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Conserved domains on  [gi|612672014|gb|EZS88096|]
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tyrosine recombinase xerC [Staphylococcus aureus VET0159R]

Protein Classification

tyrosine recombinase XerC( domain architecture ID 11493900)

site-specific tyrosine recombinase XerC acts by catalyzing the cutting and rejoining of recombining DNA molecules

CATH:  1.10.443.10
Gene Ontology:  GO:0009037|GO:0007059|GO:0003677|GO:0051301|GO:0006313
PubMed:  28373867|10047575|9278480|10577069
SCOP:  4002347

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
recomb_XerC TIGR02224
tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with ...
 6-294 7.62e-144

tyrosine recombinase XerC; 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 XerC, one of two closely related chromosomal proteins along with XerD (TIGR02225). 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 homologs of XerC on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerC, as some apparent XerC examples score in the gray zone between trusted (450) and noise (410) cutoffs, along with some XerD examples. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


:

Pssm-ID: 274042 [Multi-domain]  Cd Length: 295  Bit Score: 406.22  E-value: 7.62e-144
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014    6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEH--LQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYW 83
Cdd:TIGR02224   1 EAFLEYLRLERNYSPHTVRAYRRDLEAFLEFLEEEGglASLAEVTAADLRSFLAELHARGLSRRSLARKLSALRSFYRFL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   84 MTLDENIINPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASK--SLRDRVILELLYATGIRVSELVNIKKQDIDFYA 161
Cdd:TIGR02224  81 LRRGLIDANPAAGVRAPKQPKKLPKFLSEDEMEALLDAPEEDDEDwlALRDRAILELLYSSGLRVSELVGLDLSDLDLDF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  162 NGVTVLGKGSKERFVPFGAYCRQSIENYLEHFKPIQSCN--HDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHK 239
Cdd:TIGR02224 161 GEVRVRGKGNKERIVPFGPYARDALQAYLEARRSPLLASegQDALFLNRRGGRLTPRGVQYRLQQLRAKAGLPKHVHPHA 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 612672014  240 LRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRAKK 294
Cdd:TIGR02224 241 LRHSFATHLLNNGADLRAVQELLGHASLSTTQIYTHVDFQHLAKVYDQAHPRAKK 295
 
Name Accession Description Interval E-value
recomb_XerC TIGR02224
tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with ...
 6-294 7.62e-144

tyrosine recombinase XerC; 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 XerC, one of two closely related chromosomal proteins along with XerD (TIGR02225). 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 homologs of XerC on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerC, as some apparent XerC examples score in the gray zone between trusted (450) and noise (410) cutoffs, along with some XerD examples. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274042 [Multi-domain]  Cd Length: 295  Bit Score: 406.22  E-value: 7.62e-144
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014    6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEH--LQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYW 83
Cdd:TIGR02224   1 EAFLEYLRLERNYSPHTVRAYRRDLEAFLEFLEEEGglASLAEVTAADLRSFLAELHARGLSRRSLARKLSALRSFYRFL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   84 MTLDENIINPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASK--SLRDRVILELLYATGIRVSELVNIKKQDIDFYA 161
Cdd:TIGR02224  81 LRRGLIDANPAAGVRAPKQPKKLPKFLSEDEMEALLDAPEEDDEDwlALRDRAILELLYSSGLRVSELVGLDLSDLDLDF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  162 NGVTVLGKGSKERFVPFGAYCRQSIENYLEHFKPIQSCN--HDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHK 239
Cdd:TIGR02224 161 GEVRVRGKGNKERIVPFGPYARDALQAYLEARRSPLLASegQDALFLNRRGGRLTPRGVQYRLQQLRAKAGLPKHVHPHA 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 612672014  240 LRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRAKK 294
Cdd:TIGR02224 241 LRHSFATHLLNNGADLRAVQELLGHASLSTTQIYTHVDFQHLAKVYDQAHPRAKK 295
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
 6-292 1.08e-115

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 335.20  E-value: 1.08e-115
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEHL-QLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYWM 84
Cdd:PRK00236  11 EAFLEYLRVERGLSPHTLRAYRRDLRAFLAFLEEHGIsSLQDLDAADLRSFLARRRRQGLSARSLARRLSALRSFYRWLV 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  85 TLDENIINPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGV 164
Cdd:PRK00236  91 RRGLLKANPAAGLRAPKIPKRLPKPLDVDQAKRLLDAIDEDDPLALRDRAILELLYGSGLRLSELVGLDIDDLDLASGTL 170

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 165 TVLGKGSKERFVPFGAYCRQSIENYLEHfKPIQSCNHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTF 244
Cdd:PRK00236 171 RVLGKGNKERTVPLGRAAREALEAYLAL-RPLFLPDDDALFLGARGGRLSPRVVQRRVKKLGKKAGLPSHITPHKLRHSF 249

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*...
gi 612672014 245 ATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRA 292
Cdd:PRK00236 250 ATHLLESGGDLRAVQELLGHASLSTTQIYTHVDFQHLAEVYDAAHPRA 297
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
6-290 4.51e-97

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 287.66  E-value: 4.51e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQE-HLQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYWm 84
Cdd:COG4974    8 EAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEELgKIPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYA- 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  85 tLDENII--NPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYAN 162
Cdd:COG4974   87 -VREGLLedNPAAKVKLPKKPRKLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRG 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 163 GVTVL-GKGSKERFVPFGAYCRQSIENYLEHFKPIQScnhDFLIVNMKGEAITERGVRYVLNNIVKRtAGVSE-IHPHKL 240
Cdd:COG4974  166 TIRVRrGKGGKERTVPLSPEALEALREYLEERRPRDS---DYLFPTRRGRPLSRRAIRKILKRLAKR-AGIPKrVTPHSL 241

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 612672014 241 RHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHP 290
Cdd:COG4974  242 RHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLHP 291
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
 112-281 2.62e-81

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: 243.19  E-value: 2.62e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLGKGSKERFVPFGAYCRQSIENYLE 191
Cdd:cd00798    1 VDEVERLLDAPDTDTPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERLVPFGSYAVEALEEYLE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 192 HFKP--IQSCNHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVNLST 269
Cdd:cd00798   81 ERRPllLKKKPPDALFLNKRGKRLSRRGVWRILKKYAERAGLPKHVSPHTLRHSFATHLLEGGADLRVVQELLGHASLST 160

                        170
                 ....*....|..
gi 612672014 270 TGKYTHVSNQQL 281
Cdd:cd00798  161 TQIYTHVSFERL 172
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 109-277 1.86e-48

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: 159.02  E-value: 1.86e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  109 FFYEEEMEALFKTVEeDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVL-GKGSKERFVPFGAYCRQSIE 187
Cdd:pfam00589   1 RLTEDEVERLLDAAE-TGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVHrGKGNKERTVPLSDAALELLK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  188 NYLE-HFKPIQScnHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVN 266
Cdd:pfam00589  80 EWLSkRLLEAPK--SDYLFASKRGKPLSRQTVRKIFKRAGKEAGLELPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHSS 157

                         170
                  ....*....|.
gi 612672014  267 LSTTGKYTHVS 277
Cdd:pfam00589 158 ISTTQIYTHVA 168
 
Name Accession Description Interval E-value
recomb_XerC TIGR02224
tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with ...
 6-294 7.62e-144

tyrosine recombinase XerC; 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 XerC, one of two closely related chromosomal proteins along with XerD (TIGR02225). 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 homologs of XerC on other replicons, the chomosomal copy was preferred for building this model. This model does not detect all XerC, as some apparent XerC examples score in the gray zone between trusted (450) and noise (410) cutoffs, along with some XerD examples. XerC and XerD interact with cell division protein FtsK. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274042 [Multi-domain]  Cd Length: 295  Bit Score: 406.22  E-value: 7.62e-144
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014    6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEH--LQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYW 83
Cdd:TIGR02224   1 EAFLEYLRLERNYSPHTVRAYRRDLEAFLEFLEEEGglASLAEVTAADLRSFLAELHARGLSRRSLARKLSALRSFYRFL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   84 MTLDENIINPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASK--SLRDRVILELLYATGIRVSELVNIKKQDIDFYA 161
Cdd:TIGR02224  81 LRRGLIDANPAAGVRAPKQPKKLPKFLSEDEMEALLDAPEEDDEDwlALRDRAILELLYSSGLRVSELVGLDLSDLDLDF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  162 NGVTVLGKGSKERFVPFGAYCRQSIENYLEHFKPIQSCN--HDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHK 239
Cdd:TIGR02224 161 GEVRVRGKGNKERIVPFGPYARDALQAYLEARRSPLLASegQDALFLNRRGGRLTPRGVQYRLQQLRAKAGLPKHVHPHA 240

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 612672014  240 LRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRAKK 294
Cdd:TIGR02224 241 LRHSFATHLLNNGADLRAVQELLGHASLSTTQIYTHVDFQHLAKVYDQAHPRAKK 295
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
 6-292 1.08e-115

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 335.20  E-value: 1.08e-115
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEHL-QLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYWM 84
Cdd:PRK00236  11 EAFLEYLRVERGLSPHTLRAYRRDLRAFLAFLEEHGIsSLQDLDAADLRSFLARRRRQGLSARSLARRLSALRSFYRWLV 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  85 TLDENIINPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGV 164
Cdd:PRK00236  91 RRGLLKANPAAGLRAPKIPKRLPKPLDVDQAKRLLDAIDEDDPLALRDRAILELLYGSGLRLSELVGLDIDDLDLASGTL 170

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 165 TVLGKGSKERFVPFGAYCRQSIENYLEHfKPIQSCNHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTF 244
Cdd:PRK00236 171 RVLGKGNKERTVPLGRAAREALEAYLAL-RPLFLPDDDALFLGARGGRLSPRVVQRRVKKLGKKAGLPSHITPHKLRHSF 249

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*...
gi 612672014 245 ATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRA 292
Cdd:PRK00236 250 ATHLLESGGDLRAVQELLGHASLSTTQIYTHVDFQHLAEVYDAAHPRA 297
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
 6-292 4.60e-105

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: 307.97  E-value: 4.60e-105
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014    6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEHLQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYwmT 85
Cdd:TIGR02225   1 EQFLDYLWVERGLSQNTLEAYRRDLEKFLEFLEERGIDLEEVDRGDIVDFLAELKEAGLSARSIARALSALRSFYRF--L 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   86 LDENII--NPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANG 163
Cdd:TIGR02225  79 LREGIRedDPSALIEPPKVARKLPKVLTVEEVEALLAAPDVDTPLGLRDRAMLELLYATGLRVSELVGLRLEDVNLDEGF 158

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  164 VTVLGKGSKERFVPFGAYCRQSIENYLEHFKPIQSC----NHDFLIVNMKGEAITERGVRYVLNNIVKRtAGVSE-IHPH 238
Cdd:TIGR02225 159 VRVRGKGNKERLVPLGEEAIEALERYLKEARPLLLKkkvkESDALFLNRRGGPLSRQGVWKILKEYAKR-AGIEKpISPH 237

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 612672014  239 KLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRA 292
Cdd:TIGR02225 238 TLRHSFATHLLENGADLRVVQELLGHADISTTQIYTHVARERLKEVHKKHHPRA 291
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
6-290 4.51e-97

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 287.66  E-value: 4.51e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQE-HLQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYWm 84
Cdd:COG4974    8 EAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEELgKIPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRYA- 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  85 tLDENII--NPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYAN 162
Cdd:COG4974   87 -VREGLLedNPAAKVKLPKKPRKLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRG 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 163 GVTVL-GKGSKERFVPFGAYCRQSIENYLEHFKPIQScnhDFLIVNMKGEAITERGVRYVLNNIVKRtAGVSE-IHPHKL 240
Cdd:COG4974  166 TIRVRrGKGGKERTVPLSPEALEALREYLEERRPRDS---DYLFPTRRGRPLSRRAIRKILKRLAKR-AGIPKrVTPHSL 241

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|
gi 612672014 241 RHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHP 290
Cdd:COG4974  242 RHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLHP 291
xerD PRK00283
tyrosine recombinase;
6-292 1.89e-94

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 281.31  E-value: 1.89e-94
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEHLQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYwmT 85
Cdd:PRK00283  10 EQFLDALWVERGLAENTLSSYRRDLELFAEWLAARGLSLAEATRDDLQAFLAELAEGGYKATSSARRLSALRRFFQF--L 87

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  86 LDENII--NPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANG 163
Cdd:PRK00283  88 LREGLRedDPSALLDSPKLPRRLPKTLSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDVSLRQGV 167

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 164 VTVLGKGSKERFVPFGAYCRQSIENYLEHFKPI----QSCNHDFLivNMKGEAITERGVRYVLNNIVKRtAGV--SEIHP 237
Cdd:PRK00283 168 VRVTGKGNKERLVPLGEEAVYAIERYLERGRPAllngRSSDALFP--SARGGQLTRQTFWHRIKHYAKR-AGIdpKKLSP 244

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 612672014 238 HKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRA 292
Cdd:PRK00283 245 HVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTHVATERLKELHAQHHPRA 299
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
6-285 1.90e-82

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


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 250.26  E-value: 1.90e-82
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   6 EAFLNTLKvERNFSEHTLKSYQDDLIQFNQFLEQEHLQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEYWMt 85
Cdd:COG4973    9 EAYLEHLR-ERRLSPKTLEAYRRDLRRLIPLLGDADLPLEELTPADVRRFLARLHRRGLSPRTLNRRLSALRSFFNWAV- 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  86 lDENII--NPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEEDAsKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANG 163
Cdd:COG4973   87 -REGLLeaNPAAGVKAPKAPRKLPRALTVDELAQLLDALADDP-LAVRDRAIVELLYSTGLRLGELVGLDWEDVDLDAGE 164

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 164 VTVLGKGSKERFVPFGAYCRQSIENYLEHFKPIQSCNHDFLIVNMKGEAITERGVRYVLNNIVKRtAGVSE-IHPHKLRH 242
Cdd:COG4973  165 VRVRGKTGKSRTVPLGPKALAALREWLAVRPELAAPDEGALFPSRRGTRLSPRNVQKRLRRLAKK-AGLPKhVHPHDLRH 243

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 612672014 243 TFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVY 285
Cdd:COG4973  244 SFATHLLESGGDLRAVQELLGHASISTTQIYTHLDFQHLAEVY 286
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
 112-281 2.62e-81

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: 243.19  E-value: 2.62e-81
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLGKGSKERFVPFGAYCRQSIENYLE 191
Cdd:cd00798    1 VDEVERLLDAPDTDTPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERLVPFGSYAVEALEEYLE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 192 HFKP--IQSCNHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVNLST 269
Cdd:cd00798   81 ERRPllLKKKPPDALFLNKRGKRLSRRGVWRILKKYAERAGLPKHVSPHTLRHSFATHLLEGGADLRVVQELLGHASLST 160

                        170
                 ....*....|..
gi 612672014 270 TGKYTHVSNQQL 281
Cdd:cd00798  161 TQIYTHVSFERL 172
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
 6-297 1.05e-48

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 165.69  E-value: 1.05e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   6 EAFLNTLkVERNFSEHTLKSYQDDLIQFNQFLEQ--------------EHLQLNTFEYRDARnylsylySNHLKRTSVSR 71
Cdd:PRK01287  26 ERFLAWL-QERNWSERTLKVYTEHLYPFILWCEErglyyaadvtlpvlERYQRYLYGYRKAN-------GEPLSTRTQRT 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  72 KISTLRTFYEyWMtLDENII--NPFVQLVHPKKEKYLP-QFFYEEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSE 148
Cdd:PRK01287  98 QLSPLRVWFR-WL-LKRHHIlyNPAEDLELPKEEKRLPrQILSEAETEQVLASPDLTTLQGLRDRALLELLWSTGIRRGE 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 149 LVNIKKQDIDFYANGVTVL-GKGSKERFVPFGAYCRQSIENYLEHFKPIQSCNHD--FLIVNMKGE-----AITERGVRY 220
Cdd:PRK01287 176 LARLDLYDVDASRGVVTVRqGKGNKDRVVPVGERALAWLQRYLQDVRPQLAVRPDsgALFVAMDGDglarnTLTNMVGRY 255

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 612672014 221 VLNNIVKRtAGVSeihpHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRKVYLNAHPRAKKENE 297
Cdd:PRK01287 256 IRAAGIEK-AGAC----HLFRHAMATQMLENGADTRHIQAILGHAKLETTQIYTRVSIGHLQAVHASTHPAERKADE 327
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 109-277 1.86e-48

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: 159.02  E-value: 1.86e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  109 FFYEEEMEALFKTVEeDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVL-GKGSKERFVPFGAYCRQSIE 187
Cdd:pfam00589   1 RLTEDEVERLLDAAE-TGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVHrGKGNKERTVPLSDAALELLK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  188 NYLE-HFKPIQScnHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVN 266
Cdd:pfam00589  80 EWLSkRLLEAPK--SDYLFASKRGKPLSRQTVRKIFKRAGKEAGLELPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHSS 157

                         170
                  ....*....|.
gi 612672014  267 LSTTGKYTHVS 277
Cdd:pfam00589 158 ISTTQIYTHVA 168
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 114-274 1.74e-41

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: 141.08  E-value: 1.74e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 114 EMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLGKG---SKERFVPFGAYCRQSIENYL 190
Cdd:cd00397    1 ELEKLLDAIDEDKKIDLRDRAILLLLLETGLRISELLALKVKDIDLDNGTIRVRGKKtkgGKERTVPLPKELAEELKEYL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 191 EHFKPIQSC-NHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSE--IHPHKLRHTFATHLLNQGADLRTVQSLLGHVNL 267
Cdd:cd00397   81 KERRDKRGPlLKSLYLNKLFGTKLGERLSRRTLRRIFKKAGIEAGrkITPHSLRHTFATNLLENGVDIKVVQKLLGHSSI 160


                 ....*..
gi 612672014 268 STTGKYT 274
Cdd:cd00397  161 STTQRYL 167
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
 105-276 2.65e-41

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: 140.87  E-value: 2.65e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 105 YLPQFFYEEEMEALFktveeDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTV-LGKGSKERFVPFGAYCR 183
Cdd:cd01193    1 KLPVVLSPDEVRRIL-----GALTELRHRLILSLLYGAGLRISELLRLRVKDIDFERGVIRVrQGKGGKDRVVPLPEKLL 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 184 QSIENYLEHFKPIQ--------SCNHDFLIVNMKGEAITERGVRYVLNNIVKRtAGVS-EIHPHKLRHTFATHLLNQGAD 254
Cdd:cd01193   76 EPLRRYLKSARPKEeldpaegrAGVLDPRTGVERRHHISETTVQRALKKAVEQ-AGITkRVTPHTLRHSFATHLLEAGTD 154

                        170       180
                 ....*....|....*....|..
gi 612672014 255 LRTVQSLLGHVNLSTTGKYTHV 276
Cdd:cd01193  155 IRTIQELLGHSDLSTTMIYTHV 176
INT_RitC_C_like cd01182
C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; ...
 112-284 8.78e-34

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: 121.62  E-value: 8.78e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANG-VTVLGKGSKERFVPFGAYCRQSIENYL 190
Cdd:cd01182    3 REEMKALLAAPDRNTSLGRRDHALLLLLYDTGARVQELADLTIRDLRLDDPAtVRLHGKGRKERTVPLWKETVAALKAYL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 191 EHFKPIQSCNHDF-LIVNMKGEAITERGVRYVLNNIVKRTAGVSE-----IHPHKLRHTFATHLLNQGADLRTVQSLLGH 264
Cdd:cd01182   83 QEFHLTPDPKQLFpLFPNRRGQPLTRDGVAYILNKYVALASNRCPslpkrITPHTLRHTKAMHLLQAGVDLTVIRDWLGH 162

                        170       180
                 ....*....|....*....|
gi 612672014 265 VNLSTTGKYTHVSNQQLRKV 284
Cdd:cd01182  163 ESVETTQIYAEADLEMKREA 182
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
 112-286 8.19e-29

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: 108.48  E-value: 8.19e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLG-KGSKERFVPFGAYCRQSIENYL 190
Cdd:cd01188    2 PDEVRRLLAAIDRLTPVGLRDYAILLLLARLGLRAGDVAGLRLDDIDWRSGTITVRQkKTGRPVELPLTEPVGEALADYL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 191 EHFKPiqSCNHDFLIVNMK---GEAITERGVRYVLNNIVKRtAGVSEIH--PHKLRHTFATHLLNQGADLRTVQSLLGHV 265
Cdd:cd01188   82 RDGRP--RTDSREVFLRARapyRPLSSTSQISSIVRRYLRK-AGIEPSHrgTHSLRHSLATRMLRAGTSLKVIADLLGHR 158

                        170       180
                 ....*....|....*....|.
gi 612672014 266 NLSTTGKYTHVSNQQLRKVYL 286
Cdd:cd01188  159 SIETTAIYAKIDVDDLREVAL 179
integrase_gron TIGR02249
integron integrase; Members of this family are integrases associated with integrons (and ...
 6-279 1.49e-26

integron integrase; Members of this family are integrases associated with integrons (and super-integrons), which are systems for incorporating and expressing cassettes of laterally transferred DNA. Incorporation occurs at an attI site. A super-integron, as in Vibrio sp., may include over 100 cassettes. This family belongs to the phage integrase family (pfam00589) that also includes recombinases XerC (TIGR02224) and XerD (TIGR02225), which are bacterial housekeeping proteins. Within this family of integron integrases, some are designated by class, e.g. IntI4, a class 4 integron integrase from Vibrio cholerae N16961. [DNA metabolism, DNA replication, recombination, and repair, Mobile and extrachromosomal element functions, Other]


Pssm-ID: 131303 [Multi-domain]  Cd Length: 315  Bit Score: 105.94  E-value: 1.49e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014    6 EAFLNTLKVERNFSEHTlksyqddliqfnqfleqehlqlntfeYRDARNYLSYLYSNHLKRTsvsrkistlrtfyeywMT 85
Cdd:TIGR02249  47 EAFLSDLAVDGKVAAST--------------------------QNQALNALLFLYKEILKTP----------------LS 84

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   86 LDENIinpfvqlVHPKKEKYLPQFFYEEEMEALFKTVEEDAskslrdRVILELLYATGIRVSELVNIKKQDIDFYANGVT 165
Cdd:TIGR02249  85 LMERF-------VRAKRPRKLPVVLTREEVRRLLEHLEGKY------RLIAKLLYGSGMRLMECLRLRIQDIDFDYGEIR 151

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  166 VL-GKGSKERFVPFGAYCRQSIENYLE-----HFKPIQ-----------------SCNHDF----LIVNMKGEAITERGV 218
Cdd:TIGR02249 152 IRqGKGGKDRTVTLPKELIPPLREQIElarayHEADLAegyggvylphalarkypNAPKEWgwqyLFPSHRLSRDPESGV 231

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 612672014  219 --RY-----VLNNIVKRTAGVSEIH----PHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQ 279
Cdd:TIGR02249 232 irRHhinetTIQRAVRRAVERAGIEkpvtCHTLRHSFATHLLESGADIRTVQELLGHSDVKTTQIYTHVLNR 303
xerS PRK05084
site-specific tyrosine recombinase XerS; Reviewed
 13-283 6.18e-26

site-specific tyrosine recombinase XerS; Reviewed


Pssm-ID: 235339 [Multi-domain]  Cd Length: 357  Bit Score: 105.00  E-value: 6.18e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  13 KVERNFSEHTLKSYQDDLIQFNQFLEQEHL------------QLNTFEYRDARNYLSYLYSNHLK----------RTSVS 70
Cdd:PRK05084  28 KLATPYSPTTLYEYLTEYRRFFNWLISEGLsdaskikdiplsTLENLTKKDVEAFILYLRERPLLnghstkkgnsQTTIN 107

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  71 RKISTLRTFYEYWMTLDENI-INPF-----VQLVHPKKEKYLPQF---------FYEEEMEALFKTVEEDASKSL----- 130
Cdd:PRK05084 108 RTLSALKSLFKYLTEEAENEdGEPYfyrnvMKKIELKKKKETLAArahnlkqklFLGDEDYEFLDFIDNEYEQKLsnral 187

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 131 --------RDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLGKGSKERFVPFGAYCRQSIENYLEHFKPIQSCNHD 202
Cdd:PRK05084 188 ssfkknkeRDLAIIALILGSGLRVSELVNLDLSDLNLKQMTIDVTRKGGKRDSVNIAPFALPYLEEYLKIRASRYKAEKQ 267

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 203 ---FLIVNMKGEA--ITERGVryvlNNIVKRTA---GVsEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYT 274
Cdd:PRK05084 268 ekaLFLTKYRGKPnrISARAI----EKMVAKYSeafGV-RLTPHKLRHTLATRLYDATKDQVLVADQLGHTSTETTDLYT 342


                 ....*....
gi 612672014 275 HVSNQQLRK 283
Cdd:PRK05084 343 HIVNDEQKE 351
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 112-275 5.66e-24

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: 95.52  E-value: 5.66e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEDAS-KSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVT--VLGKG--SKERFVPFGAYCRQSI 186
Cdd:cd01194    3 LEQARQLLASLPIDDSiIGLRDRAIISLMVTEGLRTVEIVRADVGDLRQEGEGTIlyVQGKGktSKDDFVYLRPDVLKAL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 187 ENYLEHFKPIQSCNHDFLIV--NMKGEAITERGVRYVLNNIVKRtAGV--SEIHPHKLRHTFATHLLNQGADLRTVQSLL 262
Cdd:cd01194   83 QAYLKARGKLDFEEPLFTSLsnNSKGQRLTTRSIRRIIKKYLRK-AGLddDRLTAHSLRHTAGTLALKAGKSLREVQQLL 161

                        170
                 ....*....|...
gi 612672014 263 GHVNLSTTGKYTH 275
Cdd:cd01194  162 RHSDPNTTMIYAH 174
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
 108-275 1.48e-23

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: 94.32  E-value: 1.48e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 108 QFFYEEEMEALFKTVEEDASKSLRDrvILELLYATGIRVSELVNIKKQDIDFyaNGVTVLGKGSK---ERFVPFGAYCRQ 184
Cdd:cd00796    3 RFLTEDEEARLLAALEESTNPHLRL--IVLLALYTGARRGEILSLRWDDIDL--EVGLIVLPETKngkPRTVPLSDEAIA 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 185 SIENYLEHF-KPIQSCNHDFlivnmkgEAITERGVRYVLNNIVKRtAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLG 263
Cdd:cd00796   79 ILKELKRKRgKDGFFVDGRF-------FGIPIASLRRAFKKARKR-AGLEDLRFHDLRHTFASRLVQAGVPIKTVAKILG 150

                        170
                 ....*....|..
gi 612672014 264 HVNLSTTGKYTH 275
Cdd:cd00796  151 HSSIKMTMRYAH 162
INT_ICEBs1_C_like cd01189
C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; ...
 112-275 5.36e-21

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: 86.84  E-value: 5.36e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEdasKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVlgkgskerfvpfgaycRQSIENYLE 191
Cdd:cd01189    1 PEELKKLLEALKK---RGDRYYLLFLLALLTGLRRGELLALTWSDIDFENGTIRI----------------NRTLVRKKK 61

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 192 HFKPIQSC--NHDFLIVNMKGEAITERGVRYVLNNIVKRtAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVNLST 269
Cdd:cd01189   62 GGYVIKPPktKSSIRTIPLPDELIELLKELKAFKKLLKK-AGLPRITPHDLRHTFASLLLEAGVPLKVIAERLGHSDIST 140


                 ....*..
gi 612672014 270 TGK-YTH 275
Cdd:cd01189  141 TLDvYAH 147
INT_tnpA_C_Tn554 cd01186
Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family ...
 125-284 3.50e-20

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: 85.93  E-value: 3.50e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 125 DASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLGKG----------SKERFVPFGAYCRQSIENYLEHFK 194
Cdd:cd01186   12 NACNNLRDKFLLALLYETGLRIGEALGLRIEDIDMADNQIELVPREdntnearaksMRERRIPVSQDLIDLYADYLTYIY 91

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 195 PIQSCNHDFLIVNMK----GEAITERGVRYVLNNIVKRTAGvsEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTT 270
Cdd:cd01186   92 CEEAEFSITVFVNVKggnqGKAMNYSDVYDLVRRLKKRTGI--DFTPHMFRHTHATALIRAGWSIEVVARRLGHAHVQTT 169

                        170
                 ....*....|....*
gi 612672014 271 -GKYTHVSNQQLRKV 284
Cdd:cd01186  170 lNTYGHLSEEDIRRE 184
INT_C_like_5 cd01195
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 113-275 2.07e-17

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: 77.90  E-value: 2.07e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 113 EEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLGKGSKER-FVPFGAYCRQSIENYLE 191
Cdd:cd01195    3 EEARQRLDAADRHTAKGKRDEALVRLLLDNALRRSEAVALDVEDLEKEHRRLRILGKGKKQReVVTLPPTTREALAAWLA 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 192 HFKPIQSCnhdfLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIH----PHKLRHTFATHLLNQGADL-RTVQSLLGHVN 266
Cdd:cd01195   83 ARGEAEGP----LFVSLDRASRGRRLSPQAVYRIVRRLAERIGLGkrlsPHGLRHSAITLALDAGAGLiRKVQDFSRHAD 158


                 ....*....
gi 612672014 267 LSTTGKYTH 275
Cdd:cd01195  159 LRTLQVYDD 167
INTN1_C_like cd01185
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ...
 113-281 5.34e-17

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: 76.53  E-value: 5.34e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 113 EEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDfYANGVTVL----GKGSKERFVPFGAYCRQSIEN 188
Cdd:cd01185    1 EELKRLMALELSDTSRLELVRDMFLFSCYTGLRFSDLKNLTWKNIV-EASGRTWIryrrKKTGKPVTVPLLPVAREILEK 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 189 YLEHFKpiqscnhDFLIVNMkgeaITERGVRYVLNNIVKRtAGVSE-IHPHKLRHTFATHLLNQGADLRTVQSLLGHVNL 267
Cdd:cd01185   80 YKDDRS-------EGKLFPV----LSNQKINRYLKEIAKI-AGIDKhLTFHVARHTFATLLLLKGVDIETISKLLGHSSI 147

                        170
                 ....*....|....
gi 612672014 268 STTGKYTHVSNQQL 281
Cdd:cd01185  148 KTTQIYAKIVDSKK 161
FimB COG0582
Integrase/recombinase, includes phage integrase [Replication, recombination and repair, ...
 112-275 8.57e-17

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


Pssm-ID: 440347 [Multi-domain]  Cd Length: 391  Bit Score: 79.70  E-value: 8.57e-17
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEeDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLG---KGSKERFVPFgayCRQSIEn 188
Cdd:COG0582  208 PEELPELLRALD-AYRGSPVTRLALRLLLLTGVRPGELRGARWSEIDLEAALWTIPAermKTRRPHIVPL---SRQALE- 282

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 189 YLEHFKPIqSCNHDFLIVNMKGEA--ITERGVRYVLnnivkRTAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVN 266
Cdd:COG0582  283 ILKELKPL-TGDSEYVFPSRRGPKkpMSENTLNKAL-----RRMGYGRFTPHGFRHTASTLLNEAGFPPDVIERQLAHKD 356

                        170
                 ....*....|
gi 612672014 267 LSTTGK-YTH 275
Cdd:COG0582  357 GNKVRAaYNR 366
INT_FimBE_like cd01197
FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar ...
 101-274 1.04e-16

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: 76.39  E-value: 1.04e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 101 KKEKYLPQFfyeeEMEALFKTVEEdASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLG-KGSKERFVPFG 179
Cdd:cd01197    2 KQRKYLTGK----EVQALLQAACR-GRTPARDYCLLLLAFRHGFRVSELCDLHLSDVDLESRRLHIRRlKNGFSTTHPLR 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 180 AYCRQSIENYLEHFKPIQSCNHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTFATHLLNQGADLRTVQ 259
Cdd:cd01197   77 FDEREALEAWLKERANWKGADTDWIFLSRRGGPLSRQQAYRIIRDLGKEAGTVTQTHPHMLRHACGYALADRGADTRLIQ 156

                        170
                 ....*....|....*
gi 612672014 260 SLLGHVNLSTTGKYT 274
Cdd:cd01197  157 DYLGHRNIRHTVIYT 171
Phage_int_SAM_1 pfam02899
Phage integrase, N-terminal SAM-like domain;
6-82 2.51e-15

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 427047 [Multi-domain]  Cd Length: 83  Bit Score: 69.60  E-value: 2.51e-15
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 612672014    6 EAFLNTLKVERNFSEHTLKSYQDDLIQFNQFLEQEHLQLNTFEYRDARNYLSYLYSNHLKRTSVSRKISTLRTFYEY 82
Cdd:pfam02899   2 DQFLEYLSLERGLSPHTLRAYRRDLLAFLKFLSEGGSSLEQITTSDVRAFLAELRAQGLSASSLARRLSALRSFYQF 78
INT_RitB_C_like cd00797
C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; ...
 112-275 7.12e-15

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: 71.57  E-value: 7.12e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEDASKS-LRD---RVILELLYATGIRVSELVNIKKQDIDFYANGVTV-LGKGSKERFVPFGAYCRQSI 186
Cdd:cd00797    3 DAEIRRLLAAADQLPPESpLRPltyATLFGLLYATGLRVGEALRLRLEDVDLDSGILTIrQTKFGKSRLVPLHPSTVGAL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 187 ENYL-EHFKPIQSCNHDFLIVNMKGEAITERGVRYVLNNIVkRTAGVSEI------HPHKLRHTFATHLL----NQGADL 255
Cdd:cd00797   83 RDYLaRRDRLLPSPSSSYFFVSQQGGRLTGGGVYRVFRRLL-RRIGLRGAgdgrgpRLHDLRHTFAVNRLtrwyREGADV 161

                        170       180
                 ....*....|....*....|....
gi 612672014 256 -RTVQSL---LGHVNLSTTGKYTH 275
Cdd:cd00797  162 eRKLPVLstyLGHVNVTDTYWYLT 185
PRK15417 PRK15417
integron integrase;
55-276 9.16e-14

integron integrase;


Pssm-ID: 185315 [Multi-domain]  Cd Length: 337  Bit Score: 70.46  E-value: 9.16e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  55 YLSYLYSNHLKRTSVSRK-ISTLRTFYEYWMTLDEniinPFVQLV-HPKKEKYLPQFFYEEEMEALFKTVEEDaskslrD 132
Cdd:PRK15417  64 FLSWLANERKVSVSTHRQaLAALLFFYGKVLCTDL----PWLQEIgRPRPSRRLPVVLTPDEVVRILGFLEGE------H 133

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 133 RVILELLYATGIRVSELVNIKKQDIDFYANGVTVL-GKGSKER--FVP--FGAYCRQ--------------------SIE 187
Cdd:PRK15417 134 RLFAQLLYGTGMRISEGLQLRVKDLDFDHGTIIVReGKGSKDRalMLPesLAPSLREqlsrarawwlkdqaegrsgvALP 213

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 188 NYLEHFKPIQSCNHDFLIVNMKGEAITE--RGV---RYVLNNIVKRT-------AGVSE-IHPHKLRHTFATHLLNQGAD 254
Cdd:PRK15417 214 DALERKYPRAGHSWPWFWVFAQHTHSTDprSGVvrrHHMYDQTFQRAfkraveqAGITKpATPHTLRHSFATALLRSGYD 293

                        250       260
                 ....*....|....*....|..
gi 612672014 255 LRTVQSLLGHVNLSTTGKYTHV 276
Cdd:PRK15417 294 IRTVQDLLGHSDVSTTMIYTHV 315
PRK09871 PRK09871
tyrosine recombinase; Provisional
 108-274 1.53e-12

tyrosine recombinase; Provisional


Pssm-ID: 182126  Cd Length: 198  Bit Score: 65.00  E-value: 1.53e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 108 QFFYEEEMEALFKTVEEDASKSlRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLG-KGSKERFVPFGAYCRQSI 186
Cdd:PRK09871   5 RYLTGKEVQAMMQAVCYGATGA-RDYCLILLAYRHGMRISELLDLHYQDLDLNEGRINIRRlKNGFSTVHPLRFDEREAV 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 187 ENYLEHFKPIQSCNH-DFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHV 265
Cdd:PRK09871  84 ERWTQERANWKGADRtDAIFISRRGSRLSRQQAYRIIRDAGIEAGTVTQTHPHMLRHACGYELAERGADTRLIQDYLGHR 163


                 ....*....
gi 612672014 266 NLSTTGKYT 274
Cdd:PRK09871 164 NIRHTVRYT 172
PRK09870 PRK09870
tyrosine recombinase; Provisional
 101-274 5.14e-12

tyrosine recombinase; Provisional


Pssm-ID: 182125  Cd Length: 200  Bit Score: 63.80  E-value: 5.14e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 101 KKEKYLPQffyeEEMEALFKTVEEdASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTV--LGKGSKERFvPF 178
Cdd:PRK09870   8 KKRNFLTH----SEIESLLKAANT-GPHAARNYCLTLLCFIHGFRASEICRLRISDIDLKAKCIYIhrLKKGFSTTH-PL 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 179 GAYCRQSIENYLEHFKPIQSCNHDFLIVNMKGEAITERGVRYVLNNIVKRTAGVSEIHPHKLRHTFATHLLNQGADLRTV 258
Cdd:PRK09870  82 LNKEIQALKNWLSIRTSYPHAESEWVFLSRKGNPLSRQQFYHIISTSGGNAGLSLEIHPHMLRHSCGFALANMGIDTRLI 161

                        170
                 ....*....|....*.
gi 612672014 259 QSLLGHVNLSTTGKYT 274
Cdd:PRK09870 162 QDYLGHRNIRHTVWYT 177
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
 116-274 8.35e-12

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: 62.70  E-value: 8.35e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 116 EALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIDFYA-NGVTVLGKGSKERFVPFGaycRQSIENYLEHFK 194
Cdd:cd00799    2 KAMLATLDDTTLRGLRDRALLLLGFAGALRRSELVALRVEDLTRFVdGGLLIRLRRSKTDQDGEG---EIKALPYGPETC 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 195 PIQ--------SCNHD---FLIVNMKGEAITER-GVRYVlNNIVKRTAGVSEIHP-----HKLRHTFATHLLNQGADLRT 257
Cdd:cd00799   79 PVRalrawleaAGIPSgplFRRIRRGGSVGTTRlSDRSV-ARIVKRRAALAGLDPgdfsgHSLRRGFATEAARAGASLPE 157

                        170
                 ....*....|....*..
gi 612672014 258 VQSLLGHVNLSTTGKYT 274
Cdd:cd00799  158 IMAQGGHKSVATVMRYI 174
int PHA02601
integrase; Provisional
 48-287 1.40e-11

integrase; Provisional


Pssm-ID: 222904 [Multi-domain]  Cd Length: 333  Bit Score: 63.98  E-value: 1.40e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  48 EYRDAR--NYLSYLYSNHLKRTSVSRKISTLRTFYEYWMTLDE-NIINPFVQLVHPKKEKYLPQFFYEEEMEALFKTVEE 124
Cdd:PHA02601 108 DYRARRlsGEFKVNKGRPIKPATVNRELAYLSAVFNELIKLGKwSGPNPLDGIRPFKEAEPELAFLTKEEIERLLDACDG 187

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 125 DASKSLRdrVILELLYATGIRVSELVNIKKQDIDFYAngVT-VLGKGSKERFVPfgaycrqsIENYLEHFKPIQS----- 198
Cdd:PHA02601 188 SRSPDLG--LIAKICLATGARWSEAETLKRSQISPYK--ITfVKTKGKKNRTVP--------ISEELYKMLPKRRgrlfk 255

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 199 -CNHDFlivnmkgeaitERGVRYVLNNIVKRTAgvseihPHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVS 277
Cdd:PHA02601 256 dAYESF-----------ERAVKRAGIDLPEGQA------THVLRHTFASHFMMNGGNILVLQRILGHATIEMTMAYAHFA 318

                        250
                 ....*....|.
gi 612672014 278 NQQLRK-VYLN 287
Cdd:PHA02601 319 PDHLEDaVSLN 329
INT_C_like_1 cd01184
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 110-275 1.00e-10

Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine recombinase (integrase) 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: 271184 [Multi-domain]  Cd Length: 180  Bit Score: 59.63  E-value: 1.00e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 110 FYEEEMEALFKTVEEDASKSLRDR---VILELLYaTGIRVSELVNIKKQDIdFYANGVTVL-------GKGSK----ERF 175
Cdd:cd01184    1 FTPEELAKIFSSPLYTGCKKKDPAlywLPLIGLY-TGARLNEICQLRVDDI-KEEDGIWCIdinddaeGRRLKtkasRRL 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 176 VPFGaycRQSIE-NYLEHFKPIQSCNHDFL------IVNMKGEAITERGVRYVLNNIVKRTAGVSEihpHKLRHTFATHL 248
Cdd:cd01184   79 VPIH---PRLIElGFLDYVEALRADGKLFLfpekrdKDGKYSKAASKWFNRLLRKLGIKDDERKSF---HSFRHTFITAL 152

                        170       180
                 ....*....|....*....|....*...
gi 612672014 249 LNQGADLRTVQSLLGHVNLSTTGK-YTH 275
Cdd:cd01184  153 KRAGVPEELIAQIVGHSRGGVTHDtYGK 180
INT_P4_C cd00801
Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in ...
 112-294 1.53e-10

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: 59.21  E-value: 1.53e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 112 EEEMEALFKTVEEdASKSLRDRVILELLYATGIRVSELVNIKKQDIDFyANGVTVL----GKGSKERFVPFgayCRQSIE 187
Cdd:cd00801    2 PDELPELWRALDT-ANLSPPTKLALRLLLLTGQRIGELARARWSEIDL-EEKTWTIpaerTKNKRPHRVPL---SDQALE 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 188 nYLEHFKPIqSCNHDFLIVNMKGEAITERGVRyvLNNIVKRTAGVSEIH-PHKLRHTFATHLLNQGADLRTVQSLLGHVN 266
Cdd:cd00801   77 -ILEELKEF-TGDSGYLFPSRRKKKKPISENT--INKALKRLGYKGKEFtPHDLRRTFSTLLNELGIDPEVIERLLNHVL 152

                        170       180
                 ....*....|....*....|....*...
gi 612672014 267 lstTGKythvsnqqLRKVYLNAHPRAKK 294
Cdd:cd00801  153 ---GGV--------VRAAYNRYDYLEER 169
INT_tnpB_C_Tn554 cd01187
Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family ...
 135-275 1.54e-09

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: 55.51  E-value: 1.54e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 135 ILELLYATGIRVSELVNIKKQDIdfyangvtvLGKGSKERFvpFGAYCRQSIENYLEHFKPIqscnHDFLIVNMKGEAIT 214
Cdd:cd01187   18 VVQAAVFTGARASELATLKFGCL---------HAQTSDDGT--FLYWLKWENKGGKQLDIPI----SKKVAELIKTINWT 82

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 612672014 215 ERGVRYVLNNIVKRTaGVSEIHPHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTH 275
Cdd:cd01187   83 LNELSELKNISDDHG-ERFRFHTHRFRHTVATRLANSGMGILVLQQLLGHSSPEMTLRYAL 142
INT_C_like_2 cd01191
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 135-273 3.15e-09

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: 55.12  E-value: 3.15e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 135 ILELLYATGIRVSELVNIKKQDI-----DFYAngvtvlgKGSKERFVPFGAYCRQSIENYLEHfkpiQSCNHDFLIVNMK 209
Cdd:cd01191   25 VVRFLAATGARVSELIKIKVEHVelgyfDIYS-------KGGKLRRLYIPKKLRNEALEWLKS----TNRKSGYIFLNRF 93

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 612672014 210 GEAITERGVRYVLNNIVKRTaGVSE--IHPHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKY 273
Cdd:cd01191   94 GERITTRGIAQQLKNYARKY-GLNPkvVYPHSFRHRFAKNFLEKYNDIALLADLMGHESIETTRIY 158
INT_C_like_3 cd01192
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 128-284 9.00e-09

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: 53.84  E-value: 9.00e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 128 KSLRDRVILELLYATGIRVSELVNIKKQDIDFYANGVTVLGKGSKERFVPFGAYCRQSIENYLEHFKPIQSCNHDFLIVN 207
Cdd:cd01192   22 ANPRNYLLFIVGINTGLRISDLLSLKVEDVTNKDKLSIKEQKTGKQKTFPLNPTLVKALKEYIDDLDLKRNDYLFKSLKQ 101

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 208 MKGEAITERGVryvlNNIVKRTAGVSEIH----PHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKYTHVSNQQLRK 283
Cdd:cd01192  102 GPEKPISRKQA----YKILKKAADDLGLNynigTHSLRKTFGYHVYKQGKDIELLMKLLNHSSPSITLRYLGIDQEDVDK 177


                 .
gi 612672014 284 V 284
Cdd:cd01192  178 A 178
INT_C_like_6 cd01196
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 113-279 1.85e-08

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: 53.25  E-value: 1.85e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 113 EEMEALFKTVEEDASKSLRDRVILELLYATGIRVSELVNIKKQDIdfYANG----VTVLGKGSKERFVPfgayCRQSIEN 188
Cdd:cd01196    3 PEARRLLESIDSTHPVGLRDRALIALMVYSFARIGAVLAMRVEDV--YDQGrrlwVRLAEKGGKQHEMP----CHHDLEE 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 189 YLEHFKPIQSCNHD-----FLIVNMKGEAITERGV-RYVLNNIVKR---TAGV-SEIHPHKLRHTFATHLLNQGADLRTV 258
Cdd:cd01196   77 YLRAYLEAAEIEEDpkgplFRTTRGGTRKLTHNPLtQANAYRMVRRraiAADIpTAIGNHSFRATGITAYLKNGGTLEDA 156

                        170       180
                 ....*....|....*....|.
gi 612672014 259 QSLLGHVNLSTTGKYTHVSNQ 279
Cdd:cd01196  157 QNMANHASTRTTQLYDRRSDK 177
INT_Lambda_C cd00800
C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase; ...
 119-280 6.29e-08

C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase; Lambda-type integrases catalyze site-specific integration and excision of temperate bacteriophages and other mobile genetic elements to and from the bacterial host chromosome. They are tyrosine-based site-specific recombinase and belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The phage lambda integrase 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: 271181 [Multi-domain]  Cd Length: 161  Bit Score: 51.19  E-value: 6.29e-08
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 119 FKTVEEDASKSLRDrvILELLYATGIRVSELVNIKKQDIDfyANGVTVL-GKGSKERFVPFGAYCRQSIENyLEHfKPIQ 197
Cdd:cd00800    3 YAAIYAEAPPLLRL--AMELALLTGQRQGDLLRLKWSDIT--DGGLLVEqSKTGKKLLIPWTPSLRALVDR-IRA-LPRK 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 198 SCNHdfLIVNMKGEAITERGVRYVLNNIVKR---TAGVSEIHPHKLRHTFATHLLNQGaDLRTVQSLLGHVNLSTTGKYT 274
Cdd:cd00800   77 RSEY--LINSRKGGPLSYDTLKSAWRRARKAaglKGETEGFTFHDLRAKAATDYAEQG-GSTDAQALLGHKSDAMTERYT 153


                 ....*.
gi 612672014 275 HVSNQQ 280
Cdd:cd00800  154 RKRGQK 159
xerD PRK02436
site-specific tyrosine recombinase XerD;
2-273 3.58e-05

site-specific tyrosine recombinase XerD;


Pssm-ID: 235038 [Multi-domain]  Cd Length: 245  Bit Score: 44.21  E-value: 3.58e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014   2 NHIqEAFLNtlkvERNFSEHTLKSYQDDLIQFNQFLEqEHLQLNTFEyrdarnylsyLYSNHLKRTSVS---RKISTLRT 78
Cdd:PRK02436   3 NYI-EPFLA----SKQLSENSQKSYRYDLQQFLQLVG-ERVSQEKLK----------LYQQSLANLKPSaqkRKISAVNQ 66

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014  79 F--YEYwmtlDENIINPFVQLVH-PKKEKYLPQFFYEEEMEALFKTVeEDASKSLRDRVILELlyatGIRVSELVNIKKQ 155
Cdd:PRK02436  67 FlyFLY----QKGELDSFFKLKEtAKLPESKKEKLEILDLSSFYQET-PFPEGQLIALLILEL----GLTPSEIAGLKVA 137

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 612672014 156 DIDFYANGVTVlGKGSKERFVPFgaycRQSIENYLEhfkpiQSCNHDFLIVNmKGEAITERGVRYVLNNIVKrTAGVSEI 235
Cdd:PRK02436 138 DIDLDFQVLTI-EKAGGKRVLTL----PEALLPFLE-----AILNQTYLFEH-KGKPYSRQWFFNQLKSFVK-SIGYPGL 205

                        250       260       270
                 ....*....|....*....|....*....|....*...
gi 612672014 236 HPHKLRHTFATHLLNQGADLRTVQSLLGHVNLSTTGKY 273
Cdd:PRK02436 206 SAQKLREQFILKQKEAGKSIYELARLLGLKSPVTLEKY 243
Phage_int_SAM_4 pfam13495
Phage integrase, N-terminal SAM-like domain;
6-82 8.68e-03

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 463898 [Multi-domain]  Cd Length: 83  Bit Score: 34.90  E-value: 8.68e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 612672014    6 EAFLNTLKVeRNFSEHTLKSYQDDLIQFNQFLEQEHlqLNTFEYRDARNYLSYL-YSNHLKRTSVSRKISTLRTFYEY 82
Cdd:pfam13495   3 ERFREALRL-RGYAERTIKAYLRWIRRFLRFHDKKH--PEELTEEDIEAYLSHLaNERNVSASTQNQALNALSFFYRW 77
 
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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