6WV9 | pdb_00006wv9

Takifugu rubripes VKOR-like with vitamin K1 in noncatalytic state

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
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	GFP-like	8106214	3000576	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	GFP-like	8096046	3000576	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)
A	GFP	e6wv9A1	A: beta barrels	X: GFP-like (From Topology)	H: GFP-like (From Topology)	T: GFP-like	F: GFP	ECOD (1.6)
A	VKOR	e6wv9A2	A: alpha bundles	X: Bromodomain-like	H: Vitamin K epoxide reductase (VKOR) (From Topology)	T: Vitamin K epoxide reductase (VKOR)	F: VKOR	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.1440.130	Mainly Alpha	Up-down Bundle	de novo design (two linked rop proteins)	VKOR domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07884	Vitamin K epoxide reductase family (VKOR)	Vitamin K epoxide reductase family	Vitamin K epoxide reductase (VKOR) recycles reduced vitamin K, which is used subsequently as a co-factor in the gamma-carboxylation of glutamic acid residues in blood coagulation enzymes. VKORC1 is a member of a large family of predicted enzymes that ...	Vitamin K epoxide reductase (VKOR) recycles reduced vitamin K, which is used subsequently as a co-factor in the gamma-carboxylation of glutamic acid residues in blood coagulation enzymes. VKORC1 is a member of a large family of predicted enzymes that are present in vertebrates, Drosophila, plants, bacteria and archaea [1]. Four cysteine residues and one residue, which is either serine or threonine, are identified as likely active-site residues [1]. In some plant and bacterial homologues the VKORC1 homologous domain is fused with domains of the thioredoxin family of oxidoreductases [1].	Domain
A	PF01353	Green fluorescent protein (GFP)	Green fluorescent protein		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Vitamin K epoxide reductase-like protein, termini restrained by green fluorescent protein	oxidoreductase activity oxidoreductase activity, acting on CH or CH2 groups oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor vitamin-K-epoxide reductase (warfarin-sensitive) activity catalytic activity binding quinone binding small molecule binding	bioluminescence metabolic process cellular process generation of precursor metabolites and energy vitamin K metabolic process ketone metabolic process	membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment membrane intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle cellular anatomical structure organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000786	Green fluorescent protein, GFP	Family
A	IPR011584	Green fluorescent protein-related	Family
A	IPR009017	Green fluorescent protein	Homologous Superfamily
A	IPR038354	VKOR domain superfamily	Homologous Superfamily
A	IPR012932	Vitamin K epoxide reductase	Domain
A	IPR042406	Vitamin K epoxide reductase complex subunit 1	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A	OPM	Transmembrane	Alpha-helical polytopic	Vitamin K epoxide reductase	Vitamin K epoxide reductase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Oxidoreductases	Vitamin K epoxide reductase (VKOR-like)

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.