4RCT | pdb_00004rct

Crystal structure of R-protein of NgoAVII restriction endonuclease

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	DNA-binding pseudobarrel domain	8056986	3000213	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Phospholipase D/nuclease-like	8056985	3000664	SCOP2B (2022-06-29)
A	SCOP2 Family	NgoFVII-like	8045146	4004319	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Phospholipase D/nuclease-like	8056985	3000664	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DNA-binding pseudobarrel domain	8056986	3000213	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	RE_NgoFVII_C	e4rctB2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Type II restriction endonuclease effector domain	F: RE_NgoFVII_C	ECOD (1.6)
B	RE_NgoFVII_N	e4rctB1	A: a+b three layers	X: Phospholipase D/nuclease (From Topology)	H: Phospholipase D/nuclease (From Topology)	T: Phospholipase D/nuclease	F: RE_NgoFVII_N	ECOD (1.6)
A	RE_NgoFVII_C	e4rctA2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Type II restriction endonuclease effector domain	F: RE_NgoFVII_C	ECOD (1.6)
A	RE_NgoFVII_N	e4rctA1	A: a+b three layers	X: Phospholipase D/nuclease (From Topology)	H: Phospholipase D/nuclease (From Topology)	T: Phospholipase D/nuclease	F: RE_NgoFVII_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.30.870.10	Alpha Beta	2-Layer Sandwich	Endonuclease	Chain A	CATH (4.3.0)
A	3.30.870.10	Alpha Beta	2-Layer Sandwich	Endonuclease	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF09565	NgoFVII restriction endonuclease N-terminal PLD domain (RE_NgoFVII)	NgoFVII restriction endonuclease N-terminal PLD domain	This family includes the NgoFVII (recognises GCSGC but cleavage site unknown) restriction endonuclease.	Domain
A, B	PF20731	NgoFVII C-terminal B3-like DNA-binding domain (RE_NgoFVII_C)	NgoFVII C-terminal B3-like DNA-binding domain	This family includes the NgoFVII (recognises GCSGC but cleavage site unknown) restriction endonuclease. This entry represents the RIFT related domain [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Restriction endonuclease R.NgoVII	endonuclease activity nuclease activity catalytic activity, acting on a nucleic acid catalytic activity	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR048923	Restriction endonuclease, type II, NgoFVII, C-terminal B3-like DNA-binding domain	Domain
A, B	IPR019065	Restriction endonuclease, type II, NgoFVII, N-terminal domain	Domain

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.