7Q5Y

Structure of NADH:ubichinon oxidoreductase (complex I) of the hyperthermophilic eubacterium Aquifex aeolicus

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)
E	SCOP2B Superfamily	Thioredoxin-like	8098206	3000031	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Thioredoxin-like	8098206	3000031	SCOP2B (2022-06-29)
Q	SCOP2B Superfamily	Thioredoxin-like	8098206	3000031	SCOP2B (2022-06-29)
W	SCOP2B Superfamily	Thioredoxin-like	8098206	3000031	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)
C	PF10589	e7q5yC1	A: alpha bundles	X: Bromodomain-like	H: Nqo1C-terminal domain-like (From Topology)	T: Nqo1C-terminal domain-like	F: PF10589	ECOD (1.6)
C	PF10531	e7q5yC2	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Nqo1 middle domain-like	F: PF10531	ECOD (1.6)
C	PF01512	e7q5yC3	A: a/b three-layered sandwiches	X: Nqo1 FMN-binding domain-like (From Topology)	H: Nqo1 FMN-binding domain-like (From Topology)	T: Nqo1 FMN-binding domain-like	F: PF01512	ECOD (1.6)
I	PF10589	e7q5yI2	A: alpha bundles	X: Bromodomain-like	H: Nqo1C-terminal domain-like (From Topology)	T: Nqo1C-terminal domain-like	F: PF10589	ECOD (1.6)
I	PF10531	e7q5yI3	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Nqo1 middle domain-like	F: PF10531	ECOD (1.6)
I	PF01512	e7q5yI1	A: a/b three-layered sandwiches	X: Nqo1 FMN-binding domain-like (From Topology)	H: Nqo1 FMN-binding domain-like (From Topology)	T: Nqo1 FMN-binding domain-like	F: PF01512	ECOD (1.6)
O	PF10589	e7q5yO2	A: alpha bundles	X: Bromodomain-like	H: Nqo1C-terminal domain-like (From Topology)	T: Nqo1C-terminal domain-like	F: PF10589	ECOD (1.6)
O	PF10531	e7q5yO3	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Nqo1 middle domain-like	F: PF10531	ECOD (1.6)
O	PF01512	e7q5yO1	A: a/b three-layered sandwiches	X: Nqo1 FMN-binding domain-like (From Topology)	H: Nqo1 FMN-binding domain-like (From Topology)	T: Nqo1 FMN-binding domain-like	F: PF01512	ECOD (1.6)
U	PF10589	e7q5yU1	A: alpha bundles	X: Bromodomain-like	H: Nqo1C-terminal domain-like (From Topology)	T: Nqo1C-terminal domain-like	F: PF10589	ECOD (1.6)
U	PF10531	e7q5yU3	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Nqo1 middle domain-like	F: PF10531	ECOD (1.6)
U	PF01512	e7q5yU2	A: a/b three-layered sandwiches	X: Nqo1 FMN-binding domain-like (From Topology)	H: Nqo1 FMN-binding domain-like (From Topology)	T: Nqo1 FMN-binding domain-like	F: PF01512	ECOD (1.6)
E	PF01257	e7q5yE1	A: alpha bundles	X: NQO2 helical bundle domain (From Topology)	H: NQO2 helical bundle domain (From Topology)	T: NQO2 helical bundle domain	F: PF01257	ECOD (1.6)
E	PF01257	e7q5yE2	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: PF01257	ECOD (1.6)
K	PF01257	e7q5yK1	A: alpha bundles	X: NQO2 helical bundle domain (From Topology)	H: NQO2 helical bundle domain (From Topology)	T: NQO2 helical bundle domain	F: PF01257	ECOD (1.6)
K	PF01257	e7q5yK2	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: PF01257	ECOD (1.6)
Q	PF01257	e7q5yQ1	A: alpha bundles	X: NQO2 helical bundle domain (From Topology)	H: NQO2 helical bundle domain (From Topology)	T: NQO2 helical bundle domain	F: PF01257	ECOD (1.6)
Q	PF01257	e7q5yQ2	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: PF01257	ECOD (1.6)
W	PF01257	e7q5yW1	A: alpha bundles	X: NQO2 helical bundle domain (From Topology)	H: NQO2 helical bundle domain (From Topology)	T: NQO2 helical bundle domain	F: PF01257	ECOD (1.6)
W	PF01257	e7q5yW2	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: PF01257	ECOD (1.6)
F	PF01058	e7q5yF1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: PF01058	ECOD (1.6)
L	PF01058	e7q5yL1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: PF01058	ECOD (1.6)
R	PF01058	e7q5yR1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: PF01058	ECOD (1.6)
X	PF01058	e7q5yX1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: PF01058	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, H, N, T	PF00329	Respiratory-chain NADH dehydrogenase, 30 Kd subunit (Complex1_30kDa)	Respiratory-chain NADH dehydrogenase, 30 Kd subunit	-	Family
B, H, N, T	PF00346	Respiratory-chain NADH dehydrogenase, 49 Kd subunit (Complex1_49kDa)	Respiratory-chain NADH dehydrogenase, 49 Kd subunit	-	Family
C, I, O, U	PF10531	SLBB domain (SLBB)	SLBB domain	-	Domain
C, I, O, U	PF01512	Respiratory-chain NADH dehydrogenase 51 Kd subunit (Complex1_51K)	Respiratory-chain NADH dehydrogenase 51 Kd subunit	-	Family
C, I, O, U	PF10589	NADH-ubiquinone oxidoreductase-F iron-sulfur binding region (NADH_4Fe-4S)	NADH-ubiquinone oxidoreductase-F iron-sulfur binding region	-	Domain
D, J, P, V	PF12800	4Fe-4S binding domain (Fer4_4)	4Fe-4S binding domain	This 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
D, J, P, V	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
E, K, Q, W	PF01257	Thioredoxin-like [2Fe-2S] ferredoxin (2Fe-2S_thioredx)	Thioredoxin-like [2Fe-2S] ferredoxin	-	Family
F, L, R, X	PF01058	NADH ubiquinone oxidoreductase, 20 Kd subunit (Oxidored_q6)	NADH ubiquinone oxidoreductase, 20 Kd subunit	-	Family
A, G, M, S	PF04879	Molybdopterin oxidoreductase Fe4S4 domain (Molybdop_Fe4S4)	Molybdopterin oxidoreductase Fe4S4 domain	This domain is found in formate dehydrogenase H for which the structure is known. This first domain (residues 1 to 60) of PDB:1aa6 is an Fe4S4 cluster just below the protein surface [1].	Domain
A, G, M, S	PF00111	2Fe-2S iron-sulfur cluster binding domain (Fer2)	2Fe-2S iron-sulfur cluster binding domain	-	Domain
A, G, M, S	PF10588	NADH-ubiquinone oxidoreductase-G iron-sulfur binding region (NADH-G_4Fe-4S_3)	NADH-ubiquinone oxidoreductase-G iron-sulfur binding region	-	Domain
A, G, M, S	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
B, H, N, T	NADH-quinone oxidoreductase subunit C/D 2	NAD binding binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor NAD binding binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding adenyl nucleotide binding nucleotide binding heterocyclic compound binding small molecule binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity quinone binding	-	cell periphery plasma membrane membrane cellular anatomical entity protein-containing complex catalytic complex membrane protein complex oxidoreductase complex NADH dehydrogenase complex
C, I, O, U	NADH-quinone oxidoreductase subunit F	binding nucleotide binding FMN binding nucleoside phosphate binding ion binding organic cyclic compound binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding binding nucleotide binding FMN binding nucleoside phosphate binding ion binding organic cyclic compound binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding cation binding metal ion binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity quinone binding	-	-
D, J, P, V	NADH-quinone oxidoreductase subunit I	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding oxidoreductase activity NADH:ubiquinone reductase (non-electrogenic) activity oxidoreductase activity, acting on NAD(P)H catalytic activity iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding oxidoreductase activity NADH:ubiquinone reductase (non-electrogenic) activity oxidoreductase activity, acting on NAD(P)H catalytic activity oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor NADH dehydrogenase activity quinone binding	-	cell periphery plasma membrane membrane cellular anatomical entity
E, K, Q, W	NADH-quinone oxidoreductase subunit E	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 quinone binding	-	respiratory chain complex protein-containing complex catalytic complex plasma membrane protein complex plasma membrane respirasome membrane plasma membrane membrane protein complex cellular anatomical entity transporter complex NADH dehydrogenase complex cell periphery transmembrane transporter complex respiratory chain complex I respiratory chain complex protein-containing complex catalytic complex plasma membrane protein complex plasma membrane respirasome membrane plasma membrane membrane protein complex cellular anatomical entity transporter complex NADH dehydrogenase complex cell periphery transmembrane transporter complex respiratory chain complex I respirasome oxidoreductase complex plasma membrane respiratory chain complex I
F, L, R, X	NADH-quinone oxidoreductase subunit B	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity oxidoreductase activity, acting on NAD(P)H iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity quinone binding	electron transport coupled proton transport transport proton transmembrane transport monoatomic ion transmembrane transport inorganic ion transmembrane transport establishment of localization inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization energy coupled proton transmembrane transport, against electrochemical gradient monoatomic ion transport cellular process monoatomic cation transport electron transport coupled proton transport transport proton transmembrane transport monoatomic ion transmembrane transport inorganic ion transmembrane transport establishment of localization inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization energy coupled proton transmembrane transport, against electrochemical gradient monoatomic ion transport cellular process monoatomic cation transport aerobic respiration cellular respiration energy derivation by oxidation of organic compounds cellular metabolic process metabolic process generation of precursor metabolites and energy	respiratory chain complex protein-containing complex catalytic complex plasma membrane protein complex plasma membrane respirasome membrane plasma membrane membrane protein complex cellular anatomical entity transporter complex NADH dehydrogenase complex cell periphery transmembrane transporter complex respiratory chain complex I respiratory chain complex protein-containing complex catalytic complex plasma membrane protein complex plasma membrane respirasome membrane plasma membrane membrane protein complex cellular anatomical entity transporter complex NADH dehydrogenase complex cell periphery transmembrane transporter complex respiratory chain complex I respirasome oxidoreductase complex plasma membrane respiratory chain complex I
A, G, M, S	NADH dehydrogenase I chain G	monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, quinone or similar compound as acceptor electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreductase activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity inorganic molecular entity transmembrane transporter activity inorganic cation transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity catalytic activity cation binding transition metal ion binding molybdenum ion binding ion binding binding metal ion binding small molecule binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding	aerobic respiration cellular respiration oxidative phosphorylation energy derivation by oxidation of organic compounds cellular metabolic process ATP synthesis coupled electron transport electron transport chain generation of precursor metabolites and energy respiratory electron transport chain metabolic process cellular process anaerobic respiration	membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, H, N, T	IPR037232	NADH:ubiquinone oxidoreductase, 30kDa subunit superfamily	Homologous Superfamily
B, H, N, T	IPR022885	NAD(P)H-quinone oxidoreductase subunit D/H	Family
B, H, N, T	IPR001268	NADH:ubiquinone oxidoreductase, 30kDa subunit	Domain
B, H, N, T	IPR029014	[NiFe]-hydrogenase, large subunit	Homologous Superfamily
B, H, N, T	IPR001135	NADH-quinone oxidoreductase, subunit D	Domain
B, H, N, T	IPR026662	NADH-quinone oxidoreductase subunit CD	Family
C, I, O, U	IPR019575	NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain	Domain
C, I, O, U	IPR001949	NADH:ubiquinone oxidoreductase, 51kDa subunit, conserved site	Conserved Site
C, I, O, U	IPR019554	Soluble ligand binding domain	Domain
C, I, O, U	IPR037225	NADH-ubiquinone oxidoreductase 51kDa subunit, FMN-binding domain superfamily	Homologous Superfamily
C, I, O, U	IPR037207	NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain superfamily	Homologous Superfamily
C, I, O, U	IPR011538	NADH-ubiquinone oxidoreductase 51kDa subunit, FMN-binding domain	Domain
D, J, P, V	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
D, J, P, V	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
D, J, P, V	IPR010226	NADH-quinone oxidoreductase, chain I	Family
E, K, Q, W	IPR042128	NuoE domain	Domain
E, K, Q, W	IPR002023	NADH-quinone oxidoreductase subunit E-like	Family
E, K, Q, W	IPR041921	NADH-quinone oxidoreductase subunit E, N-terminal	Homologous Superfamily
E, K, Q, W	IPR036249	Thioredoxin-like superfamily	Homologous Superfamily
F, L, R, X	IPR006138	NADH-ubiquinone oxidoreductase, 20 Kd subunit	Family
F, L, R, X	IPR006137	NADH:ubiquinone oxidoreductase-like, 20kDa subunit	Domain
A, G, M, S	IPR006963	Molybdopterin oxidoreductase, 4Fe-4S domain	Domain
A, G, M, S	IPR036010	2Fe-2S ferredoxin-like superfamily	Homologous Superfamily
A, G, M, S	IPR001041	2Fe-2S ferredoxin-type iron-sulfur binding domain	Domain
A, G, M, S	IPR000283	NADH:ubiquinone oxidoreductase, 75kDa subunit, conserved site	Conserved Site
A, G, M, S	IPR017900	4Fe-4S ferredoxin, iron-sulphur binding, conserved site	Conserved Site
A, G, M, S	IPR017896	4Fe-4S ferredoxin-type, iron-sulphur binding domain	Domain
A, G, M, S	IPR019574	NADH:ubiquinone oxidoreductase, subunit G, iron-sulphur binding	Domain