1HCM | pdb_00001hcm

Cytochrome cd1 Nitrite Reductase, oxidised from from tetragonal crystals

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	d1hcmb1	All alpha proteins	Cytochrome c	Cytochrome c	N-terminal (heme c) domain of cytochrome cd1-nitrite reductase	N-terminal (heme c) domain of cytochrome cd1-nitrite reductase	(Paracoccus pantotrophus ) [TaxId: 82367 ],	SCOPe (2.08)
B	d1hcmb2	All beta proteins	8-bladed beta-propeller	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	(Paracoccus pantotrophus ) [TaxId: 82367 ],	SCOPe (2.08)
A	d1hcma1	All alpha proteins	Cytochrome c	Cytochrome c	N-terminal (heme c) domain of cytochrome cd1-nitrite reductase	N-terminal (heme c) domain of cytochrome cd1-nitrite reductase	(Paracoccus pantotrophus ) [TaxId: 82367 ],	SCOPe (2.08)
A	d1hcma2	All beta proteins	8-bladed beta-propeller	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	(Paracoccus pantotrophus ) [TaxId: 82367 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	8042236	3001509	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase	8042236	3001509	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		e1hcmB3	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)
A		e1hcmA3	A: DEATH domain	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T:	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (4.3.0)
B	2.140.10.20	Mainly Beta	8 Propeller	Methanol Dehydrogenase	Chain A	CATH (4.3.0)
A	1.10.760.10	Mainly Alpha	Orthogonal Bundle	Cytochrome Bc1 Complex	Chain D, domain 2	CATH (4.3.0)
A	2.140.10.20	Mainly Beta	8 Propeller	Methanol Dehydrogenase	Chain A	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	CYTOCHROME CD1 NITRITE REDUCTASE	hydroxylamine reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors catalytic activity binding tetrapyrrole binding heme binding oxidoreductase activity, acting on other nitrogenous compounds as donors, cytochrome as acceptor nitrite reductase (NO-forming) activity nitrite reductase activity electron transfer activity cation binding ion binding metal ion binding hydroxylamine reductase activity oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors catalytic activity binding tetrapyrrole binding heme binding oxidoreductase activity, acting on other nitrogenous compounds as donors, cytochrome as acceptor nitrite reductase (NO-forming) activity nitrite reductase activity electron transfer activity cation binding ion binding metal ion binding small molecule binding	-	cellular anatomical structure periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR036909	Cytochrome c-like domain superfamily	Homologous Superfamily
A, B	IPR011048	Cytochrome cd1-nitrite reductase-like, haem d1 domain superfamily	Homologous Superfamily
A, B	IPR009056	Cytochrome c-like domain	Domain
A, B	IPR003143	Cytochrome cd1-nitrite reductase, C-terminal domain 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.