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Conserved domains on  [gi|654546614|ref|WP_028014320|]
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MULTISPECIES: site-specific tyrosine recombinase XerD [Enterobacter]

Protein Classification

site-specific tyrosine recombinase XerD( domain architecture ID 11478438)

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

CATH:  1.10.443.10|1.10.150.130
Gene Ontology:  GO:0009037|GO:0003677|GO:0007049|GO:0051301|GO:0006313|GO:0009009|GO:0006310
PubMed:  10047575|9278480|10577069|9268326|10361305
SCOP:  4002347|4001040

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
xerD PRK00283
tyrosine recombinase;
1-298 0e+00

tyrosine recombinase;


:

Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 545.17  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   1 MEKDLALVEQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMR 80
Cdd:PRK00283   2 MMADRALIEQFLDALWVERGLAENTLSSYRRDLELFAEWLAARGLSLAEATRDDLQAFLAELAEGGYKATSSARRLSALR 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  81 RLFQHLYREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDI 160
Cdd:PRK00283  82 RFFQFLLREGLREDDPSALLDSPKLPRRLPKTLSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDV 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 161 SLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSEK 240
Cdd:PRK00283 162 SLRQGVVRVTGKGNKERLVPLGEEAVYAIERYLERGRPALLNGRSSDALFPSARGGQLTRQTFWHRIKHYAKRAGIDPKK 241

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 654546614 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00283 242 LSPHVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTHVATERLKELHAQHHPRA 299
 
Name Accession Description Interval E-value
xerD PRK00283
tyrosine recombinase;
1-298 0e+00

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 545.17  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   1 MEKDLALVEQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMR 80
Cdd:PRK00283   2 MMADRALIEQFLDALWVERGLAENTLSSYRRDLELFAEWLAARGLSLAEATRDDLQAFLAELAEGGYKATSSARRLSALR 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  81 RLFQHLYREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDI 160
Cdd:PRK00283  82 RFFQFLLREGLREDDPSALLDSPKLPRRLPKTLSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDV 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 161 SLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSEK 240
Cdd:PRK00283 162 SLRQGVVRVTGKGNKERLVPLGEEAVYAIERYLERGRPALLNGRSSDALFPSARGGQLTRQTFWHRIKHYAKRAGIDPKK 241

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 654546614 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00283 242 LSPHVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTHVATERLKELHAQHHPRA 299
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
 9-298 7.97e-160

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: 446.64  E-value: 7.97e-160
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614    9 EQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMRRLFQHLYR 88
Cdd:TIGR02225   1 EQFLDYLWVERGLSQNTLEAYRRDLEKFLEFLEERGIDLEEVDRGDIVDFLAELKEAGLSARSIARALSALRSFYRFLLR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   89 EKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVR 168
Cdd:TIGR02225  81 EGIREDDPSALIEPPKVARKLPKVLTVEEVEALLAAPDVDTPLGLRDRAMLELLYATGLRVSELVGLRLEDVNLDEGFVR 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  169 VIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGA--SIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsEKLSPHVL 246
Cdd:TIGR02225 161 VRGKGNKERLVPLGEEAIEALERYLKEARPLLLKKKvkESDALFLNRRGGPLSRQGVWKILKEYAKRAGIE-KPISPHTL 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 654546614  247 RHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:TIGR02225 240 RHSFATHLLENGADLRVVQELLGHADISTTQIYTHVARERLKEVHKKHHPRA 291
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
7-296 1.88e-109

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 318.86  E-value: 1.88e-109
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   7 LVEQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARR-ELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMRRLFQH 85
Cdd:COG4974    6 LLEAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEELgKIPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRY 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  86 LYREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQG 165
Cdd:COG4974   86 AVREGLLEDNPAAKVKLPKKPRKLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRG 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 166 VVRVI-GKGNKERLVPLGEEAVYWLETYLEHGRPwllngASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsEKLSPH 244
Cdd:COG4974  166 TIRVRrGKGGKERTVPLSPEALEALREYLEERRP-----RDSDYLFPTRRGRPLSRRAIRKILKRLAKRAGIP-KRVTPH 239

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|..
gi 654546614 245 VLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:COG4974  240 SLRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLHP 291
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
 115-287 2.06e-97

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: 284.02  E-value: 2.06e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 115 EAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLE 194
Cdd:cd00798    1 VDEVERLLDAPDTDTPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERLVPFGSYAVEALEEYLE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 195 HGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLS 274
Cdd:cd00798   81 ERRPLLLKKKPPDALFLNKRGKRLSRRGVWRILKKYAERAGL-PKHVSPHTLRHSFATHLLEGGADLRVVQELLGHASLS 159

                        170
                 ....*....|...
gi 654546614 275 TTQIYTHVATERL 287
Cdd:cd00798  160 TTQIYTHVSFERL 172
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 113-283 5.41e-64

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: 199.08  E-value: 5.41e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  113 LSEAQVERLLQSPAvDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEEAVYWLET 191
Cdd:pfam00589   2 LTEDEVERLLDAAE-TGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVhRGKGNKERTVPLSDAALELLKE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  192 YLEHGrpwLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:pfam00589  81 WLSKR---LLEAPKSDYLFASKRGKPLSRQTVRKIFKRAGKEAGLE-LPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHS 156

                         170
                  ....*....|..
gi 654546614  272 DLSTTQIYTHVA 283
Cdd:pfam00589 157 SISTTQIYTHVA 168
 
Name Accession Description Interval E-value
xerD PRK00283
tyrosine recombinase;
1-298 0e+00

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 545.17  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   1 MEKDLALVEQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMR 80
Cdd:PRK00283   2 MMADRALIEQFLDALWVERGLAENTLSSYRRDLELFAEWLAARGLSLAEATRDDLQAFLAELAEGGYKATSSARRLSALR 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  81 RLFQHLYREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDI 160
Cdd:PRK00283  82 RFFQFLLREGLREDDPSALLDSPKLPRRLPKTLSEAQVEALLDAPDIDTPLGLRDRAMLELLYATGLRVSELVGLTLDDV 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 161 SLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSEK 240
Cdd:PRK00283 162 SLRQGVVRVTGKGNKERLVPLGEEAVYAIERYLERGRPALLNGRSSDALFPSARGGQLTRQTFWHRIKHYAKRAGIDPKK 241

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 654546614 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00283 242 LSPHVLRHAFATHLLNHGADLRVVQELLGHSDISTTQIYTHVATERLKELHAQHHPRA 299
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
 9-298 7.97e-160

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: 446.64  E-value: 7.97e-160
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614    9 EQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMRRLFQHLYR 88
Cdd:TIGR02225   1 EQFLDYLWVERGLSQNTLEAYRRDLEKFLEFLEERGIDLEEVDRGDIVDFLAELKEAGLSARSIARALSALRSFYRFLLR 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   89 EKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVR 168
Cdd:TIGR02225  81 EGIREDDPSALIEPPKVARKLPKVLTVEEVEALLAAPDVDTPLGLRDRAMLELLYATGLRVSELVGLRLEDVNLDEGFVR 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  169 VIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGA--SIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsEKLSPHVL 246
Cdd:TIGR02225 161 VRGKGNKERLVPLGEEAIEALERYLKEARPLLLKKKvkESDALFLNRRGGPLSRQGVWKILKEYAKRAGIE-KPISPHTL 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|..
gi 654546614  247 RHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:TIGR02225 240 RHSFATHLLENGADLRVVQELLGHADISTTQIYTHVARERLKEVHKKHHPRA 291
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
 1-298 3.42e-117

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 338.67  E-value: 3.42e-117
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   1 MEKDLALVEQFLDALWLEKNLAENTLSAYRRDLTMLVEWLA-RRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAM 79
Cdd:PRK00236   3 DADLPAALEAFLEYLRVERGLSPHTLRAYRRDLRAFLAFLEeHGISSLQDLDAADLRSFLARRRRQGLSARSLARRLSAL 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  80 RRLFQHLYREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSD 159
Cdd:PRK00236  83 RSFYRWLVRRGLLKANPAAGLRAPKIPKRLPKPLDVDQAKRLLDAIDEDDPLALRDRAILELLYGSGLRLSELVGLDIDD 162

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 160 ISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGasiDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSe 239
Cdd:PRK00236 163 LDLASGTLRVLGKGNKERTVPLGRAAREALEAYLALRPLFLPDD---DALFLGARGGRLSPRVVQRRVKKLGKKAGLPS- 238

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 654546614 240 KLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:PRK00236 239 HITPHKLRHSFATHLLESGGDLRAVQELLGHASLSTTQIYTHVDFQHLAEVYDAAHPRA 297
recomb_XerC TIGR02224
tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with ...
 9-298 2.48e-111

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: 323.79  E-value: 2.48e-111
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614    9 EQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARR--ELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMRRLFQHL 86
Cdd:TIGR02224   1 EAFLEYLRLERNYSPHTVRAYRRDLEAFLEFLEEEggLASLAEVTAADLRSFLAELHARGLSRRSLARKLSALRSFYRFL 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   87 YREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVD--LPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQ 164
Cdd:TIGR02224  81 LRRGLIDANPAAGVRAPKQPKKLPKFLSEDEMEALLDAPEEDdeDWLALRDRAILELLYSSGLRVSELVGLDLSDLDLDF 160

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  165 GVVRVIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGiDSEKLSPH 244
Cdd:TIGR02224 161 GEVRVRGKGNKERIVPFGPYARDALQAYLEARRSPLLASEGQDALFLNRRGGRLTPRGVQYRLQQLRAKAG-LPKHVHPH 239

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 654546614  245 VLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHPRA 298
Cdd:TIGR02224 240 ALRHSFATHLLNNGADLRAVQELLGHASLSTTQIYTHVDFQHLAKVYDQAHPRA 293
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
7-296 1.88e-109

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 318.86  E-value: 1.88e-109
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   7 LVEQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARR-ELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMRRLFQH 85
Cdd:COG4974    6 LLEAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEELgKIPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRSFFRY 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  86 LYREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQG 165
Cdd:COG4974   86 AVREGLLEDNPAAKVKLPKKPRKLPRVLTEEEIEALLEALDTETPEGLRDRALLLLLYATGLRVSELLGLKWSDIDLDRG 165

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 166 VVRVI-GKGNKERLVPLGEEAVYWLETYLEHGRPwllngASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsEKLSPH 244
Cdd:COG4974  166 TIRVRrGKGGKERTVPLSPEALEALREYLEERRP-----RDSDYLFPTRRGRPLSRRAIRKILKRLAKRAGIP-KRVTPH 239

                        250       260       270       280       290
                 ....*....|....*....|....*....|....*....|....*....|..
gi 654546614 245 VLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:COG4974  240 SLRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEELREAVEKLHP 291
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
 115-287 2.06e-97

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: 284.02  E-value: 2.06e-97
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 115 EAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLVPLGEEAVYWLETYLE 194
Cdd:cd00798    1 VDEVERLLDAPDTDTPLGLRDRAILELLYASGLRVSELVGLDLSDVDLDEGLVRVTGKGNKERLVPFGSYAVEALEEYLE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 195 HGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLS 274
Cdd:cd00798   81 ERRPLLLKKKPPDALFLNKRGKRLSRRGVWRILKKYAERAGL-PKHVSPHTLRHSFATHLLEGGADLRVVQELLGHASLS 159

                        170
                 ....*....|...
gi 654546614 275 TTQIYTHVATERL 287
Cdd:cd00798  160 TTQIYTHVSFERL 172
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
6-289 3.02e-84

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


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 254.89  E-value: 3.02e-84
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   6 ALVEQFLDALwLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMRRLFQH 85
Cdd:COG4973    6 EALEAYLEHL-RERRLSPKTLEAYRRDLRRLIPLLGDADLPLEELTPADVRRFLARLHRRGLSPRTLNRRLSALRSFFNW 84

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  86 LYREKIREDDPSALLASPKLPQRLPKDLSEAQVERLLQSPAVDlPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQG 165
Cdd:COG4973   85 AVREGLLEANPAAGVKAPKAPRKLPRALTVDELAQLLDALADD-PLAVRDRAIVELLYSTGLRLGELVGLDWEDVDLDAG 163

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 166 VVRVIGKGNKERLVPLGEEAVYWLETYLEHgRPWLLNGASiDVLFPSQRAQQMTRQTFWHRIKHYATLAGIdSEKLSPHV 245
Cdd:COG4973  164 EVRVRGKTGKSRTVPLGPKALAALREWLAV-RPELAAPDE-GALFPSRRGTRLSPRNVQKRLRRLAKKAGL-PKHVHPHD 240

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....
gi 654546614 246 LRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQ 289
Cdd:COG4973  241 LRHSFATHLLESGGDLRAVQELLGHASISTTQIYTHLDFQHLAE 284
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
 6-296 2.22e-64

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 206.14  E-value: 2.22e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   6 ALVEQFLDALwLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSddLQALLA-ERVEGGYKATSSARL--------L 76
Cdd:PRK01287  23 QLLERFLAWL-QERNWSERTLKVYTEHLYPFILWCEERGLYYAADVT--LPVLERyQRYLYGYRKANGEPLstrtqrtqL 99

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  77 SAMRRLFQHLYREKIREDDPSALLASPKLPQRLPKD-LSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGL 155
Cdd:PRK01287 100 SPLRVWFRWLLKRHHILYNPAEDLELPKEEKRLPRQiLSEAETEQVLASPDLTTLQGLRDRALLELLWSTGIRRGELARL 179

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 156 TMSDISLRQGVVRVI-GKGNKERLVPLGEEAVYWLETYLEHGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLA 234
Cdd:PRK01287 180 DLYDVDASRGVVTVRqGKGNKDRVVPVGERALAWLQRYLQDVRPQLAVRPDSGALFVAMDGDGLARNTLTNMVGRYIRAA 259

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546614 235 GIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:PRK01287 260 GIE-KAGACHLFRHAMATQMLENGADTRHIQAILGHAKLETTQIYTRVSIGHLQAVHASTHP 320
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 113-283 5.41e-64

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: 199.08  E-value: 5.41e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  113 LSEAQVERLLQSPAvDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEEAVYWLET 191
Cdd:pfam00589   2 LTEDEVERLLDAAE-TGPLSIRDKALLELLYATGLRISELCSLRWSDIDFENGVIRVhRGKGNKERTVPLSDAALELLKE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  192 YLEHGrpwLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:pfam00589  81 WLSKR---LLEAPKSDYLFASKRGKPLSRQTVRKIFKRAGKEAGLE-LPLHPHMLRHSFATHLLEAGVDLRVVQKLLGHS 156

                         170
                  ....*....|..
gi 654546614  272 DLSTTQIYTHVA 283
Cdd:pfam00589 157 SISTTQIYTHVA 168
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
 108-282 3.71e-49

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: 161.29  E-value: 3.71e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 108 RLPKDLSEAQVERLLQSPavdlpLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEEAV 186
Cdd:cd01193    1 KLPVVLSPDEVRRILGAL-----TELRHRLILSLLYGAGLRISELLRLRVKDIDFERGVIRVrQGKGGKDRVVPLPEKLL 75

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 187 YWLETYLEHGRPW------LLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSEkLSPHVLRHAFATHLLNHGAD 260
Cdd:cd01193   76 EPLRRYLKSARPKeeldpaEGRAGVLDPRTGVERRHHISETTVQRALKKAVEQAGITKR-VTPHTLRHSFATHLLEAGTD 154

                        170       180
                 ....*....|....*....|..
gi 654546614 261 LRVVQMLLGHSDLSTTQIYTHV 282
Cdd:cd01193  155 IRTIQELLGHSDLSTTMIYTHV 176
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 117-280 6.30e-44

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: 147.63  E-value: 6.30e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 117 QVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIGKG---NKERLVPLGEEAVYWLETYL 193
Cdd:cd00397    1 ELEKLLDAIDEDKKIDLRDRAILLLLLETGLRISELLALKVKDIDLDNGTIRVRGKKtkgGKERTVPLPKELAEELKEYL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 194 EH---GRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIdseKLSPHVLRHAFATHLLNHGADLRVVQMLLGH 270
Cdd:cd00397   81 KErrdKRGPLLKSLYLNKLFGTKLGERLSRRTLRRIFKKAGIEAGR---KITPHSLRHTFATNLLENGVDIKVVQKLLGH 157

                        170
                 ....*....|
gi 654546614 271 SDLSTTQIYT 280
Cdd:cd00397  158 SSISTTQRYL 167
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
 114-290 4.87e-40

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: 137.76  E-value: 4.87e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 114 SEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIG-KGNKERLVPLGEEAVYWLETY 192
Cdd:cd01188    1 SPDEVRRLLAAIDRLTPVGLRDYAILLLLARLGLRAGDVAGLRLDDIDWRSGTITVRQkKTGRPVELPLTEPVGEALADY 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 193 LEHGRPWLlngaSIDVLFPSQRA--QQMTRQ-TFWHRIKHYATLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:cd01188   81 LRDGRPRT----DSREVFLRARApyRPLSSTsQISSIVRRYLRKAGIEPSHRGTHSLRHSLATRMLRAGTSLKVIADLLG 156

                        170       180
                 ....*....|....*....|.
gi 654546614 270 HSDLSTTQIYTHVATERLRQL 290
Cdd:cd01188  157 HRSIETTAIYAKIDVDDLREV 177
INT_RitC_C_like cd01182
C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; ...
 113-289 7.85e-40

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: 137.41  E-value: 7.85e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISL-RQGVVRVIGKGNKERLVPLGEEAVYWLET 191
Cdd:cd01182    1 LTREEMKALLAAPDRNTSLGRRDHALLLLLYDTGARVQELADLTIRDLRLdDPATVRLHGKGRKERTVPLWKETVAALKA 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 192 YLEHGRPwLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSE----KLSPHVLRHAFATHLLNHGADLRVVQML 267
Cdd:cd01182   81 YLQEFHL-TPDPKQLFPLFPNRRGQPLTRDGVAYILNKYVALASNRCPslpkRITPHTLRHTKAMHLLQAGVDLTVIRDW 159

                        170       180
                 ....*....|....*....|..
gi 654546614 268 LGHSDLSTTQIYTHVATERLRQ 289
Cdd:cd01182  160 LGHESVETTQIYAEADLEMKRE 181
integrase_gron TIGR02249
integron integrase; Members of this family are integrases associated with integrons (and ...
 19-282 1.72e-30

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: 116.72  E-value: 1.72e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   19 KNLAENTLSAYrrdltmlVEWLAR--RELSLASAQS---DDLQALLAE-RVEGGYKATSSARLLSAMrrLFqhLYREKIR 92
Cdd:TIGR02249  12 RHYAKRTEEAY-------LHWIKRfiRFHNKRHPSTmgdTEVEAFLSDlAVDGKVAASTQNQALNAL--LF--LYKEILK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   93 EDDPSAL-LASPKLPQRLPKDLSEAQVERLLQSpavdlpLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRV-I 170
Cdd:TIGR02249  81 TPLSLMErFVRAKRPRKLPVVLTREEVRRLLEH------LEGKYRLIAKLLYGSGMRLMECLRLRIQDIDFDYGEIRIrQ 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  171 GKGNKERLVPLGEEAVYWLETYLEHGRPWLL-----NGASIDV-------------------LFPS-----------QRA 215
Cdd:TIGR02249 155 GKGGKDRTVTLPKELIPPLREQIELARAYHEadlaeGYGGVYLphalarkypnapkewgwqyLFPShrlsrdpesgvIRR 234

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 654546614  216 QQMTRQTFWHRIKHYATLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHV 282
Cdd:TIGR02249 235 HHINETTIQRAVRRAVERAGIE-KPVTCHTLRHSFATHLLESGADIRTVQELLGHSDVKTTQIYTHV 300
xerS PRK05084
site-specific tyrosine recombinase XerS; Reviewed
 2-282 1.23e-28

site-specific tyrosine recombinase XerS; Reviewed


Pssm-ID: 235339 [Multi-domain]  Cd Length: 357  Bit Score: 112.32  E-value: 1.23e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   2 EKDLALVEQFLDAL-W---------LEKNLAENTLSAYRRDLTMLVEWLarRELSLASAQS------DDLQAL------- 58
Cdd:PRK05084   4 EKYLKLIDKLKAKMpWyvqeyyqskLATPYSPTTLYEYLTEYRRFFNWL--ISEGLSDASKikdiplSTLENLtkkdvea 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  59 ----LAER-------VEGGYKATSSARLLSAMRRLFQHLYRE------------------KIREDDPSALLASPKLPQRL 109
Cdd:PRK05084  82 filyLRERpllnghsTKKGNSQTTINRTLSALKSLFKYLTEEaenedgepyfyrnvmkkiELKKKKETLAARAHNLKQKL 161

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 110 pkdLSEAQVERLLQSPAVDLPLEL-------------RDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKE 176
Cdd:PRK05084 162 ---FLGDEDYEFLDFIDNEYEQKLsnralssfkknkeRDLAIIALILGSGLRVSELVNLDLSDLNLKQMTIDVTRKGGKR 238

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 177 RLVPLGEEAVYWLETYLEHGRPWLLNGASIDVLF---PSQRAQQMTRQTFWHRIKHYATLAGIdseKLSPHVLRHAFATH 253
Cdd:PRK05084 239 DSVNIAPFALPYLEEYLKIRASRYKAEKQEKALFltkYRGKPNRISARAIEKMVAKYSEAFGV---RLTPHKLRHTLATR 315

                        330       340
                 ....*....|....*....|....*....
gi 654546614 254 LLNHGADLRVVQMLLGHSDLSTTQIYTHV 282
Cdd:PRK05084 316 LYDATKDQVLVADQLGHTSTETTDLYTHI 344
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 113-281 1.76e-28

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: 107.46  E-value: 1.76e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQSPAVDLPLE-LRDKAMLELLYATGLRVSELVGLTMSDISLRQG--VVRVIGKG--NKERLVPLGEEAVY 187
Cdd:cd01194    1 LTLEQARQLLASLPIDDSIIgLRDRAIISLMVTEGLRTVEIVRADVGDLRQEGEgtILYVQGKGktSKDDFVYLRPDVLK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 188 WLETYLEhGRPWLlngASIDVLFPS----QRAQQMTRQTFWHRIKHYATLAGIDSEKLSPHVLRHAFATHLLNHGADLRV 263
Cdd:cd01194   81 ALQAYLK-ARGKL---DFEEPLFTSlsnnSKGQRLTTRSIRRIIKKYLRKAGLDDDRLTAHSLRHTAGTLALKAGKSLRE 156

                        170
                 ....*....|....*...
gi 654546614 264 VQMLLGHSDLSTTQIYTH 281
Cdd:cd01194  157 VQQLLRHSDPNTTMIYAH 174
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
 113-281 3.62e-26

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: 101.25  E-value: 3.62e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQspAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVR-VIGKGNKERLVPLGEEAVYWLET 191
Cdd:cd00796    5 LTEDEEARLLA--ALEESTNPHLRLIVLLALYTGARRGEILSLRWDDIDLEVGLIVlPETKNGKPRTVPLSDEAIAILKE 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 192 YLEHGRPWLLNGASIDvlfpsQRAQQMTRQTFWHRIKHyatLAGIdsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:cd00796   83 LKRKRGKDGFFVDGRF-----FGIPIASLRRAFKKARK---RAGL--EDLRFHDLRHTFASRLVQAGVPIKTVAKILGHS 152

                        170
                 ....*....|
gi 654546614 272 DLSTTQIYTH 281
Cdd:cd00796  153 SIKMTMRYAH 162
INT_FimBE_like cd01197
FimB and FimE and related proteins, integrase/recombinases; This CD includes proteins similar ...
 111-290 5.07e-25

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: 98.73  E-value: 5.07e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 111 KDLSEAQVERLLQSPAVDLPLElRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIG-KGNKERLVPLGEEAVYWL 189
Cdd:cd01197    5 KYLTGKEVQALLQAACRGRTPA-RDYCLLLLAFRHGFRVSELCDLHLSDVDLESRRLHIRRlKNGFSTTHPLRFDEREAL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 190 ETYLEHGRPWllNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSEKlSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:cd01197   84 EAWLKERANW--KGADTDWIFLSRRGGPLSRQQAYRIIRDLGKEAGTVTQT-HPHMLRHACGYALADRGADTRLIQDYLG 160

                        170       180
                 ....*....|....*....|.
gi 654546614 270 HSDLSTTQIYTHVATERLRQL 290
Cdd:cd01197  161 HRNIRHTVIYTASNAARFANL 181
INTN1_C_like cd01185
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ...
 145-287 4.57e-24

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: 95.41  E-value: 4.57e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 145 TGLRVSELVGLTMSDISLRQGVVRVIG---KGNKERLVPLGEEAVYWLETYLEHGRPwllngasiDVLFPsqraqQMTRQ 221
Cdd:cd01185   30 TGLRFSDLKNLTWKNIVEASGRTWIRYrrkKTGKPVTVPLLPVAREILEKYKDDRSE--------GKLFP-----VLSNQ 96

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 654546614 222 TFWHRIKHYATLAGIDsEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVATERL 287
Cdd:cd01185   97 KINRYLKEIAKIAGID-KHLTFHVARHTFATLLLLKGVDIETISKLLGHSSIKTTQIYAKIVDSKK 161
INT_ICEBs1_C_like cd01189
C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; ...
 115-281 5.61e-23

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: 92.24  E-value: 5.61e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 115 EAQVERLLQspAVDLPlELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVigkgnKERLVPLGEEAVYWLETYle 194
Cdd:cd01189    1 PEELKKLLE--ALKKR-GDRYYLLFLLALLTGLRRGELLALTWSDIDFENGTIRI-----NRTLVRKKKGGYVIKPPK-- 70

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 195 hgrpwllNGASIDVLFPSQRAQQMTRQtfWHRIKHYATLAGIDseKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLS 274
Cdd:cd01189   71 -------TKSSIRTIPLPDELIELLKE--LKAFKKLLKKAGLP--RITPHDLRHTFASLLLEAGVPLKVIAERLGHSDIS 139


                 ....*...
gi 654546614 275 TT-QIYTH 281
Cdd:cd01189  140 TTlDVYAH 147
FimB COG0582
Integrase/recombinase, includes phage integrase [Replication, recombination and repair, ...
 6-281 9.81e-23

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


Pssm-ID: 440347 [Multi-domain]  Cd Length: 391  Bit Score: 96.65  E-value: 9.81e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   6 ALVEQFLDalWLEKNLAENTLSAYRRDLTMLVE-WLARRelSLASAQSDDLQALLaERVEGGYKATSSARLLSAMRRLFQ 84
Cdd:COG0582  101 EVAEEWLE--EKKPEWKEKTAAQVRRTLEKHIFpVLGDR--PIAEITPPDLLAVL-RPIEARGAPETARRVRQRLRQVFR 175

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  85 HLYREKIREDDPSALLASPKLPQRLPKD--LSEAQVERLLQSpAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISL 162
Cdd:COG0582  176 YAVARGLIERNPAADLKGALPKPKVKHHpaLTPEELPELLRA-LDAYRGSPVTRLALRLLLLTGVRPGELRGARWSEIDL 254

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 163 RQGVVRVIG---KGNKERLVPLGEEAVYWLETYLEhgrpwlLNGASiDVLFPSQRAQQ--MTRQTFwhrikhYATLAGID 237
Cdd:COG0582  255 EAALWTIPAermKTRRPHIVPLSRQALEILKELKP------LTGDS-EYVFPSRRGPKkpMSENTL------NKALRRMG 321

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*
gi 654546614 238 SEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQ-IYTH 281
Cdd:COG0582  322 YGRFTPHGFRHTASTLLNEAGFPPDVIERQLAHKDGNKVRaAYNR 366
Phage_int_SAM_1 pfam02899
Phage integrase, N-terminal SAM-like domain;
8-90 3.65e-22

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 427047 [Multi-domain]  Cd Length: 83  Bit Score: 88.09  E-value: 3.65e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614    8 VEQFLDALWLEKNLAENTLSAYRRDLTMLVEWLARRELSLASAQSDDLQALLAERVEGGYKATSSARLLSAMRRLFQHLY 87
Cdd:pfam02899   1 IDQFLEYLSLERGLSPHTLRAYRRDLLAFLKFLSEGGSSLEQITTSDVRAFLAELRAQGLSASSLARRLSALRSFYQFLI 80


                  ...
gi 654546614   88 REK 90
Cdd:pfam02899  81 REG 83
INT_C_like_5 cd01195
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 114-281 2.92e-20

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: 85.60  E-value: 2.92e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 114 SEAQVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKER-LVPLGEEAVYWLETY 192
Cdd:cd01195    1 SREEARQRLDAADRHTAKGKRDEALVRLLLDNALRRSEAVALDVEDLEKEHRRLRILGKGKKQReVVTLPPTTREALAAW 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 193 LEHGRPwlLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsEKLSPHVLRHAFATHLLNHGADL-RVVQMLLGHS 271
Cdd:cd01195   81 LAARGE--AEGPLFVSLDRASRGRRLSPQAVYRIVRRLAERIGLG-KRLSPHGLRHSAITLALDAGAGLiRKVQDFSRHA 157

                        170
                 ....*....|
gi 654546614 272 DLSTTQIYTH 281
Cdd:cd01195  158 DLRTLQVYDD 167
PRK15417 PRK15417
integron integrase;
100-283 4.18e-20

integron integrase;


Pssm-ID: 185315 [Multi-domain]  Cd Length: 337  Bit Score: 88.56  E-value: 4.18e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 100 LASPKLPQRLPKDLSEAQVERLLQSpavdlpLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVI-GKGNKERL 178
Cdd:PRK15417 104 IGRPRPSRRLPVVLTPDEVVRILGF------LEGEHRLFAQLLYGTGMRISEGLQLRVKDLDFDHGTIIVReGKGSKDRA 177

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 179 VPLGEE------------AVYWLETYLE-------------------HGRPWLLNGA----SIDVLFPSQRAQQMTRQTF 223
Cdd:PRK15417 178 LMLPESlapslreqlsraRAWWLKDQAEgrsgvalpdalerkypragHSWPWFWVFAqhthSTDPRSGVVRRHHMYDQTF 257

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 224 WHRIKHYATLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTHVA 283
Cdd:PRK15417 258 QRAFKRAVEQAGI-TKPATPHTLRHSFATALLRSGYDIRTVQDLLGHSDVSTTMIYTHVL 316
INT_RitB_C_like cd00797
C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; ...
 113-289 1.32e-19

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: 84.67  E-value: 1.32e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLqspAVDLPLELRDK-------AMLELLYATGLRVSELVGLTMSDISLRQGVVRV-IGKGNKERLVPLGEE 184
Cdd:cd00797    1 YTDAEIRRLL---AAADQLPPESPlrpltyaTLFGLLYATGLRVGEALRLRLEDVDLDSGILTIrQTKFGKSRLVPLHPS 77

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 185 AVYWLETYLeHGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGI----DSEKLSPHVLRHAFATHLLNH--- 257
Cdd:cd00797   78 TVGALRDYL-ARRDRLLPSPSSSYFFVSQQGGRLTGGGVYRVFRRLLRRIGLrgagDGRGPRLHDLRHTFAVNRLTRwyr 156

                        170       180       190
                 ....*....|....*....|....*....|....*..
gi 654546614 258 -GAD----LRVVQMLLGHSDLSTTQIYTHVATERLRQ 289
Cdd:cd00797  157 eGADverkLPVLSTYLGHVNVTDTYWYLTATPELMEL 193
int PHA02601
integrase; Provisional
 113-289 8.05e-15

integrase; Provisional


Pssm-ID: 222904 [Multi-domain]  Cd Length: 333  Bit Score: 73.61  E-value: 8.05e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQSPAVDLPLELRDKAMLELlyATGLRVSELVGLTMSDISLRQgVVRVIGKGNKERLVPLGEeavyWLETY 192
Cdd:PHA02601 173 LTKEEIERLLDACDGSRSPDLGLIAKICL--ATGARWSEAETLKRSQISPYK-ITFVKTKGKKNRTVPISE----ELYKM 245

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 193 LEHGRPWLLNGAsidvlfpsqraqqmtrqtfWHRIKHYATLAGID-SEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:PHA02601 246 LPKRRGRLFKDA-------------------YESFERAVKRAGIDlPEGQATHVLRHTFASHFMMNGGNILVLQRILGHA 306

                        170
                 ....*....|....*...
gi 654546614 272 DLSTTQIYTHVATERLRQ 289
Cdd:PHA02601 307 TIEMTMAYAHFAPDHLED 324
INT_tnpA_C_Tn554 cd01186
Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family ...
 113-290 1.24e-14

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: 70.52  E-value: 1.24e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQSPAvdlplELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIGKGN----------KERLVPLG 182
Cdd:cd01186    2 LTPREVQELINACN-----NLRDKFLLALLYETGLRIGEALGLRIEDIDMADNQIELVPREDntnearaksmRERRIPVS 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 183 EEAVYWLETYL--EHGRPWLLNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDsekLSPHVLRHAFATHLLNHGAD 260
Cdd:cd01186   77 QDLIDLYADYLtyIYCEEAEFSITVFVNVKGGNQGKAMNYSDVYDLVRRLKKRTGID---FTPHMFRHTHATALIRAGWS 153

                        170       180       190
                 ....*....|....*....|....*....|.
gi 654546614 261 LRVVQMLLGHSDLSTT-QIYTHVATERLRQL 290
Cdd:cd01186  154 IEVVARRLGHAHVQTTlNTYGHLSEEDIRRE 184
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
 118-294 2.45e-14

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: 70.02  E-value: 2.45e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 118 VERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDIS--LRQGVVRVIG--KGN---KERLVPLGEEAVY--- 187
Cdd:cd00799    1 LKAMLATLDDTTLRGLRDRALLLLGFAGALRRSELVALRVEDLTrfVDGGLLIRLRrsKTDqdgEGEIKALPYGPETcpv 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 188 -----WLETYLEHGRPwllngasidvLFPSQRAQQMTRQTFWHR------IKHYATLAGIDSEKLSPHVLRHAFATHLLN 256
Cdd:cd00799   81 ralraWLEAAGIPSGP----------LFRRIRRGGSVGTTRLSDrsvariVKRRAALAGLDPGDFSGHSLRRGFATEAAR 150

                        170       180       190
                 ....*....|....*....|....*....|....*...
gi 654546614 257 HGADLRVVQMLLGHSDLSTTQIYThvateRLRQLHQQH 294
Cdd:cd00799  151 AGASLPEIMAQGGHKSVATVMRYI-----READRFKDN 183
PRK09870 PRK09870
tyrosine recombinase; Provisional
 113-280 2.71e-14

tyrosine recombinase; Provisional


Pssm-ID: 182125  Cd Length: 200  Bit Score: 69.97  E-value: 2.71e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQSPAVDlPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRV--IGKGNKERLvPLGEEAVYWLE 190
Cdd:PRK09870  13 LTHSEIESLLKAANTG-PHAARNYCLTLLCFIHGFRASEICRLRISDIDLKAKCIYIhrLKKGFSTTH-PLLNKEIQALK 90

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 191 TYLEHGRPWllNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIDSEkLSPHVLRHAFATHLLNHGADLRVVQMLLGH 270
Cdd:PRK09870  91 NWLSIRTSY--PHAESEWVFLSRKGNPLSRQQFYHIISTSGGNAGLSLE-IHPHMLRHSCGFALANMGIDTRLIQDYLGH 167

                        170
                 ....*....|
gi 654546614 271 SDLSTTQIYT 280
Cdd:PRK09870 168 RNIRHTVWYT 177
INT_P4_C cd00801
Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in ...
 136-272 5.04e-13

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: 66.14  E-value: 5.04e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 136 KAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIG---KGNKERLVPLGEEAVYWLETYLEHGRPWLLngasidvLFPS 212
Cdd:cd00801   22 KLALRLLLLTGQRIGELARARWSEIDLEEKTWTIPAertKNKRPHRVPLSDQALEILEELKEFTGDSGY-------LFPS 94

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546614 213 QR--AQQMTRQTFWHRIKHYATlagiDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSD 272
Cdd:cd00801   95 RRkkKKPISENTINKALKRLGY----KGKEFTPHDLRRTFSTLLNELGIDPEVIERLLNHVL 152
INT_C_like_6 cd01196
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 117-279 6.89e-12

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: 62.88  E-value: 6.89e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 117 QVERLLQSPAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISL--RQGVVRVIGKGNKERLVPLGEEAVYWLETYLE 194
Cdd:cd01196    4 EARRLLESIDSTHPVGLRDRALIALMVYSFARIGAVLAMRVEDVYDqgRRLWVRLAEKGGKQHEMPCHHDLEEYLRAYLE 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 195 HGRPWLLNGASidvLFPSQRAQQ-------MTRQTFWHRIKHYATLAGIDSeKLSPHVLRHAFATHLLNHGADLRVVQML 267
Cdd:cd01196   84 AAEIEEDPKGP---LFRTTRGGTrklthnpLTQANAYRMVRRRAIAADIPT-AIGNHSFRATGITAYLKNGGTLEDAQNM 159

                        170
                 ....*....|..
gi 654546614 268 LGHSDLSTTQIY 279
Cdd:cd01196  160 ANHASTRTTQLY 171
PRK09871 PRK09871
tyrosine recombinase; Provisional
 113-296 1.31e-11

tyrosine recombinase; Provisional


Pssm-ID: 182126  Cd Length: 198  Bit Score: 62.69  E-value: 1.31e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQSpAVDLPLELRDKAMLELLYATGLRVSELVGLTMSDISLRQGVVRVIGKGNKERLV-PLGEEAVYWLET 191
Cdd:PRK09871   7 LTGKEVQAMMQA-VCYGATGARDYCLILLAYRHGMRISELLDLHYQDLDLNEGRINIRRLKNGFSTVhPLRFDEREAVER 85

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 192 YLEHGRPWLlNGASIDVLFPSQRAQQMTRQTFWHRIKHYATLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHS 271
Cdd:PRK09871  86 WTQERANWK-GADRTDAIFISRRGSRLSRQQAYRIIRDAGIEAGT-VTQTHPHMLRHACGYELAERGADTRLIQDYLGHR 163

                        170       180
                 ....*....|....*....|....*
gi 654546614 272 DLSTTQIYTHVATERLRQLHQQHHP 296
Cdd:PRK09871 164 NIRHTVRYTASNAARFAGLWERNNL 188
INT_C_like_3 cd01192
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 134-279 1.53e-11

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: 61.92  E-value: 1.53e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 134 RDKAMLELLYATGLRVSELVGLTMSDISLRQgVVRVI-GKGNKERLVPLGEEAVYWLETYLehgrpWLLNGASIDVLFPS 212
Cdd:cd01192   25 RNYLLFIVGINTGLRISDLLSLKVEDVTNKD-KLSIKeQKTGKQKTFPLNPTLVKALKEYI-----DDLDLKRNDYLFKS 98

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 213 QRAQQ---MTRQTFWHRIKHYATLAGIdSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIY 279
Cdd:cd01192   99 LKQGPekpISRKQAYKILKKAADDLGL-NYNIGTHSLRKTFGYHVYKQGKDIELLMKLLNHSSPSITLRY 167
INT_C_like_2 cd01191
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 142-279 5.08e-10

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: 57.43  E-value: 5.08e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 142 LYATGLRVSELVGLTMSDISLrqGVVRVIGKGNKER--LVP--LGEEAVYWLETylehgrpwllNGASIDVLFPSQRAQQ 217
Cdd:cd01191   29 LAATGARVSELIKIKVEHVEL--GYFDIYSKGGKLRrlYIPkkLRNEALEWLKS----------TNRKSGYIFLNRFGER 96

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546614 218 MTRQTFWHRIKHYATLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIY 279
Cdd:cd01191   97 ITTRGIAQQLKNYARKYGLNPKVVYPHSFRHRFAKNFLEKYNDIALLADLMGHESIETTRIY 158
INT_C_like_1 cd01184
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 113-281 4.20e-09

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: 55.01  E-value: 4.20e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 113 LSEAQVERLLQSPAVDLPLELRDK---AMLELLYaTGLRVSELVGLTMSDISLRQGV----VRVIGKGNK------ERLV 179
Cdd:cd01184    1 FTPEELAKIFSSPLYTGCKKKDPAlywLPLIGLY-TGARLNEICQLRVDDIKEEDGIwcidINDDAEGRRlktkasRRLV 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 180 PLGEEAV-YWLETYLE----HGRPWLLngasidvlFPSQRAQQMTRQTFWHRIKHYATLAGI-DSEKLSPHVLRHAFATH 253
Cdd:cd01184   80 PIHPRLIeLGFLDYVEalraDGKLFLF--------PEKRDKDGKYSKAASKWFNRLLRKLGIkDDERKSFHSFRHTFITA 151

                        170       180
                 ....*....|....*....|....*....
gi 654546614 254 LLNHGADLRVVQMLLGHSDLS-TTQIYTH 281
Cdd:cd01184  152 LKRAGVPEELIAQIVGHSRGGvTHDTYGK 180
xerD PRK02436
site-specific tyrosine recombinase XerD;
8-269 2.35e-07

site-specific tyrosine recombinase XerD;


Pssm-ID: 235038 [Multi-domain]  Cd Length: 245  Bit Score: 50.76  E-value: 2.35e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614   8 VEQFLDalwlEKNLAENTLSAYRRDLTMLVEWLARR----ELSLASAQSDDLqallaerveggyKATSSARLLSAMRRLF 83
Cdd:PRK02436   5 IEPFLA----SKQLSENSQKSYRYDLQQFLQLVGERvsqeKLKLYQQSLANL------------KPSAQKRKISAVNQFL 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614  84 QHLYREKIRE------DDPSALLASPKLPQRL-------PKDLSEAQVERLLqspavdlplelrdkaMLELlyatGLRVS 150
Cdd:PRK02436  69 YFLYQKGELDsffklkETAKLPESKKEKLEILdlssfyqETPFPEGQLIALL---------------ILEL----GLTPS 129

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 151 ELVGLTMSDISLRQGVVRvIGKGNKERLVPLGEEavywLETYLEHgrpwLLNGasiDVLFpSQRAQQMTRQTFWHRIKHY 230
Cdd:PRK02436 130 EIAGLKVADIDLDFQVLT-IEKAGGKRVLTLPEA----LLPFLEA----ILNQ---TYLF-EHKGKPYSRQWFFNQLKSF 196

                        250       260       270
                 ....*....|....*....|....*....|....*....
gi 654546614 231 atLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:PRK02436 197 --VKSIGYPGLSAQKLREQFILKQKEAGKSIYELARLLG 233
INT_Lambda_C cd00800
C-terminal catalytic domain of Lambda integrase, a tyrosine-based site-specific recombinase; ...
 137-283 5.48e-05

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: 42.72  E-value: 5.48e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 137 AMlELLYATGLRVSELVGLTMSDISlRQGVVRVIGKGNKERLVPLG---EEAVYWLETYLEHGRPWLLNgasidvlfpSQ 213
Cdd:cd00800   17 AM-ELALLTGQRQGDLLRLKWSDIT-DGGLLVEQSKTGKKLLIPWTpslRALVDRIRALPRKRSEYLIN---------SR 85

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 654546614 214 RAQQMTRQTFWHRIKHYATLAGIDSEKLSP--HVLRHAFAThLLNHGADLRVVQMLLGHSDLSTTQIYTHVA 283
Cdd:cd00800   86 KGGPLSYDTLKSAWRRARKAAGLKGETEGFtfHDLRAKAAT-DYAEQGGSTDAQALLGHKSDAMTERYTRKR 156
INT_tnpB_C_Tn554 cd01187
Putative Transposase B from transposon Tn554, C-terminal catalytic domain; This family ...
 241-281 1.18e-04

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: 41.26  E-value: 1.18e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 654546614 241 LSPHVLRHAFATHLLNHGADLRVVQMLLGHSDLSTTQIYTH 281
Cdd:cd01187  102 FHTHRFRHTVATRLANSGMGILVLQQLLGHSSPEMTLRYAL 142
INT_StrepXerD_C_like cd01190
Putative XerD in Streptococcus pneumonia and similar proteins, C-terminal catalytic domain; ...
 141-269 1.67e-03

Putative XerD in Streptococcus pneumonia and similar proteins, C-terminal catalytic domain; This family includes a putative XerD recombinase in Streptococcus pneumonia and similar tyrosine recombinases. However, the members of this family contain unusual active site motifs from the XerD from Escherichia coli. E. coli XerD and homologous enzymes show four conserved amino acids R-H-R-H that are spaced along the C-terminal domain. The putative S. pneumoniae XerD contains three unique replacements at the conserved positions resulting in L-Q-R-L. Severe growth defects in a loss-of-function xerD mutant demonstrate an important in vivo function of the S. pneumoniae XerD protein. 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: 271190  Cd Length: 150  Bit Score: 38.10  E-value: 1.67e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614 141 LLYATGLRVSELVGLTMSDISLRQGVVRvIGKGNKERLVPLGEEAVYWLETYLEHGRPWLLNgasidvlfpsqRAQQMTR 220
Cdd:cd01190   25 LILELGLTPSEIANLKWADFDLDFQVLT-IEKGGIKRVLPLPKKLLPFLEQHIKADYLEFDH-----------EGKAYSR 92

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*....
gi 654546614 221 QTFWHRIKHYatLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLG 269
Cdd:cd01190   93 QWLFNQLKKF--LNSIGLSGLTAQKLREQYILKQKEAGKSIYELAKLLG 139
Phage_int_SAM_4 pfam13495
Phage integrase, N-terminal SAM-like domain;
7-86 5.75e-03

Phage integrase, N-terminal SAM-like domain;


Pssm-ID: 463898 [Multi-domain]  Cd Length: 83  Bit Score: 35.28  E-value: 5.75e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 654546614    7 LVEQFLDALWLeKNLAENTLSAYRRDLTMLVEWLARRELSLASaqSDDLQALLAE-RVEGGYKATSSARLLSAMRRLFQH 85
Cdd:pfam13495   1 LLERFREALRL-RGYAERTIKAYLRWIRRFLRFHDKKHPEELT--EEDIEAYLSHlANERNVSASTQNQALNALSFFYRW 77


                  .
gi 654546614   86 L 86
Cdd:pfam13495  78 V 78
 
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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