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Conserved domains on  [gi|1561851438|gb|QAT92924|]
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Cre recombinase [Cloning vector pCPC53]

Protein Classification

site-specific integrase( domain architecture ID 10092423)

tyrosine based site-specific recombinase (integrase) is involved in cleavage of a single strand of a DNA duplex by nucleophilic attack of a conserved tyrosine to give a 3' phosphotyrosyl protein-DNA adduct

CATH:  1.10.443.10
Gene Ontology:  GO:0015074|GO:0003677|GO:0006310
PubMed:  10047575|9278480|10577069
SCOP:  4002347

Graphical summary

 Zoom to residue level

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List of domain hits

 Name Accession Description Interval E-value
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
 153-339 9.33e-48

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: 159.39  E-value: 9.33e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 153 DRCQDIRNLAFLGIAYNTLLRIAEIARIRVKDISRTDGGRMLIHIGRTKTLVSTAGVEKALS----LGVTKLVERWISVS 228
Cdd:cd00799    11 TTLRGLRDRALLLLGFAGALRRSELVALRVEDLTRFVDGGLLIRLRRSKTDQDGEGEIKALPygpeTCPVRALRAWLEAA 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 229 GvadDPNNYLFCRVRKNGVAApsaTSQLSTRALEGIFEATHRLiygakddSGQRYLAWSGHSARVGAARDMARAGVSIPE 308
Cdd:cd00799    91 G---IPSGPLFRRIRRGGSVG---TTRLSDRSVARIVKRRAAL-------AGLDPGDFSGHSLRRGFATEAARAGASLPE 157

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1561851438 309 IMQAGGWTNVNIVMNYIRNLDSETGAMVRLL 339
Cdd:cd00799   158 IMAQGGHKSVATVMRYIREADRFKDNAAAKL 188
 
Name Accession Description Interval E-value
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
 153-339 9.33e-48

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: 159.39  E-value: 9.33e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 153 DRCQDIRNLAFLGIAYNTLLRIAEIARIRVKDISRTDGGRMLIHIGRTKTLVSTAGVEKALS----LGVTKLVERWISVS 228
Cdd:cd00799    11 TTLRGLRDRALLLLGFAGALRRSELVALRVEDLTRFVDGGLLIRLRRSKTDQDGEGEIKALPygpeTCPVRALRAWLEAA 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 229 GvadDPNNYLFCRVRKNGVAApsaTSQLSTRALEGIFEATHRLiygakddSGQRYLAWSGHSARVGAARDMARAGVSIPE 308
Cdd:cd00799    91 G---IPSGPLFRRIRRGGSVG---TTRLSDRSVARIVKRRAAL-------AGLDPGDFSGHSLRRGFATEAARAGASLPE 157

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1561851438 309 IMQAGGWTNVNIVMNYIRNLDSETGAMVRLL 339
Cdd:cd00799   158 IMAQGGHKSVATVMRYIREADRFKDNAAAKL 188
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 139-329 2.88e-36

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: 128.98  E-value: 2.88e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 139 RTDFDQVRSLMENSDRC-QDIRNLAFLGIAYNTLLRIAEIARIRVKDISrTDGGRMLIHigRTKTLVSTAgveKALSLGV 217
Cdd:pfam00589   1 RLTEDEVERLLDAAETGpLSIRDKALLELLYATGLRISELCSLRWSDID-FENGVIRVH--RGKGNKERT---VPLSDAA 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 218 TKLVERWISVSGVADDPNNYLFCRVRkngvaapsaTSQLSTRALEGIFEATHRLiygakddSGqRYLAWSGHSARVGAAR 297
Cdd:pfam00589  75 LELLKEWLSKRLLEAPKSDYLFASKR---------GKPLSRQTVRKIFKRAGKE-------AG-LELPLHPHMLRHSFAT 137

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1561851438 298 DMARAGVSIPEIMQAGGWTNVNIVMNYIRNLD 329
Cdd:pfam00589 138 HLLEAGVDLRVVQKLLGHSSISTTQIYTHVAD 169
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
19-331 6.94e-24

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 99.30  E-value: 6.94e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438  19 TSDEVRKNLMDMFRDRQAFSEHTWKMLLSVCRSWAAWCK-LNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQQHLGQLNM 97
Cdd:COG4974     2 TLADLLEAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEeLGKIPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRS 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438  98 LHRRsglprpsdsnavsLVMRRIRKENVDAG-ERAKQALAFERT-DFDQVRSLME--NSDRCQDIRNLAFLGIAYNTLLR 173
Cdd:COG4974    82 FFRY-------------AVREGLLEDNPAAKvKLPKKPRKLPRVlTEEEIEALLEalDTETPEGLRDRALLLLLYATGLR 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 174 IAEIARIRVKDISRTDGgrmLIHIGRTKTlvstaGVEKALSLG--VTKLVERWISVsgVADDPNNYLFCRVRKNgvaaps 251
Cdd:COG4974   149 VSELLGLKWSDIDLDRG---TIRVRRGKG-----GKERTVPLSpeALEALREYLEE--RRPRDSDYLFPTRRGR------ 212

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 252 atsQLSTRALEGIFeatHRLIYGAKDDSGqrylaWSGHSARVGAARDMARAGVSIPEIMQAGGWTNVNIVMNYIRNLDSE 331
Cdd:COG4974   213 ---PLSRRAIRKIL---KRLAKRAGIPKR-----VTPHSLRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEE 281
 
Name Accession Description Interval E-value
INT_Cre_C cd00799
C-terminal catalytic domain of Cre recombinase (also called integrase); Cre-like recombinases ...
 153-339 9.33e-48

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: 159.39  E-value: 9.33e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 153 DRCQDIRNLAFLGIAYNTLLRIAEIARIRVKDISRTDGGRMLIHIGRTKTLVSTAGVEKALS----LGVTKLVERWISVS 228
Cdd:cd00799    11 TTLRGLRDRALLLLGFAGALRRSELVALRVEDLTRFVDGGLLIRLRRSKTDQDGEGEIKALPygpeTCPVRALRAWLEAA 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 229 GvadDPNNYLFCRVRKNGVAApsaTSQLSTRALEGIFEATHRLiygakddSGQRYLAWSGHSARVGAARDMARAGVSIPE 308
Cdd:cd00799    91 G---IPSGPLFRRIRRGGSVG---TTRLSDRSVARIVKRRAAL-------AGLDPGDFSGHSLRRGFATEAARAGASLPE 157

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1561851438 309 IMQAGGWTNVNIVMNYIRNLDSETGAMVRLL 339
Cdd:cd00799   158 IMAQGGHKSVATVMRYIREADRFKDNAAAKL 188
Phage_integrase pfam00589
Phage integrase family; Members of this family cleave DNA substrates by a series of staggered ...
 139-329 2.88e-36

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: 128.98  E-value: 2.88e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 139 RTDFDQVRSLMENSDRC-QDIRNLAFLGIAYNTLLRIAEIARIRVKDISrTDGGRMLIHigRTKTLVSTAgveKALSLGV 217
Cdd:pfam00589   1 RLTEDEVERLLDAAETGpLSIRDKALLELLYATGLRISELCSLRWSDID-FENGVIRVH--RGKGNKERT---VPLSDAA 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 218 TKLVERWISVSGVADDPNNYLFCRVRkngvaapsaTSQLSTRALEGIFEATHRLiygakddSGqRYLAWSGHSARVGAAR 297
Cdd:pfam00589  75 LELLKEWLSKRLLEAPKSDYLFASKR---------GKPLSRQTVRKIFKRAGKE-------AG-LELPLHPHMLRHSFAT 137

                         170       180       190
                  ....*....|....*....|....*....|..
gi 1561851438 298 DMARAGVSIPEIMQAGGWTNVNIVMNYIRNLD 329
Cdd:pfam00589 138 HLLEAGVDLRVVQKLLGHSSISTTQIYTHVAD 169
XerD COG4974
Site-specific recombinase XerD [Replication, recombination and repair];
19-331 6.94e-24

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


Pssm-ID: 443999 [Multi-domain]  Cd Length: 291  Bit Score: 99.30  E-value: 6.94e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438  19 TSDEVRKNLMDMFRDRQAFSEHTWKMLLSVCRSWAAWCK-LNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQQHLGQLNM 97
Cdd:COG4974     2 TLADLLEAFLEELKREKGLSPNTIKAYRRDLRRFLRFLEeLGKIPLAEITPEDIRAYLNYLRERGLSPSTINRYLAALRS 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438  98 LHRRsglprpsdsnavsLVMRRIRKENVDAG-ERAKQALAFERT-DFDQVRSLME--NSDRCQDIRNLAFLGIAYNTLLR 173
Cdd:COG4974    82 FFRY-------------AVREGLLEDNPAAKvKLPKKPRKLPRVlTEEEIEALLEalDTETPEGLRDRALLLLLYATGLR 148

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 174 IAEIARIRVKDISRTDGgrmLIHIGRTKTlvstaGVEKALSLG--VTKLVERWISVsgVADDPNNYLFCRVRKNgvaaps 251
Cdd:COG4974   149 VSELLGLKWSDIDLDRG---TIRVRRGKG-----GKERTVPLSpeALEALREYLEE--RRPRDSDYLFPTRRGR------ 212

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 252 atsQLSTRALEGIFeatHRLIYGAKDDSGqrylaWSGHSARVGAARDMARAGVSIPEIMQAGGWTNVNIVMNYIRNLDSE 331
Cdd:COG4974   213 ---PLSRRAIRKIL---KRLAKRAGIPKR-----VTPHSLRHTFATHLLEAGVDLRTVQELLGHSSISTTQIYTHVSDEE 281
DNA_BRE_C cd00397
DNA breaking-rejoining enzymes, C-terminal catalytic domain; The DNA breaking-rejoining enzyme ...
 144-325 2.73e-16

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: 75.21  E-value: 2.73e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 144 QVRSLMENSDRC--QDIRNLAFLGIAYNTLLRIAEIARIRVKDIsRTDGGRMLIHIGRTKTLVS-TAGVEKALSLGVTKL 220
Cdd:cd00397     1 ELEKLLDAIDEDkkIDLRDRAILLLLLETGLRISELLALKVKDI-DLDNGTIRVRGKKTKGGKErTVPLPKELAEELKEY 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 221 VERWISVSGVADDPNNYLFCRVRKNGvaapsatSQLSTRALEGIFEAthrliygAKDDSGQRYlawSGHSARVGAARDMA 300
Cdd:cd00397    80 LKERRDKRGPLLKSLYLNKLFGTKLG-------ERLSRRTLRRIFKK-------AGIEAGRKI---TPHSLRHTFATNLL 142

                         170       180
                  ....*....|....*....|....*
gi 1561851438 301 RAGVSIPEIMQAGGWTNVNIVMNYI 325
Cdd:cd00397   143 ENGVDIKVVQKLLGHSSISTTQRYL 167
XerC COG4973
Site-specific recombinase XerC [Replication, recombination and repair];
38-326 2.41e-11

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


Pssm-ID: 443998 [Multi-domain]  Cd Length: 287  Bit Score: 63.44  E-value: 2.41e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438  38 SEHTWKMLLSVCRSWAAWCKLNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQQHLGQL----NMLHRRSGLprpsDSNAV 113
Cdd:COG4973    21 SPKTLEAYRRDLRRLIPLLGDADLPLEELTPADVRRFLARLHRRGLSPRTLNRRLSALrsffNWAVREGLL----EANPA 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 114 SLVMRRIRKENVDagerakQALafertDFDQVRSLME-NSDRCQDIRNLAFLGIAYNTLLRIAEIARIRVKDISRTDGgr 192
Cdd:COG4973    97 AGVKAPKAPRKLP------RAL-----TVDELAQLLDaLADDPLAVRDRAIVELLYSTGLRLGELVGLDWEDVDLDAG-- 163

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 193 mLIHIgRTKTlvstagvEKALSLGVT----KLVERWISVSG-VADDPNNYLFCRVRKNgvaapsatsQLSTRALEGIFEA 267
Cdd:COG4973   164 -EVRV-RGKT-------GKSRTVPLGpkalAALREWLAVRPeLAAPDEGALFPSRRGT---------RLSPRNVQKRLRR 225

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1561851438 268 thrliYGAKDDSGQRylaWSGHSARVGAARDMARAGVSIPEIMQAGGWTNVNIVMNYIR 326
Cdd:COG4973   226 -----LAKKAGLPKH---VHPHDLRHSFATHLLESGGDLRAVQELLGHASISTTQIYTH 276
INT_Rci_Hp1_C cd00796
Shufflon-specific DNA recombinase Rci and Bacteriophage Hp1_like integrase, C-terminal ...
 143-202 1.17e-04

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: 41.93  E-value: 1.17e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 143 DQVRSLMENSDRCQDIRNLAFLGIAYNTLLRIAEIARIRVKDIsrtDGGRMLIHIGRTKT 202
Cdd:cd00796     8 DEEARLLAALEESTNPHLRLIVLLALYTGARRGEILSLRWDDI---DLEVGLIVLPETKN 64
INT_IntI_C cd01193
Integron integrase and similar protiens, C-terminal catalytic domain; Integron integrases ...
 143-201 4.47e-04

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: 40.34  E-value: 4.47e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1561851438 143 DQVRSLMENSdrcQDIRNLAFLGIAYNTLLRIAEIARIRVKDIsrtDGGRMLIHIGRTK 201
Cdd:cd01193     9 DEVRRILGAL---TELRHRLILSLLYGAGLRISELLRLRVKDI---DFERGVIRVRQGK 61
INT_RitA_C_like cd01188
C-terminal catalytic domain of recombinase RitA, a component of the recombinase trio; ...
 143-326 9.71e-04

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: 39.53  E-value: 9.71e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 143 DQVRSLMENSDRCQDI--RNLAFLGIAYNTLLRIAEIARIRVKDIsrtDGGRMLIHIGRTKT-----LVSTAGVEKALS- 214
Cdd:cd01188     3 DEVRRLLAAIDRLTPVglRDYAILLLLARLGLRAGDVAGLRLDDI---DWRSGTITVRQKKTgrpveLPLTEPVGEALAd 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1561851438 215 ---LGVTKLVERWISVSgvaddpnnylfcrvRKNGVAAPSATSQLstralegifeatHRLIYGAKDDSGQRYLAWSGHSA 291
Cdd:cd01188    80 ylrDGRPRTDSREVFLR--------------ARAPYRPLSSTSQI------------SSIVRRYLRKAGIEPSHRGTHSL 133

                         170       180       190
                  ....*....|....*....|....*....|....*
gi 1561851438 292 RVGAARDMARAGVSIPEIMQAGGWTNVNIVMNYIR 326
Cdd:cd01188   134 RHSLATRMLRAGTSLKVIADLLGHRSIETTAIYAK 168
 
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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