3MGV | pdb_00003mgv

Cre recombinase-DNA transition state

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D	d3mgvd1	All alpha proteins	SAM domain-like	lambda integrase-like, N-terminal domain	lambda integrase-like, N-terminal domain	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)
D	d3mgvd2	Alpha and beta proteins (a+b)	DNA breaking-rejoining enzymes	DNA breaking-rejoining enzymes	Lambda integrase-like, catalytic core	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)
C	d3mgvc1	All alpha proteins	SAM domain-like	lambda integrase-like, N-terminal domain	lambda integrase-like, N-terminal domain	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)
C	d3mgvc2	Alpha and beta proteins (a+b)	DNA breaking-rejoining enzymes	DNA breaking-rejoining enzymes	Lambda integrase-like, catalytic core	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)
B	d3mgvb1	All alpha proteins	SAM domain-like	lambda integrase-like, N-terminal domain	lambda integrase-like, N-terminal domain	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)
B	d3mgvb2	Alpha and beta proteins (a+b)	DNA breaking-rejoining enzymes	DNA breaking-rejoining enzymes	Lambda integrase-like, catalytic core	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)
A	d3mgva1	All alpha proteins	SAM domain-like	lambda integrase-like, N-terminal domain	lambda integrase-like, N-terminal domain	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)
A	d3mgva2	Alpha and beta proteins (a+b)	DNA breaking-rejoining enzymes	DNA breaking-rejoining enzymes	Lambda integrase-like, catalytic core	Cre recombinase	Bacteriophage P1 (Punavirus P1 ) [TaxId: 10678 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	lambda integrase clamp domain-like	8040147	3000550	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	DNA breaking-rejoining enzymes	8040148	3001127	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	lambda integrase clamp domain-like	8040147	3000550	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	DNA breaking-rejoining enzymes	8040148	3001127	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	lambda integrase clamp domain-like	8040147	3000550	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	DNA breaking-rejoining enzymes	8040148	3001127	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	lambda integrase clamp domain-like	8040147	3000550	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DNA breaking-rejoining enzymes	8040148	3001127	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	INT_Cre_C	e3mgvD4	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: INT_Cre_C	ECOD (1.6)
D	Phage_integrase_N	e3mgvD5	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: Phage_integrase_N	ECOD (1.6)
D	Phage_int_SAM_4	e3mgvD3	A: alpha arrays	X: lambda integrase-N-like	H: lambda integrase-N (From Topology)	T: lambda integrase-N	F: Phage_int_SAM_4	ECOD (1.6)
C	INT_Cre_C	e3mgvC4	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: INT_Cre_C	ECOD (1.6)
C	Phage_integrase_N	e3mgvC5	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: Phage_integrase_N	ECOD (1.6)
C	Phage_int_SAM_4	e3mgvC3	A: alpha arrays	X: lambda integrase-N-like	H: lambda integrase-N (From Topology)	T: lambda integrase-N	F: Phage_int_SAM_4	ECOD (1.6)
B	INT_Cre_C	e3mgvB4	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: INT_Cre_C	ECOD (1.6)
B	Phage_integrase_N	e3mgvB5	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: Phage_integrase_N	ECOD (1.6)
B	Phage_int_SAM_4	e3mgvB3	A: alpha arrays	X: lambda integrase-N-like	H: lambda integrase-N (From Topology)	T: lambda integrase-N	F: Phage_int_SAM_4	ECOD (1.6)
A	INT_Cre_C	e3mgvA4	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: INT_Cre_C	ECOD (1.6)
A	Phage_integrase_N	e3mgvA5	A: alpha arrays	X: HTH	H: HTH	T: DNA breaking-rejoining enzymes	F: Phage_integrase_N	ECOD (1.6)
A	Phage_int_SAM_4	e3mgvA3	A: alpha arrays	X: lambda integrase-N-like	H: lambda integrase-N (From Topology)	T: lambda integrase-N	F: Phage_int_SAM_4	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.10.150.130	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.2.0)
D	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.2.0)
C	1.10.150.130	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.2.0)
C	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.2.0)
B	1.10.150.130	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.2.0)
B	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.2.0)
A	1.10.150.130	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.2.0)
A	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00589	Phage integrase family (Phage_integrase)	Phage integrase family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F, H, J [auth K], L [auth M]	DNA (5'-D(CPAPTPAPTPGPCPTPAPTPAPCPGPAPAPGPTPTPAPT)-3')	-	-	-
E, G, I, K [auth L]	DNA (5'-D(TPAPTPAPAPCPTPTPCPGPTPAPTPAP*G)-3')	-	-	-
A, B, C, D	Recombinase cre	DNA binding binding nucleic acid binding	nucleobase-containing compound metabolic process metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process DNA integration nucleic acid metabolic process DNA recombination	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR011010	DNA breaking-rejoining enzyme, catalytic core	Homologous Superfamily
A, B, C, D	IPR010998	Integrase/recombinase, N-terminal	Homologous Superfamily
A, B, C, D	IPR052925	Phage Integrase-like Recombinase	Family
A, B, C, D	IPR044068	Core-binding (CB) domain	Domain
A, B, C, D	IPR002104	Integrase, catalytic domain	Domain
A, B, C, D	IPR013762	Integrase-like, catalytic domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.