAHGVRVVTADGEIDLDSEDGRLMLGILAAMAEEESKLISERTK 135
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 18-156 1.75e-40

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 139.77  E-value: 1.75e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  18 RVAAYCRVSTDNvEQLESLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNhRNALKELLVDCHNQRIDLVITKSISR 97
Cdd:COG1961    3 RAAGYARVSTDD-QEGLSLERQREALRAYAEKA-GWEIVRIYVDEGVSGTSKD-RPGLQRLLADLRAGKFDTLVVWKLDR 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 489767783  98 LSRNTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESNSTAGNLR 156
Cdd:COG1961   80 LGRNLADLLELVEELKERGVRLISLTEGIDTSTPMGRLLLTILAAFAEFERELISERTR 138
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 19-156 5.17e-39

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: 129.28  E-value: 5.17e-39
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783    19 VAAYCRVSTDNvEQLESLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNhRNALKELLVDCHNQRIDLVITKSISRL 98
Cdd:smart00857   1 AAGYARVSTDD-QADGSLERQLEALRAYAERN-GWEVVRIYEDEGVSGKKAD-RPGLQRLLADLRAGDIDVLVVYKLDRL 77

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 489767783    99 SRNTTDCLKIVRELQQLNIPIYFEKERI-NTGEMASELFLSILSSIAQDESNSTAGNLR 156
Cdd:smart00857  78 GRSLRDLLALLELLEEKGVRLVSLKEGIlDTSTPAGRLLLDILAALAEFERELISERTK 136
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 19-149 6.82e-34

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: 116.22  E-value: 6.82e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783   19 VAAYCRVSTDnvEQLESLENQRQHYQEYINRHPNwqlVRVYFDEGISGTKLNhRNALKELLVDCHNQRIDLVITKSISRL 98
Cdd:pfam00239   1 AIGYARVSTE--DQDDSLERQLEALRAYAACNGK---IVEFEDKGVSGRKLD-RPGLQRLLALLRAGKGDVLVVYKLDRL 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 489767783   99 SRNTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESN 149
Cdd:pfam00239  75 GRSLRDLLTLVEELREKGVDLVSLDEGIDTSTPMGRLLLTILAALAEFERA 125
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
19-130 4.70e-07

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 47.40  E-value: 4.70e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  19 VAAYCRVSTDNveqlESLENQRQHYQEYINRHpNWQlVRVYFDEGISGTKLNHRNALKELLvdchnQRI---DLVITKSI 95
Cdd:PRK13413   2 IYAYIRVSTDK----QTVENQRFEITNFAEKN-NLT-IDKWIEETISGTKSYKDRKLGKLL-----KKMrkgDILIVSEL 70

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489767783  96 SRLSRNTTDCLKIVRELQQLNIPIYFEKERINTGE 130
Cdd:PRK13413  71 SRLGRNLMEIMSILNICMEKEVIVYTIKEGYELGD 105
recomb_XisF NF041201
fdxN element excision recombinase XisF;
21-148 6.84e-07

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 47.65  E-value: 6.84e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  21 AYCRVSTdnVEQLE---SLENQrqhyqeyINRHPNWQLVRVYFDegI-SGTKlNHRNALKELLVDCHNQRIDLVITKSIS 96
Cdd:NF041201   3 GYARVST--REQADdghALEQQ-------IARLKKAGASEIFFD--IeSGRS-DKRKGFNQLLKLVKSGKVTEIIITRID 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 489767783  97 RLSRNTTDCLKIVRELQQLNIPIYF-EKERINTGEMASELFLSILSSIAQDES 148
Cdd:NF041201  71 RLTRSVVTIYKAIEVLQKKGVKLVIlDAPLDDLSSPGGWFTINQLAALAEFES 123
 
Name Accession Description Interval E-value
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 21-156 1.11e-40

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: 133.15  E-value: 1.11e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  21 AYCRVSTDNVEQLESLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNHRNALKELLVDCHNQRIDLVITKSISRLSR 100
Cdd:cd00338    1 IYARVSTDKQEQGDSLERQREALREYAARN-GLEVVGEYEDAGSSATSLVDRPGLQRLLADVKAGKIDVVLVEKLDRLSR 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 489767783 101 NTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESNSTAGNLR 156
Cdd:cd00338   80 NLVDLLELLELLEAHGVRVVTADGEIDLDSEDGRLMLGILAAMAEEESKLISERTK 135
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 18-156 1.75e-40

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 139.77  E-value: 1.75e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  18 RVAAYCRVSTDNvEQLESLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNhRNALKELLVDCHNQRIDLVITKSISR 97
Cdd:COG1961    3 RAAGYARVSTDD-QEGLSLERQREALRAYAEKA-GWEIVRIYVDEGVSGTSKD-RPGLQRLLADLRAGKFDTLVVWKLDR 79

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 489767783  98 LSRNTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESNSTAGNLR 156
Cdd:COG1961   80 LGRNLADLLELVEELKERGVRLISLTEGIDTSTPMGRLLLTILAAFAEFERELISERTR 138
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 19-156 5.17e-39

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: 129.28  E-value: 5.17e-39
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783    19 VAAYCRVSTDNvEQLESLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNhRNALKELLVDCHNQRIDLVITKSISRL 98
Cdd:smart00857   1 AAGYARVSTDD-QADGSLERQLEALRAYAERN-GWEVVRIYEDEGVSGKKAD-RPGLQRLLADLRAGDIDVLVVYKLDRL 77

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 489767783    99 SRNTTDCLKIVRELQQLNIPIYFEKERI-NTGEMASELFLSILSSIAQDESNSTAGNLR 156
Cdd:smart00857  78 GRSLRDLLALLELLEEKGVRLVSLKEGIlDTSTPAGRLLLDILAALAEFERELISERTK 136
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 19-149 6.82e-34

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: 116.22  E-value: 6.82e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783   19 VAAYCRVSTDnvEQLESLENQRQHYQEYINRHPNwqlVRVYFDEGISGTKLNhRNALKELLVDCHNQRIDLVITKSISRL 98
Cdd:pfam00239   1 AIGYARVSTE--DQDDSLERQLEALRAYAACNGK---IVEFEDKGVSGRKLD-RPGLQRLLALLRAGKGDVLVVYKLDRL 74

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 489767783   99 SRNTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESN 149
Cdd:pfam00239  75 GRSLRDLLTLVEELREKGVDLVSLDEGIDTSTPMGRLLLTILAALAEFERA 125
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 19-149 2.20e-24

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: 91.00  E-value: 2.20e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  19 VAAYCRVSTDNveqlESLENQRQHYQEYInrhpnwQLVRVYFDEGISGTKlnHRNALKELLVDChnQRIDLVITKSISRL 98
Cdd:cd03768    1 VIGYARVSTDD----QSLERQLEALKAAG------ECDKIFEEKGSGGKK--ERPELQKLLEDL--REGDTLVVTKLDRL 66

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 489767783  99 SRNTTDCLKIVRELQQLNIPIYFEKERINTGEMASELFLSILSSIAQDESN 149
Cdd:cd03768   67 GRSTKDLLEIVEELREKGVSLRSLTEGIDTSTPSGKLMLTILGAFAEFERE 117
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 19-117 1.60e-15

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: 68.93  E-value: 1.60e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  19 VAAYCRVSTDNVEQLE--SLENQRQHYQEYINRHpNWQLVRVYFDEGISGTKLNhRNALKELLVDCHNQRIDLVITKSIS 96
Cdd:cd03770    1 TALYCRLSRDDDLDGEsnSIENQKAILEEYAKEN-GLENIRHYIDDGFSGTTFD-RPGFNRMIEDIEAGKIDIVIVKDMS 78

                         90       100
                 ....*....|....*....|..
gi 489767783  97 RLSRNTTDCLKIVREL-QQLNI 117
Cdd:cd03770   79 RLGRNYLKVGLYMEILfPKKGV 100
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
19-130 4.70e-07

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 47.40  E-value: 4.70e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  19 VAAYCRVSTDNveqlESLENQRQHYQEYINRHpNWQlVRVYFDEGISGTKLNHRNALKELLvdchnQRI---DLVITKSI 95
Cdd:PRK13413   2 IYAYIRVSTDK----QTVENQRFEITNFAEKN-NLT-IDKWIEETISGTKSYKDRKLGKLL-----KKMrkgDILIVSEL 70

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 489767783  96 SRLSRNTTDCLKIVRELQQLNIPIYFEKERINTGE 130
Cdd:PRK13413  71 SRLGRNLMEIMSILNICMEKEVIVYTIKEGYELGD 105
recomb_XisF NF041201
fdxN element excision recombinase XisF;
21-148 6.84e-07

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 47.65  E-value: 6.84e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  21 AYCRVSTdnVEQLE---SLENQrqhyqeyINRHPNWQLVRVYFDegI-SGTKlNHRNALKELLVDCHNQRIDLVITKSIS 96
Cdd:NF041201   3 GYARVST--REQADdghALEQQ-------IARLKKAGASEIFFD--IeSGRS-DKRKGFNQLLKLVKSGKVTEIIITRID 70

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|...
gi 489767783  97 RLSRNTTDCLKIVRELQQLNIPIYF-EKERINTGEMASELFLSILSSIAQDES 148
Cdd:NF041201  71 RLTRSVVTIYKAIEVLQKKGVKLVIlDAPLDDLSSPGGWFTINQLAALAEFES 123
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 19-144 1.61e-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: 42.25  E-value: 1.61e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  19 VAAYCRVSTDnvEQLESLENQRQHYQEYINRhpNWQLVRVYFDEGiSGTKLnHRNALKELLVDCHNQRIDLVITKSISRL 98
Cdd:cd03769    1 TVLYARVSSH--DQKDDLERQIERLEAYATA--QGWIVEVIKDIG-SGLNE-KRKGLLKLLEDVLAGKVERVVITYKDRL 74

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 489767783  99 SRNTTDCLKIVRELQQLNIPIYFEKERIntgEMASELF---LSILSSIA 144
Cdd:cd03769   75 ARFGFELLEELFKAYGVEIVVINQEENE---ELEQELVedlIEIITSFS 120
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 19-104 5.33e-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: 40.77  E-value: 5.33e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  19 VAAYCRVST---DNVEQLESLENQRQHYQEYINrhpnwqlvrVYFDEGISGTKLNhRNALKELLVDCHNQriDLVITKSI 95
Cdd:cd03767    1 IRAYLRASTdeqDATRAKESLEAFATERGFYIA---------GFYVENASGAKLD-RPELFRLLDDAQSG--DVLLVEQI 68


                 ....*....
gi 489767783  96 SRLSRNTTD 104
Cdd:cd03767   69 DRLSRLPLD 77
COG2452 COG2452
Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];
18-144 2.79e-04

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


Pssm-ID: 441988 [Multi-domain]  Cd Length: 178  Bit Score: 39.21  E-value: 2.79e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489767783  18 RVAAYCRVSTDnvEQLESLENQRQHYQEYINRHpNWQlVRVYFDEGiSGtkLN-HRNALKELLVDChnqRIDLVITKSIS 96
Cdd:COG2452   49 RTVIYARVSSA--DQKDDLERQVERLEEYATAK-GYQ-DEVIKDVG-SG--LNyKRKGLLKLLERI---EVERVVVEHKD 118

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|.
gi 489767783  97 RLSRNTTDCLKIVRELQQLNIPIyfekerINTGEMASEL---FLSILSSIA 144
Cdd:COG2452  119 RLARFGFELLEALCEAYGVEIVV------VNQESPEQELvedLIAIITSFS 163
 
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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