5ODH | pdb_00005odh

Heterodisulfide reductase / [NiFe]-hydrogenase complex from Methanothermococcus thermolithotrophicus soaked with heterodisulfide for 3.5 minutes

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)
L	d5odhl_	Multi-domain proteins (alpha and beta)	HydB/Nqo4-like	HydB/Nqo4-like	automated matches	automated matches	(Methanothermococcus thermolithotrophicus DSM 2095 ) [TaxId: 523845 ],	SCOPe (2.08)
F	d5odhf_	Multi-domain proteins (alpha and beta)	HydB/Nqo4-like	HydB/Nqo4-like	automated matches	automated matches	(Methanothermococcus thermolithotrophicus DSM 2095 ) [TaxId: 523845 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L	SCOP2B Superfamily	HydB/Nqo4-like	8096642	3001849	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	HydB/Nqo4-like	8096642	3001849	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	FATC	e5odhH1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: FATC	ECOD (v294.1)
B	FATC	e5odhB1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: FATC	ECOD (v294.1)
L	Histone	e5odhL4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Histone	ECOD (v294.1)
L	L_protein_N	e5odhL2	A: a/b three-layered sandwiches	X: Family A G protein-coupled receptor-like	H: beta-sandwich domain in metalloprotease stcE	T: Restriction endonuclease-like	F: L_protein_N	ECOD (v294.1)
F	Histone	e5odhF4	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Histone	ECOD (v294.1)
F	L_protein_N	e5odhF1	A: a/b three-layered sandwiches	X: Family A G protein-coupled receptor-like	H: beta-sandwich domain in metalloprotease stcE	T: Restriction endonuclease-like	F: L_protein_N	ECOD (v294.1)
K	FATC	e5odhK1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: FATC	ECOD (v294.1)
E	FATC	e5odhE1	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: FATC	ECOD (v294.1)
J	BPA_C	e5odhJ1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Ferredoxin domains in multidrug efflux transporter	T: Multidrug efflux transporter AcrB pore domain	F: BPA_C	ECOD (v294.1)
D	BPA_C	e5odhD1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Ferredoxin domains in multidrug efflux transporter	T: Multidrug efflux transporter AcrB pore domain	F: BPA_C	ECOD (v294.1)
I	BPA_C	e5odhI1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Ferredoxin domains in multidrug efflux transporter	T: Multidrug efflux transporter AcrB pore domain	F: BPA_C	ECOD (v294.1)
C	BPA_C	e5odhC1	A: a/b three-layered sandwiches	X: Phosphorylase/hydrolase-like	H: Ferredoxin domains in multidrug efflux transporter	T: Multidrug efflux transporter AcrB pore domain	F: BPA_C	ECOD (v294.1)
G	Histone	e5odhG1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Histone	ECOD (v294.1)
A	Histone	e5odhA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Histone	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	1.20.1050.140	Mainly Alpha	Up-down Bundle	Glutathione S-transferase Yfyf (Class Pi)	Chain A, domain 2	CATH (utative)
K	3.40.50.700	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NADH:ubiquinone oxidoreductase-like, 20kDa subunit	CATH (utative)
E	3.40.50.700	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NADH:ubiquinone oxidoreductase-like, 20kDa subunit	CATH (utative)
G	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (utative)
A	3.30.70.20	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, H	Heterodisulfide reductase, subunit B	oxidoreductase activity, acting on a sulfur group of donors CoB--CoM heterodisulfide reductase activity oxidoreductase activity catalytic activity	cellular respiration energy derivation by oxidation of organic compounds alkane biosynthetic process methane metabolic process generation of precursor metabolites and energy hydrocarbon metabolic process biosynthetic process energy derivation by oxidation of reduced inorganic compounds methanogenesis metabolic process cellular process hydrocarbon biosynthetic process anaerobic respiration	-
F, L	Methyl-viologen reducing hydrogenase, subunit A	hydrogenase (acceptor) activity oxidoreductase activity oxidoreductase activity, acting on hydrogen as donor catalytic activity cation binding transition metal ion binding ion binding binding nickel cation binding metal ion binding small molecule binding oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor ferredoxin hydrogenase activity hydrogen dehydrogenase activity hydrogenase (acceptor) activity oxidoreductase activity oxidoreductase activity, acting on hydrogen as donor catalytic activity cation binding transition metal ion binding ion binding binding nickel cation binding metal ion binding small molecule binding oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor ferredoxin hydrogenase activity hydrogen dehydrogenase activity oxidoreductase activity, acting on hydrogen as donor, NAD or NADP as acceptor	-	-
E, K	Methyl-viologen reducing hydrogenase, subunit G	hydrogenase (acceptor) activity oxidoreductase activity oxidoreductase activity, acting on hydrogen as donor catalytic activity hydrogen dehydrogenase activity oxidoreductase activity, acting on hydrogen as donor, NAD or NADP as acceptor iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	-	-
D, J	Methyl-viologen reducing hydrogenase, subunit D	oxidoreductase activity, acting on a sulfur group of donors CoB--CoM heterodisulfide reductase activity oxidoreductase activity catalytic activity iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	-	-
C, I	Heterodisulfide reductase, subunit C	oxidoreductase activity, acting on a sulfur group of donors CoB--CoM heterodisulfide reductase activity oxidoreductase activity catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	cellular respiration energy derivation by oxidation of organic compounds alkane biosynthetic process methane metabolic process generation of precursor metabolites and energy hydrocarbon metabolic process biosynthetic process energy derivation by oxidation of reduced inorganic compounds methanogenesis metabolic process cellular process hydrocarbon biosynthetic process anaerobic respiration	cell periphery cellular anatomical structure plasma membrane membrane
A, G	Heterodisulfide reductase, subunit A	oxidoreductase activity catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding cation binding ion binding metal ion binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, H	IPR004017	Cysteine-rich domain	Domain
B, H	IPR017678	CoB--CoM heterodisulphide reductase, subunit B	Family
B, H	IPR051278	CoM-S-S-CoB heterodisulfide reductase	Family
F, L	IPR001501	Nickel-dependent hydrogenase, large subunit	Family
F, L	IPR029014	[NiFe]-hydrogenase, large subunit	Homologous Superfamily
F, L	IPR018194	Nickel-dependent hydrogenase, large subunit, nickel binding site	Binding Site
E, K	IPR051349	Hydrogenase complex-associated protein	Family
E, K	IPR037024	[NiFe]-hydrogenase, small subunit, N-terminal domain superfamily	Homologous Superfamily
E, K	IPR006137	NADH:ubiquinone oxidoreductase-like, 20kDa subunit	Domain
D, J	IPR003813	F420-non-reducing hydrogenase iron-sulfur subunit D	Domain
C, I	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
C, I	IPR051460	HdrC_iron-sulfur_subunit	Unknown
C, I	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
C, I	IPR017680	CoB--CoM heterodisulphide reductase, subunit C	Family
C, I	IPR009051	Alpha-helical ferredoxin	Homologous Superfamily
A, G	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
A, G	IPR003953	FAD-dependent oxidoreductase 2, FAD-binding domain	Domain
A, G	IPR039650	H(2):CoB-CoM heterodisulfide,ferredoxin reductase subunit A-like	Family
A, G	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
A, G	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily