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Conserved domains on  [gi|1578888964|ref|WP_130259233|]
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MULTISPECIES: tyrosine-type recombinase/integrase [unclassified Escherichia]

Protein Classification

tyrosine-type recombinase/integrase( domain architecture ID 11471964)

tyrosine-type recombinase/integrase cleaves DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment.

Gene Ontology:  GO:0009009|GO:0006310
PubMed:  10047575|9278480

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
47-327 4.99e-60

Site-specific recombinase XerD [Replication, recombination and repair];


:

Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 194.06  E-value: 4.99e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  47 SPRSRQTMASFLGIVARMLGAANAEtcPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKEAWMLKLMDVESFQ 126
Cdd:COG4974    21 SPNTIKAYRRDLRRFLRFLEELGKI--PLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYAVREGLLEDNPAA 98
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 127 HILAVRNFRgsklQRGRALHREEIRQLFQVCETDRScRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVL-GK 205
Cdd:COG4974    99 KVKLPKKPR----KLPRVLTEEEIEALLEALDTETP-EGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRGTIRVRrGK 173
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 206 GNKERLAYMPEGTWVRLQTWIEQVRGDAPGPLFTRIRRfddvtcARLTDQAVYHILQVRQREAGIEK-CAPHDLRRTFAT 284
Cdd:COG4974   174 GGKERTVPLSPEALEALREYLEERRPRDSDYLFPTRRG------RPLSRRAIRKILKRLAKRAGIPKrVTPHSLRHTFAT 247
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1578888964 285 ALLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRRARDKLN 327
Cdd:COG4974   248 HLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLH 290
 
Name Accession Description Interval E-value
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
47-327 4.99e-60

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 194.06  E-value: 4.99e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  47 SPRSRQTMASFLGIVARMLGAANAEtcPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKEAWMLKLMDVESFQ 126
Cdd:COG4974    21 SPNTIKAYRRDLRRFLRFLEELGKI--PLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYAVREGLLEDNPAA 98
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 127 HILAVRNFRgsklQRGRALHREEIRQLFQVCETDRScRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVL-GK 205
Cdd:COG4974    99 KVKLPKKPR----KLPRVLTEEEIEALLEALDTETP-EGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRGTIRVRrGK 173
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 206 GNKERLAYMPEGTWVRLQTWIEQVRGDAPGPLFTRIRRfddvtcARLTDQAVYHILQVRQREAGIEK-CAPHDLRRTFAT 284
Cdd:COG4974   174 GGKERTVPLSPEALEALREYLEERRPRDSDYLFPTRRG------RPLSRRAIRKILKRLAKRAGIPKrVTPHSLRHTFAT 247
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1578888964 285 ALLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRRARDKLN 327
Cdd:COG4974   248 HLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLH 290
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
43-321 6.62e-39

tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274043 [Multi-domain]  Cd Length: 291  Bit Score: 139.25  E-value: 6.62e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  43 LSLNSPRS-RQTMASFLGIVArmlgaanAETCPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKEAWMLKLMD 121
Cdd:TIGR02225  13 LSQNTLEAyRRDLEKFLEFLE-------ERGIDLEEVDRGDIVDFLAELKEAGLSARSIARALSALRSFYRFLLREGIRE 85
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 122 VESFQHIlavrnfRGSKLQRG--RALHREEIRQLFQVCETDRScRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERA 199
Cdd:TIGR02225  86 DDPSALI------EPPKVARKlpKVLTVEEVEALLAAPDVDTP-LGLRDRAMLELLYATGLRVSELVGLRLEDVNLDEGF 158
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 200 LRVLGKGNKERLAYMPEgtwvRLQTWIEQVRGDA-PGPLFTRIRR----FDDVTCARLTDQAVYHILQVRQREAGIEK-C 273
Cdd:TIGR02225 159 VRVRGKGNKERLVPLGE----EAIEALERYLKEArPLLLKKKVKEsdalFLNRRGGPLSRQGVWKILKEYAKRAGIEKpI 234
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*...
gi 1578888964 274 APHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRR 321
Cdd:TIGR02225 235 SPHTLRHSFATHLLENGADLRVVQELLGHADISTTQIYTHVARERLKE 282
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
147-311 5.04e-36

XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequences called arm- and core-sites. The C-terminal domain binds, cleaves, and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.


Pssm-ID: 271179 [Multi-domain]  Cd Length: 172  Bit Score: 128.01  E-value: 5.04e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 147 REEIRQLFQVCETDrSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKERLayMPEGTWVR--LQT 224
Cdd:cd00798     1 VDEVERLLDAPDTD-TPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERL--VPFGSYAVeaLEE 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 225 WIEQVR-----GDAPGPLFTRIRRfddvtcARLTDQAVYHILQVRQREAGIEK-CAPHDLRRTFATALLENGEDLITVKD 298
Cdd:cd00798    78 YLEERRplllkKKPPDALFLNKRG------KRLSRRGVWRILKKYAERAGLPKhVSPHTLRHSFATHLLEGGADLRVVQE 151
                         170
                  ....*....|...
gi 1578888964 299 AMGHASVTTTQKY 311
Cdd:cd00798   152 LLGHASLSTTQIY 164
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
55-325 7.74e-36

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 131.04  E-value: 7.74e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  55 ASFLGIVARMLGAanaetcPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKeaWMLK--LMDVESFQHIlavr 132
Cdd:PRK00236   36 RAFLAFLEEHGIS------SLQDLDAADLRSFLARRRRQGLSARSLARRLSALRSFYR--WLVRrgLLKANPAAGL---- 103
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 133 nfRGSKLQRG--RALHREEIRQLFQVCETDrSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKER 210
Cdd:PRK00236  104 --RAPKIPKRlpKPLDVDQAKRLLDAIDED-DPLALRDRAILELLYGSGLRLSELVGLDIDDLDLASGTLRVLGKGNKER 180
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 211 LAYMpeGTWVR--LQTWIEQVRGDAP--GPLFTRIRRfddvtcARLTDQAVYHIL-QVRQREAGIEKCAPHDLRRTFATA 285
Cdd:PRK00236  181 TVPL--GRAAReaLEAYLALRPLFLPddDALFLGARG------GRLSPRVVQRRVkKLGKKAGLPSHITPHKLRHSFATH 252
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 1578888964 286 LLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRRARDK 325
Cdd:PRK00236  253 LLESGGDLRAVQELLGHASLSTTQIYTHVDFQHLAEVYDA 292
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
148-311 7.77e-29

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 108.95  E-value: 7.77e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 148 EEIRQLFQVCETDRScrGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVL-GKGNKERLAYMPEGTWVRLQTWI 226
Cdd:pfam00589   5 DEVERLLDAAETGPL--SIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVHrGKGNKERTVPLSDAALELLKEWL 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 227 EQVRGDAPGPLFTRIRRFDDvtcaRLTDQAVYHILQVRQREAGIEKCA-PHDLRRTFATALLENGEDLITVKDAMGHASV 305
Cdd:pfam00589  83 SKRLLEAPKSDYLFASKRGK----PLSRQTVRKIFKRAGKEAGLELPLhPHMLRHSFATHLLEAGVDLRVVQKLLGHSSI 158

                  ....*.
gi 1578888964 306 TTTQKY 311
Cdd:pfam00589 159 STTQIY 164
 
Name Accession Description Interval E-value
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
47-327 4.99e-60

Site-specific recombinase XerD [Replication, recombination and repair];


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 194.06  E-value: 4.99e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  47 SPRSRQTMASFLGIVARMLGAANAEtcPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKEAWMLKLMDVESFQ 126
Cdd:COG4974    21 SPNTIKAYRRDLRRFLRFLEELGKI--PLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYAVREGLLEDNPAA 98
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 127 HILAVRNFRgsklQRGRALHREEIRQLFQVCETDRScRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVL-GK 205
Cdd:COG4974    99 KVKLPKKPR----KLPRVLTEEEIEALLEALDTETP-EGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRGTIRVRrGK 173
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 206 GNKERLAYMPEGTWVRLQTWIEQVRGDAPGPLFTRIRRfddvtcARLTDQAVYHILQVRQREAGIEK-CAPHDLRRTFAT 284
Cdd:COG4974   174 GGKERTVPLSPEALEALREYLEERRPRDSDYLFPTRRG------RPLSRRAIRKILKRLAKRAGIPKrVTPHSLRHTFAT 247
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 1578888964 285 ALLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRRARDKLN 327
Cdd:COG4974   248 HLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLH 290
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
34-322 2.89e-50

Site-specific recombinase XerC [Replication, recombination and repair];


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 168.60  E-value: 2.89e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  34 LLNPARAYLLSLN----SPRSRQTMASFLGIVARMLGAANaetCPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKG 109
Cdd:COG4973     4 LAEALEAYLEHLRerrlSPKTLEAYRRDLRRLIPLLGDAD---LPLEELTPADVRRFLARLHRRGLSPRTLNRRLSALRS 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 110 VAKEAWMLKLMDVESFQhilAVRNFRGSKlQRGRALHREEIRQLFQVCETDRscRGPRDAAMLGVLLGCGLRRSEAVGLN 189
Cdd:COG4973    81 FFNWAVREGLLEANPAA---GVKAPKAPR-KLPRALTVDELAQLLDALADDP--LAVRDRAIVELLYSTGLRLGELVGLD 154
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 190 ISDIVTYERALRVLGKGNKERLAYMPEGTWVRLQTWIE---QVRGDAPGPLFTRIRRfddvtcARLTDQAVYHILQVRQR 266
Cdd:COG4973   155 WEDVDLDAGEVRVRGKTGKSRTVPLGPKALAALREWLAvrpELAAPDEGALFPSRRG------TRLSPRNVQKRLRRLAK 228
                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1578888964 267 EAGIEKCA-PHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRRA 322
Cdd:COG4973   229 KAGLPKHVhPHDLRHSFATHLLESGGDLRAVQELLGHASISTTQIYTHLDFQHLAEV 285
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
43-321 6.62e-39

tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with tyrosine active sites that transiently bind covalently to DNA. Many are associated with mobile DNA elements, including phage, transposons, and phase variation loci. This model represents XerD, one of two closely related chromosomal proteins along with XerC (TIGR02224). XerC and XerD are site-specific recombinases which help resolve chromosome dimers to monomers for cell division after DNA replication. In species with a large chromosome and with homologs of XerD on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerD, as some apparent XerD examples score below the trusted and noise cutoff scores. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274043 [Multi-domain]  Cd Length: 291  Bit Score: 139.25  E-value: 6.62e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  43 LSLNSPRS-RQTMASFLGIVArmlgaanAETCPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKEAWMLKLMD 121
Cdd:TIGR02225  13 LSQNTLEAyRRDLEKFLEFLE-------ERGIDLEEVDRGDIVDFLAELKEAGLSARSIARALSALRSFYRFLLREGIRE 85
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 122 VESFQHIlavrnfRGSKLQRG--RALHREEIRQLFQVCETDRScRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERA 199
Cdd:TIGR02225  86 DDPSALI------EPPKVARKlpKVLTVEEVEALLAAPDVDTP-LGLRDRAMLELLYATGLRVSELVGLRLEDVNLDEGF 158
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 200 LRVLGKGNKERLAYMPEgtwvRLQTWIEQVRGDA-PGPLFTRIRR----FDDVTCARLTDQAVYHILQVRQREAGIEK-C 273
Cdd:TIGR02225 159 VRVRGKGNKERLVPLGE----EAIEALERYLKEArPLLLKKKVKEsdalFLNRRGGPLSRQGVWKILKEYAKRAGIEKpI 234
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*...
gi 1578888964 274 APHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRR 321
Cdd:TIGR02225 235 SPHTLRHSFATHLLENGADLRVVQELLGHADISTTQIYTHVARERLKE 282
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
147-311 5.04e-36

XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid inheritance. They share the same fold in their catalytic domain containing six conserved active site residues and the overall reaction mechanism with the DNA breaking-rejoining enzyme superfamily. In Escherichia coli, the Xer site-specific recombination system acts to convert dimeric chromosomes, which are formed by homologous recombination to monomers. Two related recombinases, XerC and XerD, bind cooperatively to a recombination site present in the E. coli chromosome. Each recombinase catalyzes the exchange of one pair of DNA strand in a reaction that proceeds through a Holliday junction intermediate. These enzymes can bridge two different and well-separated DNA sequences called arm- and core-sites. The C-terminal domain binds, cleaves, and re-ligates DNA strands at the core-sites, while the N-terminal domain is largely responsible for high-affinity binding to the arm-type sites.


Pssm-ID: 271179 [Multi-domain]  Cd Length: 172  Bit Score: 128.01  E-value: 5.04e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 147 REEIRQLFQVCETDrSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKERLayMPEGTWVR--LQT 224
Cdd:cd00798     1 VDEVERLLDAPDTD-TPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERL--VPFGSYAVeaLEE 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 225 WIEQVR-----GDAPGPLFTRIRRfddvtcARLTDQAVYHILQVRQREAGIEK-CAPHDLRRTFATALLENGEDLITVKD 298
Cdd:cd00798    78 YLEERRplllkKKPPDALFLNKRG------KRLSRRGVWRILKKYAERAGLPKhVSPHTLRHSFATHLLEGGADLRVVQE 151
                         170
                  ....*....|...
gi 1578888964 299 AMGHASVTTTQKY 311
Cdd:cd00798   152 LLGHASLSTTQIY 164
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
55-325 7.74e-36

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 131.04  E-value: 7.74e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  55 ASFLGIVARMLGAanaetcPWGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKeaWMLK--LMDVESFQHIlavr 132
Cdd:PRK00236   36 RAFLAFLEEHGIS------SLQDLDAADLRSFLARRRRQGLSARSLARRLSALRSFYR--WLVRrgLLKANPAAGL---- 103
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 133 nfRGSKLQRG--RALHREEIRQLFQVCETDrSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKER 210
Cdd:PRK00236  104 --RAPKIPKRlpKPLDVDQAKRLLDAIDED-DPLALRDRAILELLYGSGLRLSELVGLDIDDLDLASGTLRVLGKGNKER 180
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 211 LAYMpeGTWVR--LQTWIEQVRGDAP--GPLFTRIRRfddvtcARLTDQAVYHIL-QVRQREAGIEKCAPHDLRRTFATA 285
Cdd:PRK00236  181 TVPL--GRAAReaLEAYLALRPLFLPddDALFLGARG------GRLSPRVVQRRVkKLGKKAGLPSHITPHKLRHSFATH 252
                         250       260       270       280
                  ....*....|....*....|....*....|....*....|
gi 1578888964 286 LLENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRRARDK 325
Cdd:PRK00236  253 LLESGGDLRAVQELLGHASLSTTQIYTHVDFQHLAEVYDA 292
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
149-312 2.65e-35

DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine based site-specific recombinases (integrases) that share the same fold in their catalytic domain containing conserved active site residues. The best-studied members of this diverse superfamily include Human topoisomerase I, the bacteriophage lambda integrase, the bacteriophage P1 Cre recombinase, the yeast Flp recombinase, and the bacterial XerD/C recombinases. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. The enzymes differ in that topoisomerases cleave and then rejoin the same 5' and 3' termini, whereas a site-specific recombinase transfers a 5' hydroxyl generated by recombinase cleavage to a new 3' phosphate partner located in a different duplex region. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271175 [Multi-domain]  Cd Length: 167  Bit Score: 126.06  E-value: 2.65e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 149 EIRQLFQVCETDrSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKG---NKERLAYMPEGTWVRLQTW 225
Cdd:cd00397     1 ELEKLLDAIDED-KKIDLRDRAILLLLLETGLRISELLALKVKDIDLDNGTIRVRGKKtkgGKERTVPLPKELAEELKEY 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 226 IEQVRGDAP--GPLFTRIRRFDDVTCARLTDQAVYHILQvRQREAGIEKCAPHDLRRTFATALLENGEDLITVKDAMGHA 303
Cdd:cd00397    80 LKERRDKRGplLKSLYLNKLFGTKLGERLSRRTLRRIFK-KAGIEAGRKITPHSLRHTFATNLLENGVDIKVVQKLLGHS 158

                  ....*....
gi 1578888964 304 SVTTTQKYD 312
Cdd:cd00397   159 SISTTQRYL 167
xerD PRK00283
tyrosine recombinase;
75-321 4.28e-33

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 123.76  E-value: 4.28e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  75 WGSLRRHHIMAVAELLRDTGRATATINTYLSALKGVAKEAWMLKLMDVEsfqhilAVRNFRGSKLQRG--RALHREEIRQ 152
Cdd:PRK00283   48 LAEATRDDLQAFLAELAEGGYKATSSARRLSALRRFFQFLLREGLREDD------PSALLDSPKLPRRlpKTLSEAQVEA 121
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 153 LFQVCETDrSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKERLAYMPEGTWVRLQTWIEQVR-- 230
Cdd:PRK00283  122 LLDAPDID-TPLGLRDRAMLELLYATGLRVSELVGLTLDDVSLRQGVVRVTGKGNKERLVPLGEEAVYAIERYLERGRpa 200
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 231 --GDAPGP-LFTRIRRfddvtcARLTDQAVYHILQVRQREAGI--EKCAPHDLRRTFATALLENGEDLITVKDAMGHASV 305
Cdd:PRK00283  201 llNGRSSDaLFPSARG------GQLTRQTFWHRIKHYAKRAGIdpKKLSPHVLRHAFATHLLNHGADLRVVQELLGHSDI 274
                         250
                  ....*....|....*.
gi 1578888964 306 TTTQKYDRRGEQRLRR 321
Cdd:PRK00283  275 STTQIYTHVATERLKE 290
INT_C_like_5 cd01195
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
147-314 8.09e-30

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271195 [Multi-domain]  Cd Length: 170  Bit Score: 111.79  E-value: 8.09e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 147 REEIRQLFQVcETDRSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKER-LAYMPEGTWVRLQTW 225
Cdd:cd01195     2 REEARQRLDA-ADRHTAKGKRDEALVRLLLDNALRRSEAVALDVEDLEKEHRRLRILGKGKKQReVVTLPPTTREALAAW 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 226 IEqVRGDAPGPLFTRIRRfdDVTCARLTDQAVYHILQVRQREAGIEKC-APHDLRRTFATALLENGEDLIT-VKDAMGHA 303
Cdd:cd01195    81 LA-ARGEAEGPLFVSLDR--ASRGRRLSPQAVYRIVRRLAERIGLGKRlSPHGLRHSAITLALDAGAGLIRkVQDFSRHA 157
                         170
                  ....*....|.
gi 1578888964 304 SVTTTQKYDRR 314
Cdd:cd01195   158 DLRTLQVYDDQ 168
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
148-311 7.77e-29

Phage integrase family; Members of this family cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment. The catalytic site residues in CRE recombinase are Arg-173, His-289, Arg-292 and Tyr-324.


Pssm-ID: 395471 [Multi-domain]  Cd Length: 169  Bit Score: 108.95  E-value: 7.77e-29
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 148 EEIRQLFQVCETDRScrGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVL-GKGNKERLAYMPEGTWVRLQTWI 226
Cdd:pfam00589   5 DEVERLLDAAETGPL--SIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVHrGKGNKERTVPLSDAALELLKEWL 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 227 EQVRGDAPGPLFTRIRRFDDvtcaRLTDQAVYHILQVRQREAGIEKCA-PHDLRRTFATALLENGEDLITVKDAMGHASV 305
Cdd:pfam00589  83 SKRLLEAPKSDYLFASKRGK----PLSRQTVRKIFKRAGKEAGLELPLhPHMLRHSFATHLLEAGVDLRVVQKLLGHSSI 158

                  ....*.
gi 1578888964 306 TTTQKY 311
Cdd:pfam00589 159 STTQIY 164
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
145-311 1.74e-27

Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases mediate site-specific DNA recombination between a proximal primary site (attI) and a secondary target site (attC) found within mobile gene cassettes encoding resistance or virulence factors. Unlike other site specific recombinases, the attC sites lack sequence conservation. Integron integrase exhibits broader DNA specificity by recognizing the non-conserved attC sites. The structure shows that DNA target site recognition are not dependent on canonical DNA but on the position of two flipped-out bases that interact in cis and in trans with the integrase. Integron-integrases are present in many natural occurring mobile elements, including transposons and conjugative plasmids. Vibrio, Shewanella, Xanthomonas, and Pseudomonas species harbor chromosomal super-integrons. All integron-integrases carry large inserts unlike the TnpF ermF-like proteins also seen in this group.


Pssm-ID: 271193 [Multi-domain]  Cd Length: 176  Bit Score: 105.82  E-value: 1.74e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 145 LHREEIRQLFQVCETdrscrgPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRV-LGKGNKERLAYMPEGTWVRLQ 223
Cdd:cd01193     6 LSPDEVRRILGALTE------LRHRLILSLLYGAGLRISELLRLRVKDIDFERGVIRVrQGKGGKDRVVPLPEKLLEPLR 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 224 TWIEQVR---GDAPGPLFTRIRRFDDVTCAR--LTDQAVYHILQVRQREAGIEK-CAPHDLRRTFATALLENGEDLITVK 297
Cdd:cd01193    80 RYLKSARpkeELDPAEGRAGVLDPRTGVERRhhISETTVQRALKKAVEQAGITKrVTPHTLRHSFATHLLEAGTDIRTIQ 159
                         170
                  ....*....|....
gi 1578888964 298 DAMGHASVTTTQKY 311
Cdd:cd01193   160 ELLGHSDLSTTMIY 173
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
150-326 5.41e-25

C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre recombinase maintains the circular phage replicon in a monomeric state by catalyzing a site-specific recombination between two loxP sites. The catalytic core domain of Cre recombinase is linked to a more divergent helical N-terminal domain, which interacts primarily with the DNA major groove proximal to the crossover region.


Pssm-ID: 271180  Cd Length: 188  Bit Score: 99.30  E-value: 5.41e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 150 IRQLFQVCeTDRSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTY-ERALRVL---------GKGNKERLAYMPEGTW 219
Cdd:cd00799     1 LKAMLATL-DDTTLRGLRDRALLLLGFAGALRRSELVALRVEDLTRFvDGGLLIRlrrsktdqdGEGEIKALPYGPETCP 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 220 VR-LQTWIEqVRGDAPGPLFTRIRRFDDVTCARLTDQAVYHILQVRQREAGIE--KCAPHDLRRTFATALLENGEDLITV 296
Cdd:cd00799    80 VRaLRAWLE-AAGIPSGPLFRRIRRGGSVGTTRLSDRSVARIVKRRAALAGLDpgDFSGHSLRRGFATEAARAGASLPEI 158
                         170       180       190
                  ....*....|....*....|....*....|
gi 1578888964 297 KDAMGHASVTTTQKYDRRGEQRLRRARDKL 326
Cdd:cd00799   159 MAQGGHKSVATVMRYIREADRFKDNAAAKL 188
INT_RitC_C_like cd01182
C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; ...
145-326 1.68e-22

C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; Recombinases belonging to the RitA (also known as pAE1 due to its presence in the deletion prone region of plasmid pAE1 of Alcaligenes eutrophus H1), RitB, and RitC families are associated in a complex referred to as a Recombinase in Trio (RIT) element. These RIT elements consist of three adjacent and unidirectional overlapping genes, one from each family (ritABC in order of transcription). All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not yet fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism.


Pssm-ID: 271183 [Multi-domain]  Cd Length: 186  Bit Score: 92.73  E-value: 1.68e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 145 LHREEIRQLFQVCETDRScRGPRDAAMLGVLLGCGLRRSEAVGLNISDIV-TYERALRVLGKGNKERLAYMPEGTWVRLQ 223
Cdd:cd01182     1 LTREEMKALLAAPDRNTS-LGRRDHALLLLLYDTGARVQELADLTIRDLRlDDPATVRLHGKGRKERTVPLWKETVAALK 79
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 224 TWIEQVRGDAPG----PLFTRIRRfddvtcARLTDQAVYHILQvRQREAGIEKCA-------PHDLRRTFATALLENGED 292
Cdd:cd01182    80 AYLQEFHLTPDPkqlfPLFPNRRG------QPLTRDGVAYILN-KYVALASNRCPslpkritPHTLRHTKAMHLLQAGVD 152
                         170       180       190
                  ....*....|....*....|....*....|....
gi 1578888964 293 LITVKDAMGHASVTTTQKYDRRGEQRLRRARDKL 326
Cdd:cd01182   153 LTVIRDWLGHESVETTQIYAEADLEMKREALEKA 186
INT_ICEBs1_C_like cd01189
C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; ...
147-311 9.22e-20

C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; This family of tyrosine based site-specific integrases is has origins in bacterial phages and conjugate transposons. One member is the integrase from Bacillus subtilis conjugative transposon ICEBs1. ICEBs1 can be excised and transfered to various recipients in response to DNA damage or high concentrations of potential mating partners. The family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271189 [Multi-domain]  Cd Length: 147  Bit Score: 84.15  E-value: 9.22e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 147 REEIRQLFQVCETdrscRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVlgkgnKERLAYMPEGTWVRlqtwi 226
Cdd:cd01189     1 PEELKKLLEALKK----RGDRYYLLFLLALLTGLRRGELLALTWSDIDFENGTIRI-----NRTLVRKKKGGYVI----- 66
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 227 eqvrgdapGPLFTR--IRR--FDDVTCARLTDqavYHILQVRQREAGIEKCAPHDLRRTFATALLENGEDLITVKDAMGH 302
Cdd:cd01189    67 --------KPPKTKssIRTipLPDELIELLKE---LKAFKKLLKKAGLPRITPHDLRHTFASLLLEAGVPLKVIAERLGH 135

                  ....*....
gi 1578888964 303 ASVTTTQKY 311
Cdd:cd01189   136 SDISTTLDV 144
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
141-311 1.72e-19

Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal catalytic domain; Rci protein is a tyrosine recombinase specifically involved in Shufflon type of DNA rearrangement in bacteria. The shufflon of plasmid R64 consists of four invertible DNA segments which are separated and flanked by seven 19-bp repeat sequences. RCI recombinase facilitates the site-specific recombination between any inverted repeats results in an inversion of the DNA segment(s) either independently or in groups. HP1 integrase promotes site-specific recombination of the HP1 genome into that of Haemophilus influenza. Bacteriophage Hp1_like integrases are tyrosine based site specific recombinases. They belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271177 [Multi-domain]  Cd Length: 162  Bit Score: 83.92  E-value: 1.72e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 141 RGRALHREEIRQLFQVCETDRScrgPRDAAMLGVLLGCGLRRSEAVGLNISDIVTyERALRVLG--KGNKERLAYMPEgT 218
Cdd:cd00796     1 RDRFLTEDEEARLLAALEESTN---PHLRLIVLLALYTGARRGEILSLRWDDIDL-EVGLIVLPetKNGKPRTVPLSD-E 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 219 WVRLQTWIEQVRGDAPGPLFTRIRRFDDVTCARltdqavyHILQVRQReAGIEKCAPHDLRRTFATALLENGEDLITVKD 298
Cdd:cd00796    76 AIAILKELKRKRGKDGFFVDGRFFGIPIASLRR-------AFKKARKR-AGLEDLRFHDLRHTFASRLVQAGVPIKTVAK 147
                         170
                  ....*....|...
gi 1578888964 299 AMGHASVTTTQKY 311
Cdd:cd00796   148 ILGHSSIKMTMRY 160
xerS PRK05084
site-specific tyrosine recombinase XerS; Reviewed
167-327 2.58e-18

site-specific tyrosine recombinase XerS; Reviewed


Pssm-ID: 235339 [Multi-domain]  Cd Length: 357  Bit Score: 84.58  E-value: 2.58e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 167 RDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKERLAYMPEGTWVRLQTW--IEQVRGDAPG---PLF-TR 240
Cdd:PRK05084  196 RDLAIIALILGSGLRVSELVNLDLSDLNLKQMTIDVTRKGGKRDSVNIAPFALPYLEEYlkIRASRYKAEKqekALFlTK 275
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 241 IRRfddvTCARLTDQAVyhilqvrqrEAGIEKCA--------PHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKYD 312
Cdd:PRK05084  276 YRG----KPNRISARAI---------EKMVAKYSeafgvrltPHKLRHTLATRLYDATKDQVLVADQLGHTSTETTDLYT 342
                         170
                  ....*....|....*
gi 1578888964 313 RRGEQRLRRARDKLN 327
Cdd:PRK05084  343 HIVNDEQKEALDRLE 357
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
147-311 8.15e-18

C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; Recombinases RitA (also known as pAE1), RitB, and RitC are encoded by three adjacent and overlapping genes. Collectively they are known as the Recombinase in Trio (RIT). This RitA family includes various bacterial integrases and integrases from the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus H1. All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism is essentially identical and involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271188 [Multi-domain]  Cd Length: 179  Bit Score: 79.59  E-value: 8.15e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 147 REEIRQLFQVCETDRScRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLG-KGNKERLAYMPEGTWVRLQTW 225
Cdd:cd01188     2 PDEVRRLLAAIDRLTP-VGLRDYAILLLLARLGLRAGDVAGLRLDDIDWRSGTITVRQkKTGRPVELPLTEPVGEALADY 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 226 IEQVRGDAPGP-LFTRIRR-FDDVTCARltdqAVYHILQVRQREAGIEKCA--PHDLRRTFATALLENGEDLITVKDAMG 301
Cdd:cd01188    81 LRDGRPRTDSReVFLRARApYRPLSSTS----QISSIVRRYLRKAGIEPSHrgTHSLRHSLATRMLRAGTSLKVIADLLG 156
                         170
                  ....*....|
gi 1578888964 302 HASVTTTQKY 311
Cdd:cd01188   157 HRSIETTAIY 166
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
145-313 9.79e-17

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 79.79  E-value: 9.79e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 145 LHREEIRQLFQVCETDrSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVL-GKGNKERLAYMPEGTWVRLQ 223
Cdd:PRK01287  137 LSEAETEQVLASPDLT-TLQGLRDRALLELLWSTGIRRGELARLDLYDVDASRGVVTVRqGKGNKDRVVPVGERALAWLQ 215
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 224 TWIEQVRgdaP--------GPLFTRIRRfDDVTCARLTDQAVYHIlqvrqREAGIEKC-APHDLRRTFATALLENGEDLI 294
Cdd:PRK01287  216 RYLQDVR---PqlavrpdsGALFVAMDG-DGLARNTLTNMVGRYI-----RAAGIEKAgACHLFRHAMATQMLENGADTR 286
                         170
                  ....*....|....*....
gi 1578888964 295 TVKDAMGHASVTTTQKYDR 313
Cdd:PRK01287  287 HIQAILGHAKLETTQIYTR 305
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
145-311 1.71e-16

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271194 [Multi-domain]  Cd Length: 174  Bit Score: 75.87  E-value: 1.71e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 145 LHREEIRQLFQVCETDRSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDI--VTYERALRVLGKG--NKERLAYMPEGTWV 220
Cdd:cd01194     1 LTLEQARQLLASLPIDDSIIGLRDRAIISLMVTEGLRTVEIVRADVGDLrqEGEGTILYVQGKGktSKDDFVYLRPDVLK 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 221 RLQTWIEQVRGDAPG-PLFTRIRRfdDVTCARLTDQAVYHILQVRQREAGI--EKCAPHDLRRTFATALLENGEDLITVK 297
Cdd:cd01194    81 ALQAYLKARGKLDFEePLFTSLSN--NSKGQRLTTRSIRRIIKKYLRKAGLddDRLTAHSLRHTAGTLALKAGKSLREVQ 158
                         170
                  ....*....|....
gi 1578888964 298 DAMGHASVTTTQKY 311
Cdd:cd01194   159 QLLRHSDPNTTMIY 172
INT_C_like_6 cd01196
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
148-317 3.45e-14

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271196  Cd Length: 183  Bit Score: 69.82  E-value: 3.45e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 148 EEIRQLFQVCEtDRSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERAL--RVLGKGNKERLayMPegTWVRLQTW 225
Cdd:cd01196     3 PEARRLLESID-STHPVGLRDRALIALMVYSFARIGAVLAMRVEDVYDQGRRLwvRLAEKGGKQHE--MP--CHHDLEEY 77
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 226 IE------QVRGDAPGPLFTRIRR-FDDVTCARLTDQAVYHILQVRQREAGIE-KCAPHDLRRTFATALLENGEDLITVK 297
Cdd:cd01196    78 LRayleaaEIEEDPKGPLFRTTRGgTRKLTHNPLTQANAYRMVRRRAIAADIPtAIGNHSFRATGITAYLKNGGTLEDAQ 157
                         170       180
                  ....*....|....*....|
gi 1578888964 298 DAMGHASVTTTQKYDRRGEQ 317
Cdd:cd01196   158 NMANHASTRTTQLYDRRSDK 177
FimB COG0582
Integrase/recombinase, includes phage integrase [Replication, recombination and repair, ...
77-313 5.49e-12

Integrase/recombinase, includes phage integrase [Replication, recombination and repair, Mobilome: prophages, transposons];


Pssm-ID: 440347 [Multi-domain]  Cd Length: 391  Bit Score: 65.83  E-value: 5.49e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  77 SLRRHHIMAVAELLRDTGrATATINTYLSALKGVAKEAWMLKLMDVESFQHIlaVRNFRGSKLQRGRALHREEIRQLFQV 156
Cdd:COG0582   141 EITPPDLLAVLRPIEARG-APETARRVRQRLRQVFRYAVARGLIERNPAADL--KGALPKPKVKHHPALTPEELPELLRA 217
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 157 CETDRSCRGPRDAAMLGVLLGCglRRSEAVGLNISDIVTYERALRVLG---KGNKERLAYMPEgtwvRLQTWIEQVRGDA 233
Cdd:COG0582   218 LDAYRGSPVTRLALRLLLLTGV--RPGELRGARWSEIDLEAALWTIPAermKTRRPHIVPLSR----QALEILKELKPLT 291
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 234 PGP--LFTRIRRFDdvtcARLTDQAVYHILqvrqREAGIEKCAPHDLRRTFATALLENGEDLITVKDAMGHASVTTTQK- 310
Cdd:COG0582   292 GDSeyVFPSRRGPK----KPMSENTLNKAL----RRMGYGRFTPHGFRHTASTLLNEAGFPPDVIERQLAHKDGNKVRAa 363

                  ...
gi 1578888964 311 YDR 313
Cdd:COG0582   364 YNR 366
INTN1_C_like cd01185
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ...
148-319 1.49e-11

Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal catalytic domain; IntN1 is a tyrosine recombinase for the integration and excision of Bacteroides mobilizable transposon NBU1 from the host chromosome. IntN1 does not require strict homology between the recombining sites seen with other tyrosine recombinases. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271185 [Multi-domain]  Cd Length: 161  Bit Score: 61.90  E-value: 1.49e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 148 EEIRQLFQV-CETDRSCRGPRDAAMLGVLlgCGLRRSEAVGLNISDIVTYERALRVLGKGNK-ERLAYMPegtwvrL--- 222
Cdd:cd01185     1 EELKRLMALeLSDTSRLELVRDMFLFSCY--TGLRFSDLKNLTWKNIVEASGRTWIRYRRKKtGKPVTVP------Llpv 72
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 223 -QTWIEQVR-GDAPGPLFTRIrrfddvtcarlTDQAVYHILQVRQREAGIEK-----CAphdlRRTFATALLENGEDLIT 295
Cdd:cd01185    73 aREILEKYKdDRSEGKLFPVL-----------SNQKINRYLKEIAKIAGIDKhltfhVA----RHTFATLLLLKGVDIET 137
                         170       180
                  ....*....|....*....|....
gi 1578888964 296 VKDAMGHASVTTTQKYDRRGEQRL 319
Cdd:cd01185   138 ISKLLGHSSIKTTQIYAKIVDSKK 161
INT_RitB_C_like cd00797
C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; ...
147-311 4.92e-11

C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; Recombinases belonging to the RitA (also known as pAE1 due to its presence in the deletion prone region of plasmid pAE1 of Alcaligenes eutrophus H1), RitB, and RitC families are associated in a complex referred to as a Recombinase in Trio (RIT) element. These RIT elements consist of three adjacent and unidirectional overlapping genes, one from each family (ritABC in order of transcription). All three integrases contain a catalytic motif, suggesting that they are all active enzymes. However, their specific roles are not yet fully understood. All three families belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism.


Pssm-ID: 271178 [Multi-domain]  Cd Length: 198  Bit Score: 61.17  E-value: 4.92e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 147 REEIRQLFQVCETDRSCRGPRDAAM---LGVLLGCGLRRSEAVGLNISDIVTYERALRV-LGKGNKERLAYMPEGTWVRL 222
Cdd:cd00797     3 DAEIRRLLAAADQLPPESPLRPLTYatlFGLLYATGLRVGEALRLRLEDVDLDSGILTIrQTKFGKSRLVPLHPSTVGAL 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 223 QTWIEQVRGDAPGP----LFTRIRRfddvtcARLTDQAVYH-ILQVRqREAGIEKCA------PHDLRRTFATALL---- 287
Cdd:cd00797    83 RDYLARRDRLLPSPsssyFFVSQQG------GRLTGGGVYRvFRRLL-RRIGLRGAGdgrgprLHDLRHTFAVNRLtrwy 155
                         170       180
                  ....*....|....*....|....*...
gi 1578888964 288 ENGED----LITVKDAMGHASVTTTQKY 311
Cdd:cd00797   156 REGADverkLPVLSTYLGHVNVTDTYWY 183
INT_tnpA_C_Tn554 cd01186
Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family ...
145-322 6.49e-11

Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family includes putative Transposase A from transposon Tn554. It belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271186 [Multi-domain]  Cd Length: 184  Bit Score: 60.51  E-value: 6.49e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 145 LHREEIRQLFQVCETdrscrgPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKERLAYMPEGT------ 218
Cdd:cd01186     2 LTPREVQELINACNN------LRDKFLLALLYETGLRIGEALGLRIEDIDMADNQIELVPREDNTNEARAKSMRerripv 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 219 -------WVRLQTWIEQVRGDAPGPLFTRIRRfdDVTCARLTDQAVYHILQVRQREAGIEkCAPHDLRRTFATALLENGE 291
Cdd:cd01186    76 sqdlidlYADYLTYIYCEEAEFSITVFVNVKG--GNQGKAMNYSDVYDLVRRLKKRTGID-FTPHMFRHTHATALIRAGW 152
                         170       180       190
                  ....*....|....*....|....*....|..
gi 1578888964 292 DLITVKDAMGHASV-TTTQKYDRRGEQRLRRA 322
Cdd:cd01186   153 SIEVVARRLGHAHVqTTLNTYGHLSEEDIRRE 184
int PHA02601
integrase; Provisional
98-311 9.93e-09

integrase; Provisional


Pssm-ID: 222904 [Multi-domain]  Cd Length: 333  Bit Score: 55.89  E-value: 9.93e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964  98 ATINTYLSALKGVAKEawmLKLMDVESFQHILA-VRNFRGSKLQRGrALHREEIRQLFQVCETDRScrgpRDAAMLGVL- 175
Cdd:PHA02601  129 ATVNRELAYLSAVFNE---LIKLGKWSGPNPLDgIRPFKEAEPELA-FLTKEEIERLLDACDGSRS----PDLGLIAKIc 200
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 176 LGCGLRRSEAVGLNISDIVTYeRALRVLGKGNKERLaympegtwVRLQTWIEQVRGDAPGPLFTrirrfddvTCARLTDQ 255
Cdd:PHA02601  201 LATGARWSEAETLKRSQISPY-KITFVKTKGKKNRT--------VPISEELYKMLPKRRGRLFK--------DAYESFER 263
                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1578888964 256 AVyhilqvrqREAGIE---KCAPHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKY 311
Cdd:PHA02601  264 AV--------KRAGIDlpeGQATHVLRHTFASHFMMNGGNILVLQRILGHATIEMTMAY 314
PRK15417 PRK15417
integron integrase;
174-313 8.31e-08

integron integrase;


Pssm-ID: 185315 [Multi-domain]  Cd Length: 337  Bit Score: 53.13  E-value: 8.31e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 174 VLLGCGLRRSEAVGLNISDIvTYERALRVL--GKGNKERLAYMPEGTWVRLQTWIEQVRG-----DAPG----------- 235
Cdd:PRK15417  139 LLYGTGMRISEGLQLRVKDL-DFDHGTIIVreGKGSKDRALMLPESLAPSLREQLSRARAwwlkdQAEGrsgvalpdale 217
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 236 ----------PLFTRIRRFDDVTCAR--------LTDQAVYHILQVRQREAGIEKCA-PHDLRRTFATALLENGEDLITV 296
Cdd:PRK15417  218 rkypraghswPWFWVFAQHTHSTDPRsgvvrrhhMYDQTFQRAFKRAVEQAGITKPAtPHTLRHSFATALLRSGYDIRTV 297
                         170
                  ....*....|....*..
gi 1578888964 297 KDAMGHASVTTTQKYDR 313
Cdd:PRK15417  298 QDLLGHSDVSTTMIYTH 314
INT_P4_C cd00801
Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in ...
148-318 1.25e-06

Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes. This family belongs to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The catalytic domain contains six conserved active site residues. Their overall reaction mechanism involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA.


Pssm-ID: 271182 [Multi-domain]  Cd Length: 180  Bit Score: 48.04  E-value: 1.25e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 148 EEIRQLFQVCETDRSCRGPRDAAMLGVLLGCglRRSEAVGLNISDIVTYERALRVLGKGNKERLAYmpegtWVRL----Q 223
Cdd:cd00801     3 DELPELWRALDTANLSPPTKLALRLLLLTGQ--RIGELARARWSEIDLEEKTWTIPAERTKNKRPH-----RVPLsdqaL 75
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 224 TWIEQVRGDAP--GPLFTRIRRFDDVTCARLTDQAVYHILQVRqreagiEKCAPHDLRRTFATALLENGEDLITVKDAMG 301
Cdd:cd00801    76 EILEELKEFTGdsGYLFPSRRKKKKPISENTINKALKRLGYKG------KEFTPHDLRRTFSTLLNELGIDPEVIERLLN 149
                         170       180
                  ....*....|....*....|.
gi 1578888964 302 HASVTTT----QKYDRRGEQR 318
Cdd:cd00801   150 HVLGGVVraayNRYDYLEERR 170
INT_C_like_2 cd01191
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
175-318 1.67e-06

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271191  Cd Length: 176  Bit Score: 47.42  E-value: 1.67e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 175 LLGCGLRRSEAVGLNISDIVT-YeraLRVLGKGNKERLAYMPEGTWVRLQTWIEQvRGDAPGPLFtrIRRFDDvtcaRLT 253
Cdd:cd01191    29 LAATGARVSELIKIKVEHVELgY---FDIYSKGGKLRRLYIPKKLRNEALEWLKS-TNRKSGYIF--LNRFGE----RIT 98
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1578888964 254 DQAVYHILQVRQREAGIEKCA--PHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKYDRR--GEQR 318
Cdd:cd01191    99 TRGIAQQLKNYARKYGLNPKVvyPHSFRHRFAKNFLEKYNDIALLADLMGHESIETTRIYLRKtaSEQQ 167
INT_FimBE_like cd01197
FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar ...
143-321 2.76e-06

FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar to E.coli FimE and FimB and Proteus mirabilis MrpI. FimB and FimE are the regulatory proteins during expression of type 1 fimbriae in Escherichia coli. The fimB and fimE proteins direct the phase switch into the 'on' and 'off' position. MrpI is the regulatory protein of proteus mirabilis fimbriae expression. This family belongs to the integrase/recombinase superfamily.


Pssm-ID: 271197 [Multi-domain]  Cd Length: 181  Bit Score: 47.12  E-value: 2.76e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 143 RALHREEIRQLFQvcETDRSCRGPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRV--LGKG--------NKERLA 212
Cdd:cd01197     5 KYLTGKEVQALLQ--AACRGRTPARDYCLLLLAFRHGFRVSELCDLHLSDVDLESRRLHIrrLKNGfstthplrFDEREA 82
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 213 ympegtwvrLQTWIeQVRGDAPGP----LFTRIRRfddvtcARLTDQAVYHILQVRQREAGIEKCA-PHDLRRTFATALL 287
Cdd:cd01197    83 ---------LEAWL-KERANWKGAdtdwIFLSRRG------GPLSRQQAYRIIRDLGKEAGTVTQThPHMLRHACGYALA 146
                         170       180       190
                  ....*....|....*....|....*....|....
gi 1578888964 288 ENGEDLITVKDAMGHASVTTTQKYDRRGEQRLRR 321
Cdd:cd01197   147 DRGADTRLIQDYLGHRNIRHTVIYTASNAARFAN 180
INT_C_like_3 cd01192
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
165-311 7.90e-04

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain contains six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271192 [Multi-domain]  Cd Length: 178  Bit Score: 39.58  E-value: 7.90e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1578888964 165 GPRDAAMLGVLLGCGLRRSEAVGLNISDIVTYERALRVLGKGNKERLAYMPEGTWVRLQTWIEQVRGDAPGPLF-TRIRR 243
Cdd:cd01192    23 NPRNYLLFIVGINTGLRISDLLSLKVEDVTNKDKLSIKEQKTGKQKTFPLNPTLVKALKEYIDDLDLKRNDYLFkSLKQG 102
                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1578888964 244 FDDVtcarLTDQAVYHILQVRQREAGIEKC-APHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKY 311
Cdd:cd01192   103 PEKP----ISRKQAYKILKKAADDLGLNYNiGTHSLRKTFGYHVYKQGKDIELLMKLLNHSSPSITLRY 167
INT_tnpB_C_Tn554 cd01187
Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family ...
274-311 1.92e-03

Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family includes putative Transposase B from transposon Tn554. It belongs to a DNA breaking-rejoining enzyme superfamily. The catalytic domain containing six conserved active site residues. The recombination reaction involves cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct. In the second rejoining step, a terminal 5' hydroxyl attacks the covalent adduct to release the enzyme and generate duplex DNA. Many DNA breaking-rejoining enzymes also have N-terminal domains, which show little sequence or structure similarity.


Pssm-ID: 271187 [Multi-domain]  Cd Length: 142  Bit Score: 38.18  E-value: 1.92e-03
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 1578888964 274 APHDLRRTFATALLENGEDLITVKDAMGHASVTTTQKY 311
Cdd:cd01187   103 HTHRFRHTVATRLANSGMGILVLQQLLGHSSPEMTLRY 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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