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	PBP	e3mgvD3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Immunoglobulin-related	T: PEBP-like	F: PBP	ECOD (v294.1)
D	Pyr_redox_dim	e3mgvD4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)
C	PBP	e3mgvC3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Immunoglobulin-related	T: PEBP-like	F: PBP	ECOD (v294.1)
C	Pyr_redox_dim	e3mgvC4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)
B	PBP	e3mgvB3	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Immunoglobulin-related	T: PEBP-like	F: PBP	ECOD (v294.1)
B	Pyr_redox_dim	e3mgvB4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)
A	Peptidase_M14	e3mgvA3	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: DEATH domain	T: DEATH domain	F: Peptidase_M14	ECOD (v294.1)
A	Pyr_redox_dim	e3mgvA4	A: a/b three-layered sandwiches	X: DEATH domain	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Pyr_redox_dim	ECOD (v294.1)

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 (4.3.0)
D	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.3.0)
C	1.10.150.130	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
C	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.3.0)
B	1.10.150.130	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
B	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.3.0)
A	1.10.150.130	Mainly Alpha	Orthogonal Bundle	DNA polymerase	domain 1	CATH (4.3.0)
A	1.10.443.10	Mainly Alpha	Orthogonal Bundle	hpI Integrase	Chain A	CATH (4.3.0)

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.