Annotations: 7MDI

Structure of the Neisseria gonorrhoeae ribonucleotide reductase in the inactive state

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)
H	SCOP2 Family	Ribonucleotide reductase-like	8106303	4000846	SCOP2 (2022-06-29)
H	SCOP2 Superfamily	Ferritin-like	8106304	3001658	SCOP2 (2022-06-29)
F	SCOP2B Superfamily	Ferritin-like	8106304	3001658	SCOP2B (2022-06-29)
D [auth G]	SCOP2B Superfamily	Ferritin-like	8106304	3001658	SCOP2B (2022-06-29)
B [auth E]	SCOP2B Superfamily	Ferritin-like	8106304	3001658	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)
H	Secretin_N	e7mdiH1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)
F	Secretin_N	e7mdiF1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)
D [auth G]	Secretin_N	e7mdiG1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)
B [auth E]	Secretin_N	e7mdiE1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)
G [auth C]	Secretin_N	e7mdiC1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)
E [auth D]	Secretin_N	e7mdiD1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)
C [auth B]	Secretin_N	e7mdiB1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)
A	Secretin_N	e7mdiA1	A: beta barrels	X: Nuclear receptor ligand-binding domain	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Secretin_N	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth E], D [auth G], F, H	PF00268	Ribonucleotide reductase, small chain (Ribonuc_red_sm)	Ribonucleotide reductase, small chain		Domain
A, C [auth B], E [auth D], G [auth C]	PF02867	Ribonucleotide reductase, barrel domain (Ribonuc_red_lgC)	Ribonucleotide reductase, barrel domain	-	Family
A, C [auth B], E [auth D], G [auth C]	PF00317	Ribonucleotide reductase, all-alpha domain (Ribonuc_red_lgN)	Ribonucleotide reductase, all-alpha domain		Domain
A, C [auth B], E [auth D], G [auth C]	PF03477	ATP cone domain (ATP-cone)	ATP cone domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth E], D [auth G], F, H	Ribonucleoside-diphosphate reductase subunit beta	ribonucleoside-diphosphate reductase activity oxidoreductase activity oxidoreductase activity, acting on CH or CH2 groups oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor catalytic activity cation binding ion binding binding metal ion binding small molecule binding	deoxyribonucleotide biosynthetic process deoxyribonucleotide metabolic process biosynthetic process metabolic process cellular process	-
A, C [auth B], E [auth D], G [auth C]	Ribonucleoside-diphosphate reductase subunit alpha	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 ribonucleoside-diphosphate reductase activity oxidoreductase activity oxidoreductase activity, acting on CH or CH2 groups oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor catalytic activity	deoxyribonucleotide biosynthetic process deoxyribonucleotide metabolic process biosynthetic process metabolic process cellular process	protein-containing complex cellular anatomical structure intracellular anatomical structure catalytic complex oxidoreductase complex cytoplasm cytosol ribonucleoside-diphosphate reductase complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth E], D [auth G], F, H	IPR009078	Ferritin-like superfamily	Homologous Superfamily
B [auth E], D [auth G], F, H	IPR000358	Ribonucleotide reductase small subunit family	Family
B [auth E], D [auth G], F, H	IPR030475	Ribonucleotide reductase small subunit, acitve site	Active Site
B [auth E], D [auth G], F, H	IPR033909	Ribonucleotide reductase small subunit	Family
B [auth E], D [auth G], F, H	IPR012348	Ribonucleotide reductase-like	Homologous Superfamily
A, C [auth B], E [auth D], G [auth C]	IPR008926	Ribonucleotide reductase R1 subunit, N-terminal	Homologous Superfamily
A, C [auth B], E [auth D], G [auth C]	IPR013509	Ribonucleotide reductase large subunit, N-terminal	Domain
A, C [auth B], E [auth D], G [auth C]	IPR013346	Ribonucleotide reductase, class I, alpha subunit, C-terminal	Domain
A, C [auth B], E [auth D], G [auth C]	IPR000788	Ribonucleotide reductase large subunit, C-terminal	Domain
A, C [auth B], E [auth D], G [auth C]	IPR039718	Ribonucleoside-diphosphate reductase large subunit	Family
A, C [auth B], E [auth D], G [auth C]	IPR005144	ATP-cone domain	Domain

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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.