7NP8 | pdb_00007np8

Crystal structure of the Coenzyme F420-dependent sulfite reductase from Methanocaldococcus jannaschii at 2.3-A resolution

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	FrhB_FdhB_C	e7np8D1	A: alpha arrays	X: F420-reducing hydrogenase subunit beta (From Topology)	H: F420-reducing hydrogenase subunit beta (From Topology)	T: F420-reducing hydrogenase subunit beta	F: FrhB_FdhB_C	ECOD (1.6)
D	Fer4_21_1	e7np8D4	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_21_1	ECOD (1.6)
D	NIR_SIR_ferr	e7np8D3	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
D	NIR_SIR,Fer4_21_1	e7np8D2	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR,Fer4_21_1	ECOD (1.6)
C	FrhB_FdhB_C	e7np8C1	A: alpha arrays	X: F420-reducing hydrogenase subunit beta (From Topology)	H: F420-reducing hydrogenase subunit beta (From Topology)	T: F420-reducing hydrogenase subunit beta	F: FrhB_FdhB_C	ECOD (1.6)
C	Fer4_21_1	e7np8C4	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_21_1	ECOD (1.6)
C	NIR_SIR_ferr	e7np8C3	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
C	NIR_SIR,Fer4_21_1	e7np8C2	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR,Fer4_21_1	ECOD (1.6)
B	FrhB_FdhB_C	e7np8B1	A: alpha arrays	X: F420-reducing hydrogenase subunit beta (From Topology)	H: F420-reducing hydrogenase subunit beta (From Topology)	T: F420-reducing hydrogenase subunit beta	F: FrhB_FdhB_C	ECOD (1.6)
B	Fer4_21_1	e7np8B5	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_21_1	ECOD (1.6)
B	NIR_SIR_ferr	e7np8B3	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
B	NIR_SIR	e7np8B2	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR	ECOD (1.6)
A	FrhB_FdhB_C	e7np8A1	A: alpha arrays	X: F420-reducing hydrogenase subunit beta (From Topology)	H: F420-reducing hydrogenase subunit beta (From Topology)	T: F420-reducing hydrogenase subunit beta	F: FrhB_FdhB_C	ECOD (1.6)
A	Fer4_21_1	e7np8A4	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: Fer4_21_1	ECOD (1.6)
A	NIR_SIR_ferr	e7np8A3	A: a+b two layers	X: Alpha-beta plaits	H: Sulfite reductase, domains 1 and 3 (From Topology)	T: Sulfite reductase, domains 1 and 3	F: NIR_SIR_ferr	ECOD (1.6)
A	NIR_SIR,Fer4_21_1	e7np8A2	A: a+b three layers	X: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	H: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4 (From Topology)	T: Sulfite reductase hemoprotein (SiRHP), domains 2 and 4	F: NIR_SIR,Fer4_21_1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF03460	Nitrite/Sulfite reductase ferredoxin-like half domain (NIR_SIR_ferr)	Nitrite/Sulfite reductase ferredoxin-like half domain	-	Repeat
A, B, C, D	PF01077	Nitrite and sulphite reductase 4Fe-4S domain (NIR_SIR)	Nitrite and sulphite reductase 4Fe-4S domain	-	Family
A, B, C, D	PF04422	Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term (FrhB_FdhB_N)	Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term	-	Family
A, B, C, D	PF04432	Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus (FrhB_FdhB_C)	Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus	Coenzyme F420 hydrogenase (EC:1.12.99.1) reduces the low-potential two-electron acceptor coenzyme F420. This family contains the C termini of F420 hydrogenase and dehydrogenase beta subunits [1], [2]. The N terminus of Methanobacterium formicicum fo ...	Coenzyme F420 hydrogenase (EC:1.12.99.1) reduces the low-potential two-electron acceptor coenzyme F420. This family contains the C termini of F420 hydrogenase and dehydrogenase beta subunits [1], [2]. The N terminus of Methanobacterium formicicum formate dehydrogenase beta chain (EC:1.2.1.2, Swiss:P06130) is also a member of this family [3]. This region is often found in association with the 4Fe-4S binding domain, fer4 (Pfam:PF00037).	Domain
A, B, C, D	PF00037	4Fe-4S binding domain (Fer4)	4Fe-4S binding domain	Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Coenzyme F420-dependent sulfite reductase	binding tetrapyrrole binding heme binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding oxidoreductase activity, acting on CH or CH2 groups, with an iron-sulfur protein as acceptor oxidoreductase activity oxidoreductase activity, acting on CH or CH2 groups catalytic activity cation binding ion binding metal ion binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR005117	Nitrite/Sulfite reductase ferredoxin-like domain	Domain
A, B, C, D	IPR045220	Oxidoreductase FRHB/FDHB/HCAR-like	Family
A, B, C, D	IPR007516	Coenzyme F420 hydrogenase/dehydrogenase beta subunit, N-terminal	Domain
A, B, C, D	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
A, B, C, D	IPR006067	Nitrite/sulphite reductase 4Fe-4S domain	Domain
A, B, C, D	IPR006066	Nitrite/sulphite reductase iron-sulphur/sirohaem-binding site	Binding Site
A, B, C, D	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
A, B, C, D	IPR045854	Nitrite and sulphite reductase 4Fe-4S domain-like superfamily	Homologous Superfamily
A, B, C, D	IPR036136	Nitrite/Sulfite reductase ferredoxin-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR007525	Coenzyme F420 hydrogenase/dehydrogenase beta subunit, C-terminal	Domain

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.