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Conserved domains on  [gi|2204007102|ref|WP_240452981|]
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MULTISPECIES: site-specific integrase [Pseudoalteromonas]

Protein Classification

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

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

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

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
3-304 1.85e-44

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


:

Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 153.61  E-value: 1.85e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102   3 SENTWWTYGNHLAQFLTFCEQ-NSLDWRDISESsedemLVSAYRDLCVGEfGMSVNSTNQHLRTIVRFYSYGVGK-WFKS 80
Cdd:COG4974    21 SPNTIKAYRRDLRRFLRFLEElGKIPLAEITPE-----DIRAYLNYLRER-GLSPSTINRYLAALRSFFRYAVREgLLED 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102  81 LPysLESVSVNKGQQflahternggkkyssdlmmktfeKKAQFLSVIEVRDLLSAIENSTL-----KLMVRLCLQTGIRR 155
Cdd:COG4974    95 NP--AAKVKLPKKPR-----------------------KLPRVLTEEEIEALLEALDTETPeglrdRALLLLLYATGLRV 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 156 KELLLFPLNIIRKPTGnrayyEVNISRTKGEKERKIHIPTRLMEDLWRYVNEARfqkqqesEVESNCLFLTPDGQGWASQ 235
Cdd:COG4974   150 SELLGLKWSDIDLDRG-----TIRVRRGKGGKERTVPLSPEALEALREYLEERR-------PRDSDYLFPTRRGRPLSRR 217

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2204007102 236 G--SAFGKALKSLKLPFHVSPHMLRHTYATHML-KGMlehksskfePLMYLQARLGHSSITTTMKYLHLVND 304
Cdd:COG4974   218 AirKILKRLAKRAGIPKRVTPHSLRHTFATHLLeAGV---------DLRTVQELLGHSSISTTQIYTHVSDE 280
 
Name Accession Description Interval E-value
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
3-304 1.85e-44

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 153.61  E-value: 1.85e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102   3 SENTWWTYGNHLAQFLTFCEQ-NSLDWRDISESsedemLVSAYRDLCVGEfGMSVNSTNQHLRTIVRFYSYGVGK-WFKS 80
Cdd:COG4974    21 SPNTIKAYRRDLRRFLRFLEElGKIPLAEITPE-----DIRAYLNYLRER-GLSPSTINRYLAALRSFFRYAVREgLLED 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102  81 LPysLESVSVNKGQQflahternggkkyssdlmmktfeKKAQFLSVIEVRDLLSAIENSTL-----KLMVRLCLQTGIRR 155
Cdd:COG4974    95 NP--AAKVKLPKKPR-----------------------KLPRVLTEEEIEALLEALDTETPeglrdRALLLLLYATGLRV 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 156 KELLLFPLNIIRKPTGnrayyEVNISRTKGEKERKIHIPTRLMEDLWRYVNEARfqkqqesEVESNCLFLTPDGQGWASQ 235
Cdd:COG4974   150 SELLGLKWSDIDLDRG-----TIRVRRGKGGKERTVPLSPEALEALREYLEERR-------PRDSDYLFPTRRGRPLSRR 217

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2204007102 236 G--SAFGKALKSLKLPFHVSPHMLRHTYATHML-KGMlehksskfePLMYLQARLGHSSITTTMKYLHLVND 304
Cdd:COG4974   218 AirKILKRLAKRAGIPKRVTPHSLRHTFATHLLeAGV---------DLRTVQELLGHSSISTTQIYTHVSDE 280
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 128-299 4.04e-26

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: 101.79  E-value: 4.04e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 128 EVRDLLSAIENSTL-----KLMVRLCLQTGIRRKELLLFPLNIIRKPTGnraYYEVNISRTKGEKERKIHIPTRLMEDLW 202
Cdd:cd00397     1 ELEKLLDAIDEDKKidlrdRAILLLLLETGLRISELLALKVKDIDLDNG---TIRVRGKKTKGGKERTVPLPKELAEELK 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 203 RYVNEARFQKQQESEVE-SNCLFLTPDGQGWASQgsAFGKALKSLKLP--FHVSPHMLRHTYATHMLKGMLehksskfeP 279
Cdd:cd00397    78 EYLKERRDKRGPLLKSLyLNKLFGTKLGERLSRR--TLRRIFKKAGIEagRKITPHSLRHTFATNLLENGV--------D 147

                         170       180
                  ....*....|....*....|
gi 2204007102 280 LMYLQARLGHSSITTTMKYL 299
Cdd:cd00397   148 IKVVQKLLGHSSISTTQRYL 167
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 123-301 2.47e-20

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: 86.22  E-value: 2.47e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 123 FLSVIEVRDLLSAIENSTL----KLMVRLCLQTGIRRKELLLFPLNIIRkpTGNRayyEVNISRTKGEKERKIHIPTRLM 198
Cdd:pfam00589   1 RLTEDEVERLLDAAETGPLsirdKALLELLYATGLRISELCSLRWSDID--FENG---VIRVHRGKGNKERTVPLSDAAL 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 199 EDLWRYVnearfQKQQESEVESNCLFLTPDGQGWASQGS--AFGKALKSLKLPFHVSPHMLRHTYATHML-KGMlehkss 275
Cdd:pfam00589  76 ELLKEWL-----SKRLLEAPKSDYLFASKRGKPLSRQTVrkIFKRAGKEAGLELPLHPHMLRHSFATHLLeAGV------ 144

                         170       180
                  ....*....|....*....|....*.
gi 2204007102 276 kfePLMYLQARLGHSSITTTMKYLHL 301
Cdd:pfam00589 145 ---DLRVVQKLLGHSSISTTQIYTHV 167
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
 3-304 4.31e-20

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: 88.41  E-value: 4.31e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102   3 SENTWWTYGNHLAQFLTFCEQNSLDWRDISESsedeMLVSAYRDLCvgEFGMSVNSTNQHLRTIVRFYsygvgkwfkslp 82
Cdd:TIGR02225  14 SQNTLEAYRRDLEKFLEFLEERGIDLEEVDRG----DIVDFLAELK--EAGLSARSIARALSALRSFY------------ 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102  83 yslesvsvnkgqQFLahtERNGGKKYSSDLMMKTfEKKAQF----LSVIEVRDLLSAIENST-----LKLMVRLCLQTGI 153
Cdd:TIGR02225  76 ------------RFL---LREGIREDDPSALIEP-PKVARKlpkvLTVEEVEALLAAPDVDTplglrDRAMLELLYATGL 139

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 154 RRKELLLFPLNIIRKptgNRAYYEVnisRTKGEKERKIHIPTRLMEDLWRYVNEARFQKQQESEVESNCLFLTPDGQGWA 233
Cdd:TIGR02225 140 RVSELVGLRLEDVNL---DEGFVRV---RGKGNKERLVPLGEEAIEALERYLKEARPLLLKKKVKESDALFLNRRGGPLS 213

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2204007102 234 SQGsaFGKALK------SLKLPfhVSPHMLRHTYATHMLKGMLEHKSskfeplmyLQARLGHSSITTTMKYLHLVND 304
Cdd:TIGR02225 214 RQG--VWKILKeyakraGIEKP--ISPHTLRHSFATHLLENGADLRV--------VQELLGHADISTTQIYTHVARE 278
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
 109-319 4.86e-18

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 83.64  E-value: 4.86e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 109 SSDLMMKTFEKK--AQFLSVIEVRDLLSAIENSTL-----KLMVRLCLQTGIRRKE---LLLFPLNIIRKPtgnrayyeV 178
Cdd:PRK01287  120 AEDLELPKEEKRlpRQILSEAETEQVLASPDLTTLqglrdRALLELLWSTGIRRGElarLDLYDVDASRGV--------V 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 179 NISRTKGEKERKIHIPTRLMEDLWRYVNEARFQKQQESEVESncLFLTPDGQGWASQG--SAFGKALKSLKLPFHVSPHM 256
Cdd:PRK01287  192 TVRQGKGNKDRVVPVGERALAWLQRYLQDVRPQLAVRPDSGA--LFVAMDGDGLARNTltNMVGRYIRAAGIEKAGACHL 269

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2204007102 257 LRHTYATHMLKGMLEhksskfepLMYLQARLGHSSITTTMKYLHlvndlvddLSIEYQQQIDA 319
Cdd:PRK01287  270 FRHAMATQMLENGAD--------TRHIQAILGHAKLETTQIYTR--------VSIGHLQAVHA 316
 
Name Accession Description Interval E-value
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
3-304 1.85e-44

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 153.61  E-value: 1.85e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102   3 SENTWWTYGNHLAQFLTFCEQ-NSLDWRDISESsedemLVSAYRDLCVGEfGMSVNSTNQHLRTIVRFYSYGVGK-WFKS 80
Cdd:COG4974    21 SPNTIKAYRRDLRRFLRFLEElGKIPLAEITPE-----DIRAYLNYLRER-GLSPSTINRYLAALRSFFRYAVREgLLED 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102  81 LPysLESVSVNKGQQflahternggkkyssdlmmktfeKKAQFLSVIEVRDLLSAIENSTL-----KLMVRLCLQTGIRR 155
Cdd:COG4974    95 NP--AAKVKLPKKPR-----------------------KLPRVLTEEEIEALLEALDTETPeglrdRALLLLLYATGLRV 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 156 KELLLFPLNIIRKPTGnrayyEVNISRTKGEKERKIHIPTRLMEDLWRYVNEARfqkqqesEVESNCLFLTPDGQGWASQ 235
Cdd:COG4974   150 SELLGLKWSDIDLDRG-----TIRVRRGKGGKERTVPLSPEALEALREYLEERR-------PRDSDYLFPTRRGRPLSRR 217

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2204007102 236 G--SAFGKALKSLKLPFHVSPHMLRHTYATHML-KGMlehksskfePLMYLQARLGHSSITTTMKYLHLVND 304
Cdd:COG4974   218 AirKILKRLAKRAGIPKRVTPHSLRHTFATHLLeAGV---------DLRTVQELLGHSSISTTQIYTHVSDE 280
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
3-301 9.18e-33

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


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 122.76  E-value: 9.18e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102   3 SENTWWTYGNHLAQFLTFCEQNSLDWRDISESSEDEMLVSAYRDlcvgefGMSVNSTNQHLRTIVRFYSYGVGK-WFKSL 81
Cdd:COG4973    21 SPKTLEAYRRDLRRLIPLLGDADLPLEELTPADVRRFLARLHRR------GLSPRTLNRRLSALRSFFNWAVREgLLEAN 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102  82 PysLESVSVNKGQQFLAHTernggkkyssdlmmktfekkaqfLSVIEVRDLLSAIENSTL----KLMVRLCLQTGIRRKE 157
Cdd:COG4973    95 P--AAGVKAPKAPRKLPRA-----------------------LTVDELAQLLDALADDPLavrdRAIVELLYSTGLRLGE 149

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 158 LLLFPLNIIRKPTGnrayyEVNIsRTKGEKERKIHIPTRLMEDLWRYVNEARFQKQQESEVesncLFLTPDGQgWASQ-- 235
Cdd:COG4973   150 LVGLDWEDVDLDAG-----EVRV-RGKTGKSRTVPLGPKALAALREWLAVRPELAAPDEGA----LFPSRRGT-RLSPrn 218

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2204007102 236 -GSAFGKALKSLKLPFHVSPHMLRHTYATHMLkgmlehKSSkfEPLMYLQARLGHSSITTTMKYLHL 301
Cdd:COG4973   219 vQKRLRRLAKKAGLPKHVHPHDLRHSFATHLL------ESG--GDLRAVQELLGHASISTTQIYTHL 277
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 128-299 4.04e-26

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: 101.79  E-value: 4.04e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 128 EVRDLLSAIENSTL-----KLMVRLCLQTGIRRKELLLFPLNIIRKPTGnraYYEVNISRTKGEKERKIHIPTRLMEDLW 202
Cdd:cd00397     1 ELEKLLDAIDEDKKidlrdRAILLLLLETGLRISELLALKVKDIDLDNG---TIRVRGKKTKGGKERTVPLPKELAEELK 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 203 RYVNEARFQKQQESEVE-SNCLFLTPDGQGWASQgsAFGKALKSLKLP--FHVSPHMLRHTYATHMLKGMLehksskfeP 279
Cdd:cd00397    78 EYLKERRDKRGPLLKSLyLNKLFGTKLGERLSRR--TLRRIFKKAGIEagRKITPHSLRHTFATNLLENGV--------D 147

                         170       180
                  ....*....|....*....|
gi 2204007102 280 LMYLQARLGHSSITTTMKYL 299
Cdd:cd00397   148 IKVVQKLLGHSSISTTQRYL 167
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
 121-300 3.40e-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: 93.55  E-value: 3.40e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 121 AQFLSVIEVRDLLSAIENST---LKLMVRLCLQTGIRRKELLLFPLNIIRKPTGNrayyeVNISRTKGEKERKIHIPTRL 197
Cdd:cd00796     2 DRFLTEDEEARLLAALEESTnphLRLIVLLALYTGARRGEILSLRWDDIDLEVGL-----IVLPETKNGKPRTVPLSDEA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 198 MedlwryvneARFQKQQEseVESNCLFLTPDGQGWASQGS---AFGKALKSLKLPFhVSPHMLRHTYATHMLKGMLehks 274
Cdd:cd00796    77 I---------AILKELKR--KRGKDGFFVDGRFFGIPIASlrrAFKKARKRAGLED-LRFHDLRHTFASRLVQAGV---- 140

                         170       180
                  ....*....|....*....|....*.
gi 2204007102 275 skfePLMYLQARLGHSSITTTMKYLH 300
Cdd:cd00796   141 ----PIKTVAKILGHSSIKMTMRYAH 162
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 123-301 2.47e-20

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: 86.22  E-value: 2.47e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 123 FLSVIEVRDLLSAIENSTL----KLMVRLCLQTGIRRKELLLFPLNIIRkpTGNRayyEVNISRTKGEKERKIHIPTRLM 198
Cdd:pfam00589   1 RLTEDEVERLLDAAETGPLsirdKALLELLYATGLRISELCSLRWSDID--FENG---VIRVHRGKGNKERTVPLSDAAL 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 199 EDLWRYVnearfQKQQESEVESNCLFLTPDGQGWASQGS--AFGKALKSLKLPFHVSPHMLRHTYATHML-KGMlehkss 275
Cdd:pfam00589  76 ELLKEWL-----SKRLLEAPKSDYLFASKRGKPLSRQTVrkIFKRAGKEAGLELPLHPHMLRHSFATHLLeAGV------ 144

                         170       180
                  ....*....|....*....|....*.
gi 2204007102 276 kfePLMYLQARLGHSSITTTMKYLHL 301
Cdd:pfam00589 145 ---DLRVVQKLLGHSSISTTQIYTHV 167
recomb_XerD TIGR02225
tyrosine recombinase XerD; The phage integrase family describes a number of recombinases with ...
 3-304 4.31e-20

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: 88.41  E-value: 4.31e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102   3 SENTWWTYGNHLAQFLTFCEQNSLDWRDISESsedeMLVSAYRDLCvgEFGMSVNSTNQHLRTIVRFYsygvgkwfkslp 82
Cdd:TIGR02225  14 SQNTLEAYRRDLEKFLEFLEERGIDLEEVDRG----DIVDFLAELK--EAGLSARSIARALSALRSFY------------ 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102  83 yslesvsvnkgqQFLahtERNGGKKYSSDLMMKTfEKKAQF----LSVIEVRDLLSAIENST-----LKLMVRLCLQTGI 153
Cdd:TIGR02225  76 ------------RFL---LREGIREDDPSALIEP-PKVARKlpkvLTVEEVEALLAAPDVDTplglrDRAMLELLYATGL 139

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 154 RRKELLLFPLNIIRKptgNRAYYEVnisRTKGEKERKIHIPTRLMEDLWRYVNEARFQKQQESEVESNCLFLTPDGQGWA 233
Cdd:TIGR02225 140 RVSELVGLRLEDVNL---DEGFVRV---RGKGNKERLVPLGEEAIEALERYLKEARPLLLKKKVKESDALFLNRRGGPLS 213

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2204007102 234 SQGsaFGKALK------SLKLPfhVSPHMLRHTYATHMLKGMLEHKSskfeplmyLQARLGHSSITTTMKYLHLVND 304
Cdd:TIGR02225 214 RQG--VWKILKeyakraGIEKP--ISPHTLRHSFATHLLENGADLRV--------VQELLGHADISTTQIYTHVARE 278
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
 123-301 1.83e-19

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: 83.86  E-value: 1.83e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 123 FLSVIEVRDLLSAIENSTLKLMVRLCLQTGIRRKELL-LFPLNIirkptgNRAYYEVNISRTKGEKERKIHIPTRLMEDL 201
Cdd:cd01193     5 VLSPDEVRRILGALTELRHRLILSLLYGAGLRISELLrLRVKDI------DFERGVIRVRQGKGGKDRVVPLPEKLLEPL 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 202 WRYVNEARfQKQQESEVESNCLFLTPDgQGWASQG--------SAFGKALKSLKLPFHVSPHMLRHTYATHMLKGMLEHK 273
Cdd:cd01193    79 RRYLKSAR-PKEELDPAEGRAGVLDPR-TGVERRHhisettvqRALKKAVEQAGITKRVTPHTLRHSFATHLLEAGTDIR 156

                         170       180
                  ....*....|....*....|....*...
gi 2204007102 274 SskfeplmyLQARLGHSSITTTMKYLHL 301
Cdd:cd01193   157 T--------IQELLGHSDLSTTMIYTHV 176
xerC PRK01287
site-specific tyrosine recombinase XerC; Reviewed
 109-319 4.86e-18

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234935 [Multi-domain]  Cd Length: 358  Bit Score: 83.64  E-value: 4.86e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 109 SSDLMMKTFEKK--AQFLSVIEVRDLLSAIENSTL-----KLMVRLCLQTGIRRKE---LLLFPLNIIRKPtgnrayyeV 178
Cdd:PRK01287  120 AEDLELPKEEKRlpRQILSEAETEQVLASPDLTTLqglrdRALLELLWSTGIRRGElarLDLYDVDASRGV--------V 191

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 179 NISRTKGEKERKIHIPTRLMEDLWRYVNEARFQKQQESEVESncLFLTPDGQGWASQG--SAFGKALKSLKLPFHVSPHM 256
Cdd:PRK01287  192 TVRQGKGNKDRVVPVGERALAWLQRYLQDVRPQLAVRPDSGA--LFVAMDGDGLARNTltNMVGRYIRAAGIEKAGACHL 269

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2204007102 257 LRHTYATHMLKGMLEhksskfepLMYLQARLGHSSITTTMKYLHlvndlvddLSIEYQQQIDA 319
Cdd:PRK01287  270 FRHAMATQMLENGAD--------TRHIQAILGHAKLETTQIYTR--------VSIGHLQAVHA 316
INT_XerDC_C cd00798
XerD and XerC integrases, C-terminal catalytic domains; XerDC-like integrases are involved in ...
 128-304 6.00e-18

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: 79.86  E-value: 6.00e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 128 EVRDLLSAIENST-----LKLMVRLCLQTGIRRKELLLfpLNIirkptgnrayYEVNISRT------KGEKERKIHIPTR 196
Cdd:cd00798     3 EVERLLDAPDTDTplglrDRAILELLYASGLRVSELVG--LDL----------SDVDLDEGlvrvtgKGNKERLVPFGSY 70

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 197 LMEDLWRYVNEARfqKQQESEVESNCLFLTPDGQGWASQGsaFGKALKSLK----LPFHVSPHMLRHTYATHmlkgMLEH 272
Cdd:cd00798    71 AVEALEEYLEERR--PLLLKKKPPDALFLNKRGKRLSRRG--VWRILKKYAeragLPKHVSPHTLRHSFATH----LLEG 142

                         170       180       190
                  ....*....|....*....|....*....|..
gi 2204007102 273 KSSkfepLMYLQARLGHSSITTTMKYLHLVND 304
Cdd:cd00798   143 GAD----LRVVQELLGHASLSTTQIYTHVSFE 170
INT_ICEBs1_C_like cd01189
C-terminal catalytic domain of integrases from bacterial phages and conjugate transposons; ...
 128-300 1.06e-17

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: 78.37  E-value: 1.06e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 128 EVRDLLSAIE--NSTLKLMVRLCLQTGIRRKELL-------LFPLNIIR-----KPTGNRAYYevnISRTKGEK-ERKIH 192
Cdd:cd01189     3 ELKKLLEALKkrGDRYYLLFLLALLTGLRRGELLaltwsdiDFENGTIRinrtlVRKKKGGYV---IKPPKTKSsIRTIP 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 193 IPTRLMEDLWRYVnearfqkqqesevesnclfltpdgqgwasqgsAFGKALKSLKLPfHVSPHMLRHTYATHML-KGMle 271
Cdd:cd01189    80 LPDELIELLKELK--------------------------------AFKKLLKKAGLP-RITPHDLRHTFASLLLeAGV-- 124

                         170       180       190
                  ....*....|....*....|....*....|
gi 2204007102 272 hksskfePLMYLQARLGHSSITTTMK-YLH 300
Cdd:cd01189   125 -------PLKVIAERLGHSDISTTLDvYAH 147
recomb_XerC TIGR02224
tyrosine recombinase XerC; The phage integrase family describes a number of recombinases with ...
 3-301 8.02e-17

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: 79.19  E-value: 8.02e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102   3 SENTWWTYGNHLAQFLTFCEQNS--LDWRDISESSEDEMLVSAYRDlcvgefGMSVNSTNQHLRTIVRFYSYGV-GKWFK 79
Cdd:TIGR02224  14 SPHTVRAYRRDLEAFLEFLEEEGglASLAEVTAADLRSFLAELHAR------GLSRRSLARKLSALRSFYRFLLrRGLID 87

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102  80 SLPysLESVSVNKGQQFLAhternggkkyssdlmmktfekkaQFLSVIEVRDLLSAIENSTLKL-------MVRLCLQTG 152
Cdd:TIGR02224  88 ANP--AAGVRAPKQPKKLP-----------------------KFLSEDEMEALLDAPEEDDEDWlalrdraILELLYSSG 142

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 153 IRRKELLLFPLNIIrkptgNRAYYEVNIsRTKGEKERKIHIPTRLMEDLWRYVNEARFQkqQESEVESNCLFLTPDGQGW 232
Cdd:TIGR02224 143 LRVSELVGLDLSDL-----DLDFGEVRV-RGKGNKERIVPFGPYARDALQAYLEARRSP--LLASEGQDALFLNRRGGRL 214

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2204007102 233 ASQG--SAFGKALKSLKLPFHVSPHMLRHTYATHMLKGMLEHKSskfeplmyLQARLGHSSITTTMKYLHL 301
Cdd:TIGR02224 215 TPRGvqYRLQQLRAKAGLPKHVHPHALRHSFATHLLNNGADLRA--------VQELLGHASLSTTQIYTHV 277
xerD PRK00283
tyrosine recombinase;
124-301 3.46e-14

tyrosine recombinase;


Pssm-ID: 234713 [Multi-domain]  Cd Length: 299  Bit Score: 71.76  E-value: 3.46e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 124 LSVIEVRDLLSAIENST-----LKLMVRLCLQTGIRRKELLLFPLNIIRKPTGnrayyeVNISRTKGEKERKIHIPTRLM 198
Cdd:PRK00283  114 LSEAQVEALLDAPDIDTplglrDRAMLELLYATGLRVSELVGLTLDDVSLRQG------VVRVTGKGNKERLVPLGEEAV 187

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 199 EDLWRYVNEAR--FQKQQESEVesncLFLTPDGQGWASQGsaFGKALKSLKL-----PFHVSPHMLRHTYATHmlkgMLE 271
Cdd:PRK00283  188 YAIERYLERGRpaLLNGRSSDA----LFPSARGGQLTRQT--FWHRIKHYAKragidPKKLSPHVLRHAFATH----LLN 257

                         170       180       190
                  ....*....|....*....|....*....|
gi 2204007102 272 HKSSkfepLMYLQARLGHSSITTTMKYLHL 301
Cdd:PRK00283  258 HGAD----LRVVQELLGHSDISTTQIYTHV 283
INT_RitC_C_like cd01182
C-terminal catalytic domain of recombinase RitC, a component of the recombinase trio; ...
 124-299 2.53e-13

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: 67.30  E-value: 2.53e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 124 LSVIEVRDLLSAIENSTLK-----LMVRLCLQTGIRRKELL-LFPLNIIRkptGNRAYYEVnisRTKGEKERKIHIPTRL 197
Cdd:cd01182     1 LTREEMKALLAAPDRNTSLgrrdhALLLLLYDTGARVQELAdLTIRDLRL---DDPATVRL---HGKGRKERTVPLWKET 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 198 MEDLWRYVnearfQKQQESEVESNCLFLTPDGQGwaSQGSAFG------KALKSLK-----LPFHVSPHMLRHTYATHML 266
Cdd:cd01182    75 VAALKAYL-----QEFHLTPDPKQLFPLFPNRRG--QPLTRDGvayilnKYVALASnrcpsLPKRITPHTLRHTKAMHLL 147

                         170       180       190
                  ....*....|....*....|....*....|....
gi 2204007102 267 K-GMlehksskfePLMYLQARLGHSSITTTMKYL 299
Cdd:cd01182   148 QaGV---------DLTVIRDWLGHESVETTQIYA 172
xerC PRK00236
site-specific tyrosine recombinase XerC; Reviewed
 123-301 5.61e-13

site-specific tyrosine recombinase XerC; Reviewed


Pssm-ID: 234698 [Multi-domain]  Cd Length: 297  Bit Score: 68.26  E-value: 5.61e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 123 FLSVIEVRDLLSAIENSTL-----KLMVRLCLQTGIRRKELLLFPLNIIRKPTGnrayyEVNIsRTKGEKERKIHIPTRL 197
Cdd:PRK00236  115 PLDVDQAKRLLDAIDEDDPlalrdRAILELLYGSGLRLSELVGLDIDDLDLASG-----TLRV-LGKGNKERTVPLGRAA 188

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 198 MEDLWRYVNEARFQKQQEsevesNCLFLTPDGqGWASQGSA---FGKALKSLKLPFHVSPHMLRHTYATHMLKGMLEHKS 274
Cdd:PRK00236  189 REALEAYLALRPLFLPDD-----DALFLGARG-GRLSPRVVqrrVKKLGKKAGLPSHITPHKLRHSFATHLLESGGDLRA 262

                         170       180
                  ....*....|....*....|....*..
gi 2204007102 275 skfeplmyLQARLGHSSITTTMKYLHL 301
Cdd:PRK00236  263 --------VQELLGHASLSTTQIYTHV 281
int PHA02601
integrase; Provisional
 115-308 9.06e-13

integrase; Provisional


Pssm-ID: 222904 [Multi-domain]  Cd Length: 333  Bit Score: 67.83  E-value: 9.06e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 115 KTFEKKAQFLSVIEVRDLLSAIENS---TLKLMVRLCLQTGIRRKELL-LFPLNIIRkptgnrayYEVNISRTKGEKERK 190
Cdd:PHA02601  164 KEAEPELAFLTKEEIERLLDACDGSrspDLGLIAKICLATGARWSEAEtLKRSQISP--------YKITFVKTKGKKNRT 235

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 191 IHIPTRLMEDLwryvnearfqkqqesevESNCLFLTPDGQGwasqgsAFGKALKSLK--LPFHVSPHMLRHTYATH-MLK 267
Cdd:PHA02601  236 VPISEELYKML-----------------PKRRGRLFKDAYE------SFERAVKRAGidLPEGQATHVLRHTFASHfMMN 292

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|.
gi 2204007102 268 GmlehksskfEPLMYLQARLGHSSITTTMKYLHLVNDLVDD 308
Cdd:PHA02601  293 G---------GNILVLQRILGHATIEMTMAYAHFAPDHLED 324
INT_tnpA_C_Tn554 cd01186
Putative Transposase A from transposon Tn554, C-terminal catalytic domain; This family ...
 128-301 4.91e-10

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: 57.81  E-value: 4.91e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 128 EVRDLLSAIENSTLKLMVRLCLQTGIRRKELLLFPLN--------IIRKPTGNrayyEVNISRTKGEKERKIHIPTRLMe 199
Cdd:cd01186     6 EVQELINACNNLRDKFLLALLYETGLRIGEALGLRIEdidmadnqIELVPRED----NTNEARAKSMRERRIPVSQDLI- 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 200 DLW-RYVNEArfqkQQESEVESNCLFLTPDG--QGWASQGSAFGKALKSL--KLPFHVSPHMLRHTYATHMLkgmLEHKS 274
Cdd:cd01186    81 DLYaDYLTYI----YCEEAEFSITVFVNVKGgnQGKAMNYSDVYDLVRRLkkRTGIDFTPHMFRHTHATALI---RAGWS 153

                         170       180
                  ....*....|....*....|....*...
gi 2204007102 275 SKFeplmyLQARLGHSSITTTMK-YLHL 301
Cdd:cd01186   154 IEV-----VARRLGHAHVQTTLNtYGHL 176
integrase_gron TIGR02249
integron integrase; Members of this family are integrases associated with integrons (and ...
 124-303 5.23e-10

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: 59.33  E-value: 5.23e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 124 LSVIEVRDLLSAIENsTLKLMVRLCLQTGIRRKELLLFPLNIIrkptgNRAYYEVNISRTKGEKERKIHIPTRLMEDLWR 203
Cdd:TIGR02249 102 LTREEVRRLLEHLEG-KYRLIAKLLYGSGMRLMECLRLRIQDI-----DFDYGEIRIRQGKGGKDRTVTLPKELIPPLRE 175

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 204 YVNEAR---FQKQQE-----------------SEVESNCLFLTPDGQGWASQGS---------------AFGKALKSLKL 248
Cdd:TIGR02249 176 QIELARayhEADLAEgyggvylphalarkypnAPKEWGWQYLFPSHRLSRDPESgvirrhhinettiqrAVRRAVERAGI 255

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2204007102 249 PFHVSPHMLRHTYATHMLKGMLEHKSskfeplmyLQARLGHSSITTTMKYLHLVN 303
Cdd:TIGR02249 256 EKPVTCHTLRHSFATHLLESGADIRT--------VQELLGHSDVKTTQIYTHVLN 302
FimB COG0582
Integrase/recombinase, includes phage integrase [Replication, recombination and repair, ...
 123-300 1.36e-08

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


Pssm-ID: 440347 [Multi-domain]  Cd Length: 391  Bit Score: 55.43  E-value: 1.36e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 123 FLSVIEVRDLLSAIENSTLKLMVRLCLQ----TGIRRKELLL-------FPLNIIRKPTgnrayyevniSRTKGEKERKI 191
Cdd:COG0582   205 ALTPEELPELLRALDAYRGSPVTRLALRllllTGVRPGELRGarwseidLEAALWTIPA----------ERMKTRRPHIV 274

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 192 HIPTRLMEDLwryvnearfQKQQESEVESNCLFLTPDGQGWASQGSAFGKALKSLKLPfHVSPHMLRHTYATHMLkgmle 271
Cdd:COG0582   275 PLSRQALEIL---------KELKPLTGDSEYVFPSRRGPKKPMSENTLNKALRRMGYG-RFTPHGFRHTASTLLN----- 339

                         170       180       190
                  ....*....|....*....|....*....|
gi 2204007102 272 hkSSKFEPLMyLQARLGHSSITTTMK-YLH 300
Cdd:COG0582   340 --EAGFPPDV-IERQLAHKDGNKVRAaYNR 366
xerS PRK05084
site-specific tyrosine recombinase XerS; Reviewed
 147-304 1.55e-07

site-specific tyrosine recombinase XerS; Reviewed


Pssm-ID: 235339 [Multi-domain]  Cd Length: 357  Bit Score: 52.23  E-value: 1.55e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 147 LCLQTGIRRKELL---LFPLNIirkptgNRAYYEVniSRtKGEKERKIHIPTRLMEDLWRY--VNEARFQKQQESEVesn 221
Cdd:PRK05084  203 LILGSGLRVSELVnldLSDLNL------KQMTIDV--TR-KGGKRDSVNIAPFALPYLEEYlkIRASRYKAEKQEKA--- 270

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 222 cLFLT-PDGQGWASQGSA----FGKALKSLKLPfhVSPHMLRHTYATHMlkgmleHKSSKFEPLmyLQARLGHSSITTTM 296
Cdd:PRK05084  271 -LFLTkYRGKPNRISARAiekmVAKYSEAFGVR--LTPHKLRHTLATRL------YDATKDQVL--VADQLGHTSTETTD 339


                  ....*...
gi 2204007102 297 KYLHLVND 304
Cdd:PRK05084  340 LYTHIVND 347
INTN1_C_like cd01185
Integrase IntN1 of Bacteroides mobilizable transposon NBU1 and similar proteins, C-terminal ...
 148-306 3.40e-07

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: 49.18  E-value: 3.40e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 148 CLqTGIRRKELL-LFPLNIIRKPTGNRayyeVNISRTKGEKERKIHIPTRLMEDLWRYVNEARfqkqqeseveSNCLFLT 226
Cdd:cd01185    28 CY-TGLRFSDLKnLTWKNIVEASGRTW----IRYRRKKTGKPVTVPLLPVAREILEKYKDDRS----------EGKLFPV 92

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 227 PDGQGwasqgsaFGKALKSL----KLPFHVSPHMLRHTYATHML-KGMlehksskfePLMYLQARLGHSSITTTMKYLHL 301
Cdd:cd01185    93 LSNQK-------INRYLKEIakiaGIDKHLTFHVARHTFATLLLlKGV---------DIETISKLLGHSSIKTTQIYAKI 156


                  ....*
gi 2204007102 302 VNDLV 306
Cdd:cd01185   157 VDSKK 161
INT_RitB_C_like cd00797
C-terminal catalytic domain of recombinase RitB, a component of the recombinase trio; ...
 124-305 4.72e-07

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: 49.61  E-value: 4.72e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 124 LSVIEVRDLLSA---------IENSTLKLMVRLCLQTGIRRKELLLFPLN---------IIRKptgnrayyevnisrTKG 185
Cdd:cd00797     1 YTDAEIRRLLAAadqlppespLRPLTYATLFGLLYATGLRVGEALRLRLEdvdldsgilTIRQ--------------TKF 66

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 186 EKERKIHIPTRLMEDLWRYvneARFQKQQESEVESNCLFLTPDGQGWASQG--SAFGKALKSLKLPfHVS------PHML 257
Cdd:cd00797    67 GKSRLVPLHPSTVGALRDY---LARRDRLLPSPSSSYFFVSQQGGRLTGGGvyRVFRRLLRRIGLR-GAGdgrgprLHDL 142

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 2204007102 258 RHTYATHMLkgMLEHKSSK--FEPLMYLQARLGHSSITTTMKYLHLVNDL 305
Cdd:cd00797   143 RHTFAVNRL--TRWYREGAdvERKLPVLSTYLGHVNVTDTYWYLTATPEL 190
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
 177-305 5.45e-06

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: 46.08  E-value: 5.45e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 177 EVNISRTKGEKERKIHIPTRLMEDLWRYVNEARfqkqqeSEVESNCLFLT---PDGQ--GWASQGSAFGKALKSLKL-PF 250
Cdd:cd01188    53 TITVRQKKTGRPVELPLTEPVGEALADYLRDGR------PRTDSREVFLRaraPYRPlsSTSQISSIVRRYLRKAGIePS 126

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2204007102 251 HVSPHMLRHTYATHMLKgmlehkssKFEPLMYLQARLGHSSITTTMKYLHL-VNDL 305
Cdd:cd01188   127 HRGTHSLRHSLATRMLR--------AGTSLKVIADLLGHRSIETTAIYAKIdVDDL 174
INT_C_like_4 cd01194
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 124-300 8.47e-06

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


Pssm-ID: 271194 [Multi-domain]  Cd Length: 174  Bit Score: 45.44  E-value: 8.47e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 124 LSVIEVRDLLSAI-ENSTL-----KLMVRLCLQTGIRRKELLLFPLNIIRKPTGNRAYYeVNISRtKGEKERKIHIPTRL 197
Cdd:cd01194     1 LTLEQARQLLASLpIDDSIiglrdRAIISLMVTEGLRTVEIVRADVGDLRQEGEGTILY-VQGKG-KTSKDDFVYLRPDV 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 198 MEDLWRYVNEARFQKQQESevesncLFLT----PDGQGWASQG--SAFGKALKSLKL-PFHVSPHMLRHTYATHMLKGML 270
Cdd:cd01194    79 LKALQAYLKARGKLDFEEP------LFTSlsnnSKGQRLTTRSirRIIKKYLRKAGLdDDRLTAHSLRHTAGTLALKAGK 152

                         170       180       190
                  ....*....|....*....|....*....|
gi 2204007102 271 EhksskfepLMYLQARLGHSSITTTMKYLH 300
Cdd:cd01194   153 S--------LREVQQLLRHSDPNTTMIYAH 174
INT_C_like_2 cd01191
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 144-321 4.11e-04

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


Pssm-ID: 271191  Cd Length: 176  Bit Score: 40.49  E-value: 4.11e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 144 MVRLCLQTGIRRKELLLFPLNIIRKptgnrAYYEVnisRTKGEKERKIHIPTRLMEDLWRYVnearfqkqQESEVESNCL 223
Cdd:cd01191    25 VVRFLAATGARVSELIKIKVEHVEL-----GYFDI---YSKGGKLRRLYIPKKLRNEALEWL--------KSTNRKSGYI 88

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 224 FLTPDGQ-----GWASQGSAFgkALKSLKLPFHVSPHMLRHTYAthmlKGMLEhkssKFEPLMYLQARLGHSSITTTMKY 298
Cdd:cd01191    89 FLNRFGErittrGIAQQLKNY--ARKYGLNPKVVYPHSFRHRFA----KNFLE----KYNDIALLADLMGHESIETTRIY 158

                         170       180
                  ....*....|....*....|...
gi 2204007102 299 LHlvndlvdDLSIEYQQQIDAIV 321
Cdd:cd01191   159 LR-------KTASEQQEIVDKIV 174
PRK15417 PRK15417
integron integrase;
238-302 5.13e-04

integron integrase;


Pssm-ID: 185315 [Multi-domain]  Cd Length: 337  Bit Score: 41.19  E-value: 5.13e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2204007102 238 AFGKALKSLKLPFHVSPHMLRHTYATHMLKGMLEHKSskfeplmyLQARLGHSSITTTMKYLHLV 302
Cdd:PRK15417  260 AFKRAVEQAGITKPATPHTLRHSFATALLRSGYDIRT--------VQDLLGHSDVSTTMIYTHVL 316
INT_C_like_5 cd01195
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 125-300 1.88e-03

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: 38.61  E-value: 1.88e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 125 SVIEVRDLLSAIENSTLK-----LMVRLCLQTGIRRKELLLFPLNIIRKPTGnrayyeVNISRTKGEKERK-IHIPTRLM 198
Cdd:cd01195     1 SREEARQRLDAADRHTAKgkrdeALVRLLLDNALRRSEAVALDVEDLEKEHR------RLRILGKGKKQREvVTLPPTTR 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 199 EDLWRYVnEARFQKQQEsevesncLF--LTPDGQGWASQGSAFGKALKSL----KLPFHVSPHMLRHTYATHMLKGM--L 270
Cdd:cd01195    75 EALAAWL-AARGEAEGP-------LFvsLDRASRGRRLSPQAVYRIVRRLaeriGLGKRLSPHGLRHSAITLALDAGagL 146

                         170       180       190
                  ....*....|....*....|....*....|
gi 2204007102 271 EHKSSKFeplmylqARlgHSSITTTMKYLH 300
Cdd:cd01195   147 IRKVQDF-------SR--HADLRTLQVYDD 167
ASKHA_NBD_NAGK_meta cd24078
nucleotide-binding domain (NBD) of N-acetyl-D-glucosamine kinase (NAGK) and similar proteins; ...
 220-278 2.64e-03

nucleotide-binding domain (NBD) of N-acetyl-D-glucosamine kinase (NAGK) and similar proteins; NAGK (EC 2.7.1.59), also called N-acetylglucosamine kinase, or GlcNAc kinase, converts endogenous N-acetylglucosamine (GlcNAc), a major component of complex carbohydrates, from lysosomal degradation or nutritional sources into GlcNAc 6-phosphate. It is involved in the N-glycolylneuraminic acid (Neu5Gc) degradation pathway. NAGK also has ManNAc kinase activity. Members in this family are mainly from metazoa.


Pssm-ID: 466928 [Multi-domain]  Cd Length: 314  Bit Score: 39.10  E-value: 2.64e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 220 SNCLFLTPDGQ-----GWASQ----GSAFGKALKSLKLPF------HVSPH--------MLRHTYATHmLKGMLEHKSSK 276
Cdd:cd24078   126 SNCQLINPDGStagcgGWGHMlgdeGSAYWIAHRAIKAVFdaednfEPPPHdisyvkkaMFEYFKIED-RLDLLPHLYTN 204


                  ..
gi 2204007102 277 FE 278
Cdd:cd24078   205 FD 206
INT_C_like_3 cd01192
Uncharacterized site-specific tyrosine recombinase, C-terminal catalytic domain; Tyrosine ...
 241-309 4.64e-03

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: 37.27  E-value: 4.64e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2204007102 241 KALKSLKLPFHVSPHMLRHTYATHMLKgmlehKSSKFEPLMYLqarLGHSSITTTMKYLHLVNDLVDDL 309
Cdd:cd01192   118 KAADDLGLNYNIGTHSLRKTFGYHVYK-----QGKDIELLMKL---LNHSSPSITLRYLGIDQEDVDKA 178
INT_P4_C cd00801
Bacteriophage P4 integrase, C-terminal catalytic domain; P4-like integrases are found in ...
 128-265 8.78e-03

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: 36.48  E-value: 8.78e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2204007102 128 EVRDLLSAIENSTL----KLMVRLCLQTGIRRKELLLFPLNIIRkptGNRAYYEVNISRTKGEKERKIHIPTRLMEdlwr 203
Cdd:cd00801     4 ELPELWRALDTANLspptKLALRLLLLTGQRIGELARARWSEID---LEEKTWTIPAERTKNKRPHRVPLSDQALE---- 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2204007102 204 yvneaRFQKQQESEVESNCLFLTPDGQGWASQGSAFGKALKSLKLPFHV-SPHMLRHTYATHM 265
Cdd:cd00801    77 -----ILEELKEFTGDSGYLFPSRRKKKKPISENTINKALKRLGYKGKEfTPHDLRRTFSTLL 134
 
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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