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Conserved domains on  [gi|1202259748|gb|ARX42302|]
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DNA resolvase (plasmid) [Klebsiella pneumoniae]

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 ...
 4-196 4.77e-54

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


:

Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 176.75  E-value: 4.77e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   4 RAAIYCRVSTADQ---SCERQEFDLRAFAGCAGYDVVGIFKETG-SGTKLDRAERKKVLALAQSRQIDAILVTELSRWGR 79
Cdd:COG1961     3 RAAGYARVSTDDQeglSLERQREALRAYAEKAGWEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGKFDTLVVWKLDRLGR 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748  80 STLDLLNTLRELENWKVSVIAMNgMAFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKRLGRQA-GVRPK 158
Cdd:COG1961    83 NLADLLELVEELKERGVRLISLT-EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGRPPyGYRDP 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1202259748 159 SD--------RLLPKVVAMRAEGRSYRWIAREL---GI---SKNTVADIVQR 196
Cdd:COG1961   162 KKlvideeeaEVVRRIFELYLEGKSLREIARELnerGIptwSRSTVYRILKN 213
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 4-196 4.77e-54

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 176.75  E-value: 4.77e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   4 RAAIYCRVSTADQ---SCERQEFDLRAFAGCAGYDVVGIFKETG-SGTKLDRAERKKVLALAQSRQIDAILVTELSRWGR 79
Cdd:COG1961     3 RAAGYARVSTDDQeglSLERQREALRAYAEKAGWEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGKFDTLVVWKLDRLGR 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748  80 STLDLLNTLRELENWKVSVIAMNgMAFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKRLGRQA-GVRPK 158
Cdd:COG1961    83 NLADLLELVEELKERGVRLISLT-EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGRPPyGYRDP 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1202259748 159 SD--------RLLPKVVAMRAEGRSYRWIAREL---GI---SKNTVADIVQR 196
Cdd:COG1961   162 KKlvideeeaEVVRRIFELYLEGKSLREIARELnerGIptwSRSTVYRILKN 213
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 5-148 1.34e-44

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: 145.07  E-value: 1.34e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748    5 AAIYCRVSTADQ---SCERQEFDLRAFAGCAGYDVVGIFKETG-SGTKLDRAERKKVLALAQSRQIDAILVTELSRWGRS 80
Cdd:smart00857   1 AAGYARVSTDDQadgSLERQLEALRAYAERNGWEVVRIYEDEGvSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRS 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1202259748   81 TLDLLNTLRELENWKVSVIAMNGMAFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKR 148
Cdd:smart00857  81 LRDLLALLELLEEKGVRLVSLKEGILDTSTPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 5-138 2.82e-44

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: 143.39  E-value: 2.82e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   5 AAIYCRVSTADQSCERQEFDLRAFAGCagydvVGIFKETGSGTKLDRAERKKVLALAqsRQIDAILVTELSRWGRSTLDL 84
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKAAGEC-----DKIFEEKGSGGKKERPELQKLLEDL--REGDTLVVTKLDRLGRSTKDL 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1202259748  85 LNTLRELENWKVSVIAMNGMaFDLSSPYGRMLATFLSGIAEFERDLISERVKSG 138
Cdd:cd03768    74 LEIVEELREKGVSLRSLTEG-IDTSTPSGKLMLTILGAFAEFERELIRERTKEG 126
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 5-148 8.27e-43

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: 140.48  E-value: 8.27e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   5 AAIYCRVSTADQ--SCERQEFDLRAFAGCAGyDVVGIFKETGSGTKLDRAERKKVLALAQSRQIDAILVTELSRWGRSTL 82
Cdd:pfam00239   1 AIGYARVSTEDQddSLERQLEALRAYAACNG-KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLGRSLR 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1202259748  83 DLLNTLRELENWKVSVIAMNGMaFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKR 148
Cdd:pfam00239  80 DLLTLVEELREKGVDLVSLDEG-IDTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
8-198 1.47e-26

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 100.56  E-value: 1.47e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   8 YCRVSTADQSCERQEFDLRAFAGCAGYDVVGIFKETGSGTKlDRAERKKVLALAQSRQIDAILVTELSRWGRSTLDLLNT 87
Cdd:PRK13413    5 YIRVSTDKQTVENQRFEITNFAEKNNLTIDKWIEETISGTK-SYKDRKLGKLLKKMRKGDILIVSELSRLGRNLMEIMSI 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748  88 LRELENWKVSVIAMNG---MAFDLSSpygRMLATFLSGIAEFERDLISERVKSGLAVAKARGKRLGRQAGVRPKSDRLLP 164
Cdd:PRK13413   84 LNICMEKEVIVYTIKEgyeLGDDINS---KVLAFAFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKGSTPKKYKLTG 160

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1202259748 165 K---VVAMRAEGRSYRWIARELGISKNTVADIVQRHR 198
Cdd:PRK13413  161 KeekIKKLLDKGTSKSEIARKLGVSRTTLARFLKTRG 197
recomb_XisF NF041201
fdxN element excision recombinase XisF;
8-183 7.59e-25

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 100.42  E-value: 7.59e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   8 YCRVSTADQ-----SCERQEFDLRAfAGCagydvVGIFKETGSGTKLDRAERKKVLALAQSRQIDAILVTELSRWGRSTL 82
Cdd:NF041201    4 YARVSTREQaddghALEQQIARLKK-AGA-----SEIFFDIESGRSDKRKGFNQLLKLVKSGKVTEIIITRIDRLTRSVV 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748  83 DLLNTLRELENWKVSVIAMNGMAFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKrlgrqAGVRP----- 157
Cdd:NF041201   78 TIYKAIEVLQKKGVKLVILDAPLDDLSSPGGWFTINQLAALAEFESRLLSERVRHGLEYFREQKK-----AHPKPpfgyv 152

                         170       180
                  ....*....|....*....|....*..
gi 1202259748 158 -KSDRLLPKVVAMRAEGRSYRWIAREL 183
Cdd:NF041201  153 rIDDKYAPDCLLYDKSELTVWEIAREI 179
transpos_IS607 NF033518
IS607 family transposase;
4-78 3.09e-11

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 59.58  E-value: 3.09e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   4 RAAIYCRVSTADQS--CERQEFDLRAFAGCAGYDVVGIFKETGSGTKLDRAERKKVLALAQSRQIDAILVT---ELSRWG 78
Cdd:NF033518   55 KTVIYARVSSADQKddLERQVARLTQYATAKGWQVDEVVTDIGSGLNEKRKGLLKLLDDILNGEVSRVVVEhkdRLTRFG 134
transpos_IS630 NF033545
IS630 family transposase;
165-199 5.48e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 39.93  E-value: 5.48e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1202259748 165 KVVAMRAEGRSYRWIARELGISKNTVADIVQRHRA 199
Cdd:NF033545    4 RILLLAAEGLSITEIAERLGVSRSTVYRWLKRFNE 38
transpos_IS21 NF033546
IS21 family transposase;
169-196 8.17e-04

IS21 family transposase;


Pssm-ID: 468077 [Multi-domain]  Cd Length: 296  Bit Score: 39.11  E-value: 8.17e-04
                          10        20
                  ....*....|....*....|....*...
gi 1202259748 169 MRAEGRSYRWIARELGISKNTVADIVQR 196
Cdd:NF033546    4 LFRQGLSIREIARELGISRNTVRKYLRR 31
 
Name Accession Description Interval E-value
SpoIVCA COG1961
Site-specific DNA recombinase SpoIVCA/DNA invertase PinE [Replication, recombination and ...
 4-196 4.77e-54

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


Pssm-ID: 441564 [Multi-domain]  Cd Length: 388  Bit Score: 176.75  E-value: 4.77e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   4 RAAIYCRVSTADQ---SCERQEFDLRAFAGCAGYDVVGIFKETG-SGTKLDRAERKKVLALAQSRQIDAILVTELSRWGR 79
Cdd:COG1961     3 RAAGYARVSTDDQeglSLERQREALRAYAEKAGWEIVRIYVDEGvSGTSKDRPGLQRLLADLRAGKFDTLVVWKLDRLGR 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748  80 STLDLLNTLRELENWKVSVIAMNgMAFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKRLGRQA-GVRPK 158
Cdd:COG1961    83 NLADLLELVEELKERGVRLISLT-EGIDTSTPMGRLLLTILAAFAEFERELISERTRAGLAAAKARGKYLGRPPyGYRDP 161

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|..
gi 1202259748 159 SD--------RLLPKVVAMRAEGRSYRWIAREL---GI---SKNTVADIVQR 196
Cdd:COG1961   162 KKlvideeeaEVVRRIFELYLEGKSLREIARELnerGIptwSRSTVYRILKN 213
Resolvase smart00857
Resolvase, N terminal domain; The N-terminal domain of the resolvase family contains the ...
 5-148 1.34e-44

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: 145.07  E-value: 1.34e-44
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748    5 AAIYCRVSTADQ---SCERQEFDLRAFAGCAGYDVVGIFKETG-SGTKLDRAERKKVLALAQSRQIDAILVTELSRWGRS 80
Cdd:smart00857   1 AAGYARVSTDDQadgSLERQLEALRAYAERNGWEVVRIYEDEGvSGKKADRPGLQRLLADLRAGDIDVLVVYKLDRLGRS 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1202259748   81 TLDLLNTLRELENWKVSVIAMNGMAFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKR 148
Cdd:smart00857  81 LRDLLALLELLEEKGVRLVSLKEGILDTSTPAGRLLLDILAALAEFERELISERTKAGLARAAARGRW 148
SR_ResInv cd03768
Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members ...
 5-138 2.82e-44

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: 143.39  E-value: 2.82e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   5 AAIYCRVSTADQSCERQEFDLRAFAGCagydvVGIFKETGSGTKLDRAERKKVLALAqsRQIDAILVTELSRWGRSTLDL 84
Cdd:cd03768     1 VIGYARVSTDDQSLERQLEALKAAGEC-----DKIFEEKGSGGKKERPELQKLLEDL--REGDTLVVTKLDRLGRSTKDL 73

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1202259748  85 LNTLRELENWKVSVIAMNGMaFDLSSPYGRMLATFLSGIAEFERDLISERVKSG 138
Cdd:cd03768    74 LEIVEELREKGVSLRSLTEG-IDTSTPSGKLMLTILGAFAEFERELIRERTKEG 126
Resolvase pfam00239
Resolvase, N terminal domain; The N-terminal domain of the resolvase family (this family) ...
 5-148 8.27e-43

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: 140.48  E-value: 8.27e-43
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   5 AAIYCRVSTADQ--SCERQEFDLRAFAGCAGyDVVGIFKETGSGTKLDRAERKKVLALAQSRQIDAILVTELSRWGRSTL 82
Cdd:pfam00239   1 AIGYARVSTEDQddSLERQLEALRAYAACNG-KIVEFEDKGVSGRKLDRPGLQRLLALLRAGKGDVLVVYKLDRLGRSLR 79

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1202259748  83 DLLNTLRELENWKVSVIAMNGMaFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKR 148
Cdd:pfam00239  80 DLLTLVEELREKGVDLVSLDEG-IDTSTPMGRLLLTILAALAEFERALIRERTRAGLAAAAARGKL 144
Ser_Recombinase cd00338
Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or ...
 7-138 2.91e-32

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: 113.12  E-value: 2.91e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   7 IYCRVSTADQ----SCERQEFDLRAFAGCAGYDVVGIFKETGSG--TKLDRAERKKVLALAQSRQIDAILVTELSRWGRS 80
Cdd:cd00338     1 IYARVSTDKQeqgdSLERQREALREYAARNGLEVVGEYEDAGSSatSLVDRPGLQRLLADVKAGKIDVVLVEKLDRLSRN 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1202259748  81 TLDLLNTLRELENWKVSVIAMNGmAFDLSSPYGRMLATFLSGIAEFERDLISERVKSG 138
Cdd:cd00338    81 LVDLLELLELLEAHGVRVVTADG-EIDLDSEDGRLMLGILAAMAEEESKLISERTKRG 137
mpi PRK13413
master DNA invertase Mpi family serine-type recombinase;
8-198 1.47e-26

master DNA invertase Mpi family serine-type recombinase;


Pssm-ID: 184041 [Multi-domain]  Cd Length: 200  Bit Score: 100.56  E-value: 1.47e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   8 YCRVSTADQSCERQEFDLRAFAGCAGYDVVGIFKETGSGTKlDRAERKKVLALAQSRQIDAILVTELSRWGRSTLDLLNT 87
Cdd:PRK13413    5 YIRVSTDKQTVENQRFEITNFAEKNNLTIDKWIEETISGTK-SYKDRKLGKLLKKMRKGDILIVSELSRLGRNLMEIMSI 83

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748  88 LRELENWKVSVIAMNG---MAFDLSSpygRMLATFLSGIAEFERDLISERVKSGLAVAKARGKRLGRQAGVRPKSDRLLP 164
Cdd:PRK13413   84 LNICMEKEVIVYTIKEgyeLGDDINS---KVLAFAFGLSAEIERNLISQRTKEALARKKAEGVTLGRPKGSTPKKYKLTG 160

                         170       180       190
                  ....*....|....*....|....*....|....*..
gi 1202259748 165 K---VVAMRAEGRSYRWIARELGISKNTVADIVQRHR 198
Cdd:PRK13413  161 KeekIKKLLDKGTSKSEIARKLGVSRTTLARFLKTRG 197
recomb_XisF NF041201
fdxN element excision recombinase XisF;
8-183 7.59e-25

fdxN element excision recombinase XisF;


Pssm-ID: 469105 [Multi-domain]  Cd Length: 463  Bit Score: 100.42  E-value: 7.59e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   8 YCRVSTADQ-----SCERQEFDLRAfAGCagydvVGIFKETGSGTKLDRAERKKVLALAQSRQIDAILVTELSRWGRSTL 82
Cdd:NF041201    4 YARVSTREQaddghALEQQIARLKK-AGA-----SEIFFDIESGRSDKRKGFNQLLKLVKSGKVTEIIITRIDRLTRSVV 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748  83 DLLNTLRELENWKVSVIAMNGMAFDLSSPYGRMLATFLSGIAEFERDLISERVKSGLAVAKARGKrlgrqAGVRP----- 157
Cdd:NF041201   78 TIYKAIEVLQKKGVKLVILDAPLDDLSSPGGWFTINQLAALAEFESRLLSERVRHGLEYFREQKK-----AHPKPpfgyv 152

                         170       180
                  ....*....|....*....|....*..
gi 1202259748 158 -KSDRLLPKVVAMRAEGRSYRWIAREL 183
Cdd:NF041201  153 rIDDKYAPDCLLYDKSELTVWEIAREI 179
SR_Res_par cd03767
Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; ...
 7-89 1.61e-12

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: 62.34  E-value: 1.61e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   7 IYCRVSTADQSCERQEFDLRAFAGCAGYDVVGIFKETGSGTKLDRAERKKVLALAQSRqiDAILVTELSRWGRSTLDLLN 86
Cdd:cd03767     3 AYLRASTDEQDATRAKESLEAFATERGFYIAGFYVENASGAKLDRPELFRLLDDAQSG--DVLLVEQIDRLSRLPLDDWE 80


                  ...
gi 1202259748  87 TLR 89
Cdd:cd03767    81 TLK 83
transpos_IS607 NF033518
IS607 family transposase;
4-78 3.09e-11

IS607 family transposase;


Pssm-ID: 468054 [Multi-domain]  Cd Length: 187  Bit Score: 59.58  E-value: 3.09e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   4 RAAIYCRVSTADQS--CERQEFDLRAFAGCAGYDVVGIFKETGSGTKLDRAERKKVLALAQSRQIDAILVT---ELSRWG 78
Cdd:NF033518   55 KTVIYARVSSADQKddLERQVARLTQYATAKGWQVDEVVTDIGSGLNEKRKGLLKLLDDILNGEVSRVVVEhkdRLTRFG 134
SR_TndX_transposase cd03770
Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of ...
 5-138 4.11e-11

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: 58.15  E-value: 4.11e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   5 AAIYCRVSTADQ------SCERQEFDLRAFAGCAGYDVVGIFKETG-SGTKLDRAERKKVLALAQSRQIDAILVTELSRW 77
Cdd:cd03770     1 TALYCRLSRDDDldgesnSIENQKAILEEYAKENGLENIRHYIDDGfSGTTFDRPGFNRMIEDIEAGKIDIVIVKDMSRL 80

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1202259748  78 GRSTLDLLNTLREL-ENWKVSVIAMNGMafdLSSPYGRM-LATFLSGIAE-FERDlISERVKSG 138
Cdd:cd03770    81 GRNYLKVGLYMEILfPKKGVRFIAINDG---VDSADGDDdFIPFKNILNEwYAKD-ISRKIKAS 140
SR_IS607_transposase_like cd03769
Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members ...
 5-99 1.23e-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: 1.23e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   5 AAIYCRVSTADQS--CERQEFDLRAFAGcAGYDVVGIFKETGSGTKLDRAERKKVLALAQSRQIDAILVTELSRWGRSTL 82
Cdd:cd03769     1 TVLYARVSSHDQKddLERQIERLEAYAT-AQGWIVEVIKDIGSGLNEKRKGLLKLLEDVLAGKVERVVITYKDRLARFGF 79

                          90
                  ....*....|....*..
gi 1202259748  83 DLLNTLRELENWKVSVI 99
Cdd:cd03769    80 ELLEELFKAYGVEIVVI 96
COG2452 COG2452
Predicted site-specific integrase-resolvase [Mobilome: prophages, transposons];
4-99 1.25e-07

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


Pssm-ID: 441988 [Multi-domain]  Cd Length: 178  Bit Score: 49.61  E-value: 1.25e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1202259748   4 RAAIYCRVSTADQ--SCERQEFDLRAFAGCAGYDvVGIFKETGSGTKLDraeRKKVLALAQSRQIDAILVTELSRWGRST 81
Cdd:COG2452    49 RTVIYARVSSADQkdDLERQVERLEEYATAKGYQ-DEVIKDVGSGLNYK---RKGLLKLLERIEVERVVVEHKDRLARFG 124

                          90
                  ....*....|....*...
gi 1202259748  82 LDLLNTLRELENWKVSVI 99
Cdd:COG2452   125 FELLEALCEAYGVEIVVV 142
FixJ COG4566
DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal ...
 126-201 1.25e-04

DNA-binding response regulator, FixJ family, consists of REC and HTH domains [Signal transduction mechanisms, Transcription];


Pssm-ID: 443623 [Multi-domain]  Cd Length: 196  Bit Score: 41.24  E-value: 1.25e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1202259748 126 FERDLISERVKSGLAVAKARGKRLGRQAGVRPKSDRLLPK---VVAMRAEGRSYRWIARELGISKNTvadiVQRHRANA 201
Cdd:COG4566   102 FDDQALLDAVRRALARDRARRAERARRAELRARLASLTPRereVLDLVVAGLSNKQIARELGISPRT----VEVHRANV 176
COG4584 COG4584
Transposase [Mobilome: prophages, transposons];
165-196 1.68e-04

Transposase [Mobilome: prophages, transposons];


Pssm-ID: 443641 [Multi-domain]  Cd Length: 484  Bit Score: 41.75  E-value: 1.68e-04
                          10        20        30
                  ....*....|....*....|....*....|..
gi 1202259748 165 KVVAMRAEGRSYRWIARELGISKNTVADIVQR 196
Cdd:COG4584     9 EIRRLLREGLSIREIARELGISRNTVRKYLRR 40
transpos_IS630 NF033545
IS630 family transposase;
165-199 5.48e-04

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 39.93  E-value: 5.48e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1202259748 165 KVVAMRAEGRSYRWIARELGISKNTVADIVQRHRA 199
Cdd:NF033545    4 RILLLAAEGLSITEIAERLGVSRSTVYRWLKRFNE 38
transpos_IS21 NF033546
IS21 family transposase;
169-196 8.17e-04

IS21 family transposase;


Pssm-ID: 468077 [Multi-domain]  Cd Length: 296  Bit Score: 39.11  E-value: 8.17e-04
                          10        20
                  ....*....|....*....|....*...
gi 1202259748 169 MRAEGRSYRWIARELGISKNTVADIVQR 196
Cdd:NF033546    4 LFRQGLSIREIARELGISRNTVRKYLRR 31
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 147-199 3.67e-03

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 37.52  E-value: 3.67e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1202259748 147 KRLGRQAGVRPKSDRLlpKVVAMRAEGRSYRWIARELGISKNTVADIVQRHRA 199
Cdd:COG3415    14 EKLLRKTKDAREARRL--RAVLLLAEGLSVREIAERLGVSRSTVYRWLKRYRE 64
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 165-199 4.76e-03

Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is likely to be DNA-binding.


Pssm-ID: 463908 [Multi-domain]  Cd Length: 52  Bit Score: 34.10  E-value: 4.76e-03
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 1202259748 165 KVVAMRAEGRSYRWIARELGISKNTVADIVQRHRA 199
Cdd:pfam13518   4 KIVLLALEGESIKEAARLFGISRSTVYRWIRRYRE 38
InsA COG3677
Transposase InsA [Mobilome: prophages, transposons];
165-198 8.20e-03

Transposase InsA [Mobilome: prophages, transposons];


Pssm-ID: 442893 [Multi-domain]  Cd Length: 241  Bit Score: 36.00  E-value: 8.20e-03
                          10        20        30
                  ....*....|....*....|....*....|....
gi 1202259748 165 KVVAMRAEGRSYRWIARELGISKNTVADIVQRHR 198
Cdd:COG3677    67 QAIRLLLNGISLRQIARVLGVSYKTVWRWLHRIR 100
 
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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