1GNL | pdb_00001gnl

Hybrid Cluster Protein from Desulfovibrio desulfuricans X-ray structure at 1.25A resolution using synchrotron radiation at a wavelength of 0.933A

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d1gnlb_	Multi-domain proteins (alpha and beta)	Prismane protein-like	Prismane protein-like	Hybrid cluster protein (prismane protein)	Hybrid cluster protein (prismane protein)	(Desulfovibrio desulfuricans ) [TaxId: 876 ],	SCOPe (2.08)
A	d1gnla_	Multi-domain proteins (alpha and beta)	Prismane protein-like	Prismane protein-like	Hybrid cluster protein (prismane protein)	Hybrid cluster protein (prismane protein)	(Desulfovibrio desulfuricans ) [TaxId: 876 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Prismane protein N-terminal helical bundle-like	8055604	3002294	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Prismane protein cluster-binding domain-like	8033906	3001926	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Prismane protein cluster-binding domain-like	8055603	3001926	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Prismane protein N-terminal helical bundle-like	8055605	3002294	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Prismane protein cluster-binding domain-like	8055603	3001926	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Prismane protein N-terminal helical bundle-like	8055604	3002294	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Prismane protein cluster-binding domain-like	8033906	3001926	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Prismane protein N-terminal helical bundle-like	8055605	3002294	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)
B	TFR_dimer	e1gnlB1	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Flavivirus capsid protein C	T: Flavivirus capsid protein C	F: TFR_dimer	ECOD (v294.1)
B	ACS_CODH_B_C	e1gnlB3	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: ACS_CODH_B_C	ECOD (v294.1)
B	RecU	e1gnlB4	A: a/b three-layered sandwiches	X: HTH	H: HTH	T: winged helix domain	F: RecU	ECOD (v294.1)
A	Prismane	e1gnlA1	A: alpha bundles	X: Helical bundle domain in prismane-like proteins	H: Helical bundle domain in prismane-like proteins	T: Helical bundle domain in prismane-like proteins	F: Prismane	ECOD (v294.1)
A	Prismane	e1gnlA4	A: a/b three-layered sandwiches	X: Rossmann-like domain in prismane-like proteins	H: Rossmann-like domain in prismane-like proteins	T: Rossmann-like domain in prismane-like proteins	F: Prismane	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.20.1270.20	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
B	3.40.50.2030	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	1.20.1270.20	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
A	3.40.50.2030	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	HYBRID CLUSTER PROTEIN	hydroxylamine reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding peroxidase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor cation binding ion binding hydroxylamine reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding peroxidase activity antioxidant activity oxidoreductase activity, acting on peroxide as acceptor cation binding ion binding metal ion binding	response to hydrogen peroxide response to oxidative stress response to stimulus response to stress response to chemical response to oxygen-containing compound response to reactive oxygen species	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR016099	Prismane-like, alpha/beta-sandwich	Homologous Superfamily
A, B	IPR016100	Prismane, alpha-bundle	Homologous Superfamily
A, B	IPR010048	Hydroxylamine reductase	Family
A, B	IPR004137	Hydroxylamine reductase/Ni-containing CO dehydrogenase	Family
A, B	IPR011254	Prismane-like 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.