7ADY | pdb_00007ady

CO-removed state of the active site of vanadium nitrogenase VFe protein

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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)
A	SCOP2B Superfamily	Helical backbone metal receptor	8069055	3001679	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Helical backbone metal receptor	8069055	3001679	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Helical backbone metal receptor	8098532	3001679	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Helical backbone metal receptor	8098532	3001679	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	F_UNCLASSIFIED	e7adyA1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: F_UNCLASSIFIED	ECOD (1.6)
A	Oxidored_nitro_3rd	e7adyA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_3rd	ECOD (1.6)
A	Oxidored_nitro_1st	e7adyA3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_1st	ECOD (1.6)
D	F_UNCLASSIFIED	e7adyD1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: F_UNCLASSIFIED	ECOD (1.6)
D	Oxidored_nitro_3rd	e7adyD3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_3rd	ECOD (1.6)
D	Oxidored_nitro_1st	e7adyD2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_1st	ECOD (1.6)
B	F_UNCLASSIFIED	e7adyB3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: F_UNCLASSIFIED	ECOD (1.6)
B	Oxidored_nitro_3rd	e7adyB1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_3rd	ECOD (1.6)
B	Oxidored_nitro_1st	e7adyB2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_1st	ECOD (1.6)
E	F_UNCLASSIFIED	e7adyE3	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: F_UNCLASSIFIED	ECOD (1.6)
E	Oxidored_nitro_3rd	e7adyE1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_3rd	ECOD (1.6)
E	Oxidored_nitro_1st	e7adyE2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: Chelatase-like	F: Oxidored_nitro_1st	ECOD (1.6)
C	F_UNCLASSIFIED	e7adyC1	A: alpha arrays	X: Nitrogenase vanadium-iron protein delta chain (From Topology)	H: Nitrogenase vanadium-iron protein delta chain (From Topology)	T: Nitrogenase vanadium-iron protein delta chain	F: F_UNCLASSIFIED	ECOD (1.6)
F	F_UNCLASSIFIED	e7adyF1	A: alpha arrays	X: Nitrogenase vanadium-iron protein delta chain (From Topology)	H: Nitrogenase vanadium-iron protein delta chain (From Topology)	T: Nitrogenase vanadium-iron protein delta chain	F: F_UNCLASSIFIED	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF00148	Nitrogenase component 1 type Oxidoreductase (Oxidored_nitro)	Nitrogenase component 1 type Oxidoreductase		Domain
B, E	PF00148	Nitrogenase component 1 type Oxidoreductase (Oxidored_nitro)	Nitrogenase component 1 type Oxidoreductase		Domain
C, F	PF03139	Vanadium/alternative nitrogenase delta subunit (AnfG_VnfG)	Vanadium/alternative nitrogenase delta subunit	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	Nitrogenase vanadium-iron protein alpha chain	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding iron-sulfur cluster binding metal cluster binding vanadium ion binding cation binding transition metal ion binding metal ion binding oxidoreductase activity nitrogenase activity oxidoreductase activity, acting on iron-sulfur proteins as donors catalytic activity oxidoreductase activity, acting on iron-sulfur proteins as donors, dinitrogen as acceptor	nitrogen cycle metabolic process metabolic process cellular process nitrogen fixation	-
B, E	Nitrogenase vanadium-iron protein beta chain	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding iron-sulfur cluster binding metal cluster binding cation binding metal ion binding oxidoreductase activity nitrogenase activity oxidoreductase activity, acting on iron-sulfur proteins as donors catalytic activity oxidoreductase activity, acting on iron-sulfur proteins as donors, dinitrogen as acceptor	nitrogen cycle metabolic process metabolic process cellular process nitrogen fixation	protein-containing complex catalytic complex nitrogenase complex vanadium-iron nitrogenase complex oxidoreductase complex intracellular protein-containing complex
C, F	Nitrogenase vanadium-iron protein delta chain	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding iron-sulfur cluster binding metal cluster binding cation binding metal ion binding oxidoreductase activity nitrogenase activity oxidoreductase activity, acting on iron-sulfur proteins as donors catalytic activity oxidoreductase activity, acting on iron-sulfur proteins as donors, dinitrogen as acceptor	nitrogen cycle metabolic process metabolic process cellular process nitrogen fixation	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR000510	Nitrogenase/oxidoreductase, component 1	Domain
A, D	IPR010142	Nitrogenase vanadium-iron protein, alpha chain	Family
A, D	IPR000318	Nitrogenase component 1, conserved site	Conserved Site
A, D	IPR010143	Nitrogenase component 1, alpha chain	Family
A, D	IPR005974	Nitrogenase alpha chain	Family
B, E	IPR000510	Nitrogenase/oxidoreductase, component 1	Domain
B, E	IPR000318	Nitrogenase component 1, conserved site	Conserved Site
B, E	IPR050152	ChlB/BchB/BchZ	Family
B, E	IPR014281	Nitrogenase vanadium-iron protein beta chain	Family
C, F	IPR014279	Nitrogenase vanadium-iron, delta subunit	Family
C, F	IPR004349	Vanadium/alternative nitrogenase delta subunit	Family

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.