Annotations: 6ZK9

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A [auth 1]	d6zk913	All alpha proteins	Bromodomain-like	Nqo1C-terminal domain-like	automated matches	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
A [auth 1]	d6zk911	Alpha and beta proteins (a/b)	Nqo1 FMN-binding domain-like	Nqo1 FMN-binding domain-like	automated matches	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
A [auth 1]	d6zk912	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	Nqo1 middle domain-like	automated matches	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
D [auth 4]	d6zk94_	Multi-domain proteins (alpha and beta)	HydB/Nqo4-like	HydB/Nqo4-like	automated matches	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
N [auth g]	d6zk9g_	Membrane and cell surface proteins and peptides	LYR proteins from mammalian respiratory complex I	LYR protein-like	LYR proteins	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)
Q [auth j]	d6zk9j_	All alpha proteins	Acyl carrier protein-like	ACP-like	automated matches	automated matches	(Ovis aries ) [TaxId: 9940 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth 2]	SCOP2B Superfamily	Thioredoxin-like	8100908	3000031	SCOP2B (2022-06-29)
J [auth c]	SCOP2B Superfamily	NADH-ubiquinone oxidoreductase-like	8053980	3002258	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)
A [auth 1]	PF10589	e6zk913	A: alpha bundles	X: Bromodomain-like	H: Nqo1C-terminal domain-like (From Topology)	T: Nqo1C-terminal domain-like	F: PF10589	ECOD (1.6)
A [auth 1]	PF22461	e6zk911	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Nqo1 middle domain-like	F: PF22461	ECOD (1.6)
A [auth 1]	PF01512	e6zk912	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)
B [auth 2]	PF01257	e6zk922	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)
B [auth 2]	PF01257	e6zk921	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: PF01257	ECOD (1.6)
D [auth 4]	PF00346	e6zk942	A: alpha complex topology	X: alpha-helical domain in nickel-iron hydrogenase, large subunit (From Topology)	H: alpha-helical domain in nickel-iron hydrogenase, large subunit (From Topology)	T: alpha-helical domain in nickel-iron hydrogenase, large subunit	F: PF00346	ECOD (1.6)
D [auth 4]	PF00346	e6zk943	A: a+b two layers	X: FAD-linked reductases, C-terminal domain-like	H: Ni-Fe binding domain in nickel-iron hydrogenase large subunit (From Topology)	T: Ni-Fe binding domain in nickel-iron hydrogenase large subunit	F: PF00346	ECOD (1.6)
E [auth 5]	PF00329	e6zk951	A: a+b two layers	X: Nqo5-like	H: Nqo5-like (From Topology)	T: Nqo5-like	F: PF00329	ECOD (1.6)
F [auth 6]	PF01058	e6zk961	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: PF01058	ECOD (1.6)
G [auth 9]	PF00037	e6zk991	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: PF00037	ECOD (1.6)
J [auth c]	PF04800	e6zk9c1	A: a+b two layers	X: Putative oxidoreductase (From Topology)	H: Putative oxidoreductase (From Topology)	T: Putative oxidoreductase	F: PF04800	ECOD (1.6)
K [auth d]	PF01370	e6zk9d1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: PF01370	ECOD (1.6)
M [auth f]	PF04716	e6zk9f1	A: extended segments	X: FATC domain (From Topology)	H: FATC domain (From Topology)	T: FATC domain	F: PF04716	ECOD (1.6)
N [auth g]	PF05347	e6zk9g1	A: alpha bundles	X: LYR protein (From Topology)	H: LYR protein (From Topology)	T: LYR protein	F: PF05347	ECOD (1.6)
Q [auth j]	PF00550	e6zk9j1	A: alpha bundles	X: ACP-like	H: Acyl-carrier protein (ACP) (From Topology)	T: Acyl-carrier protein (ACP)	F: PF00550	ECOD (1.6)
L [auth e]	PF05047	e6zk9e1	A: a+b three layers	X: Thioredoxin-like	H: Thioredoxin-like (From Topology)	T: Thioredoxin-like	F: PF05047	ECOD (1.6)
P [auth i]	PF05071	e6zk9i1	A: a+b three layers	X: Mitochondrial complex I, B17.2 subunit (From Topology)	H: Mitochondrial complex I, B17.2 subunit (From Topology)	T: Mitochondrial complex I, B17.2 subunit	F: PF05071	ECOD (1.6)
C [auth 3]	PF22117	e6zk932	A: a+b two layers	X: 4Fe-4S ferredoxin (From Topology)	H: 4Fe-4S ferredoxin (From Topology)	T: 4Fe-4S ferredoxin	F: PF22117	ECOD (1.6)
C [auth 3]	PF13510	e6zk935	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF13510	ECOD (1.6)
C [auth 3]	PF22151	e6zk934	A: a+b two layers	X: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)	H: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)	T: Formate dehydrogenase/DMSO reductase, domain 1	F: PF22151	ECOD (1.6)
C [auth 3]	PF00384	e6zk936	A: a/b three-layered sandwiches	X: Rossmann-like	H: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)	T: Formate dehydrogenase/DMSO reductase, domains 2 and 3	F: PF00384	ECOD (1.6)
C [auth 3]	PF00384,PF09326	e6zk931	A: a/b three-layered sandwiches	X: Rossmann-like	H: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)	T: Formate dehydrogenase/DMSO reductase, domains 2 and 3	F: PF00384,PF09326	ECOD (1.6)
C [auth 3]	PF10588	e6zk933	A: extended segments	X: iron-sulfur center-binding helical hairpin (From Topology)	H: iron-sulfur center-binding helical hairpin (From Topology)	T: iron-sulfur center-binding helical hairpin	F: PF10588	ECOD (1.6)
I [auth b]	PF10276	e6zk9b1	A: few secondary structure elements	X: Rubredoxin-like	H: Rubredoxin-related	T: Cytochrome c oxidase Subunit F	F: PF10276	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth 1]	PF10531	SLBB domain (SLBB)	SLBB domain	-	Domain
A [auth 1]	PF01512	Respiratory-chain NADH dehydrogenase 51 Kd subunit (Complex1_51K)	Respiratory-chain NADH dehydrogenase 51 Kd subunit	-	Family
A [auth 1]	PF10589	NADH-ubiquinone oxidoreductase-F iron-sulfur binding region (NADH_4Fe-4S)	NADH-ubiquinone oxidoreductase-F iron-sulfur binding region	-	Domain
B [auth 2]	PF01257	Thioredoxin-like [2Fe-2S] ferredoxin (2Fe-2S_thioredx)	Thioredoxin-like [2Fe-2S] ferredoxin	-	Family
E [auth 5]	PF00329	Respiratory-chain NADH dehydrogenase, 30 Kd subunit (Complex1_30kDa)	Respiratory-chain NADH dehydrogenase, 30 Kd subunit	-	Family
J [auth c]	PF04800	NADH dehydrogenase ubiquinone Fe-S protein 4 (NDUS4)	NADH dehydrogenase ubiquinone Fe-S protein 4	-	Family
N [auth g]	PF13233	Complex1_LYR-like (Complex1_LYR_2)	Complex1_LYR-like	-	Family
O [auth h]	PF07347	NADH:ubiquinone oxidoreductase subunit B14.5a (Complex I-B14.5a) (CI-B14_5a)	NADH:ubiquinone oxidoreductase subunit B14.5a (Complex I-B14.5a)	-	Family
Q [auth j]	PF00550	Phosphopantetheine attachment site (PP-binding)	Phosphopantetheine attachment site	A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes memb ...	A 4'-phosphopantetheine prosthetic group is attached through a serine. This prosthetic group acts as a a 'swinging arm' for the attachment of activated fatty acid and amino-acid groups. This domain forms a four helix bundle. This family includes members not included in Prosite. The inclusion of these members is supported by sequence analysis and functional evidence. The related domain of Swiss:P19828 has the attachment serine replaced by an alanine.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 1]	NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial	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 electron transfer activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity 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 electron transfer activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity primary active transmembrane transporter activity transporter activity transmembrane transporter activity NAD binding purine nucleotide binding adenyl nucleotide binding iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding cation binding metal ion binding	-	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm organelle membrane respiratory chain complex protein-containing complex catalytic complex membrane protein complex transporter complex NADH dehydrogenase complex transmembrane transporter complex respiratory chain complex I respirasome oxidoreductase complex
B [auth 2]	Mitochondrial complex I, 24 kDa subunit	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	-	-
D [auth 4]	Mitochondrial complex I, 49 kDa subunit	-	-	-
E [auth 5]	NADH:ubiquinone oxidoreductase core subunit S3	electron transfer activity NADH dehydrogenase (ubiquinone) activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity primary active transmembrane transporter activity transporter activity transmembrane transporter activity	-	-
F [auth 6]	Mitochondrial complex I, PSST subunit	-	-	-
G [auth 9]	Mitochondrial complex I, TYKY subunit	-	-	-
H [auth a]	Mitochondrial complex I, 10 kDa subunit	-	-	-
J [auth c]	NADH dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial	-	cellular metabolic process electron transport chain metabolic process cellular process generation of precursor metabolites and energy	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm organelle membrane respirasome
K [auth d]	NADH:ubiquinone oxidoreductase subunit A9	-	-	-
M [auth f]	Mitochondrial complex I, B13 subunit	-	-	-
N [auth g]	NADH:ubiquinone oxidoreductase subunit A6	-	protein-containing complex organization NADH dehydrogenase complex assembly cellular component organization cellular component biogenesis organelle organization cellular component assembly mitochondrial respiratory chain complex assembly protein-containing complex assembly cellular process cellular component organization or biogenesis mitochondrial respiratory chain complex I assembly mitochondrion organization response to oxidative stress response to stimulus protein-containing complex organization NADH dehydrogenase complex assembly cellular component organization cellular component biogenesis organelle organization cellular component assembly mitochondrial respiratory chain complex assembly protein-containing complex assembly cellular process cellular component organization or biogenesis mitochondrial respiratory chain complex I assembly mitochondrion organization response to oxidative stress response to stimulus response to stress	membrane-bounded organelle respiratory chain complex mitochondrial respiratory chain complex I protein-containing complex mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion mitochondrial respirasome membrane protein complex transporter complex NADH dehydrogenase complex intracellular organelle organelle envelope membrane-bounded organelle respiratory chain complex mitochondrial respiratory chain complex I protein-containing complex mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion mitochondrial respirasome membrane protein complex transporter complex NADH dehydrogenase complex intracellular organelle organelle envelope oxidoreductase complex mitochondrial protein-containing complex catalytic complex membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane inner mitochondrial membrane protein complex transmembrane transporter complex respiratory chain complex I mitochondrial envelope organelle respirasome cytoplasm organelle membrane
O [auth h]	Mitochondrial complex I, B14.5a subunit	-	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	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm membrane-bounded organelle mitochondrial membrane intracellular anatomical structure organelle inner membrane mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle mitochondrial inner membrane intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm organelle membrane
Q [auth j]	Acyl carrier protein	-	fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process cellular metabolic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid biosynthetic process organic acid metabolic process fatty acid biosynthetic process carboxylic acid biosynthetic process organic substance metabolic process biosynthetic process fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process oxoacid metabolic process cellular biosynthetic process cellular metabolic process carboxylic acid metabolic process lipid biosynthetic process primary metabolic process organic acid biosynthetic process organic acid metabolic process fatty acid biosynthetic process carboxylic acid biosynthetic process organic substance metabolic process biosynthetic process organic substance biosynthetic process cellular lipid metabolic process small molecule metabolic process metabolic process cellular process monocarboxylic acid metabolic process lipid metabolic process	-
R [auth q]	Mitochondrial complex I, B16.6 subunit	-	-	-
L [auth e]	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2	-	-	-
P [auth i]	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12	-	-	-
C [auth 3]	NADH:ubiquinone oxidoreductase core subunit S1	-	-	-
I [auth b]	Mitochondrial complex I, 13 kDa subunit	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth 1]	IPR019575	NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain	Domain
A [auth 1]	IPR019554	Soluble ligand binding domain	Domain
A [auth 1]	IPR011537	NADH ubiquinone oxidoreductase, F subunit	Family
A [auth 1]	IPR001949	NADH:ubiquinone oxidoreductase, 51kDa subunit, conserved site	Conserved Site
A [auth 1]	IPR037225	NADH-ubiquinone oxidoreductase 51kDa subunit, FMN-binding domain superfamily	Homologous Superfamily
A [auth 1]	IPR037207	NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain superfamily	Homologous Superfamily
A [auth 1]	IPR011538	NADH-ubiquinone oxidoreductase 51kDa subunit, FMN-binding domain	Domain
B [auth 2]	IPR042128	NuoE domain	Domain
B [auth 2]	IPR002023	NADH-quinone oxidoreductase subunit E-like	Family
B [auth 2]	IPR041921	NADH-quinone oxidoreductase subunit E, N-terminal	Homologous Superfamily
B [auth 2]	IPR036249	Thioredoxin-like superfamily	Homologous Superfamily
E [auth 5]	IPR037232	NADH:ubiquinone oxidoreductase, 30kDa subunit superfamily	Homologous Superfamily
E [auth 5]	IPR001268	NADH:ubiquinone oxidoreductase, 30kDa subunit	Domain
E [auth 5]	IPR020396	NADH:ubiquinone oxidoreductase, 30kDa subunit, conserved site	Conserved Site
E [auth 5]	IPR010218	NADH dehydrogenase, subunit C	Family
J [auth c]	IPR038532	NADH dehydrogenase ubiquinone Fe-S protein 4-like superfamily	Homologous Superfamily
J [auth c]	IPR006885	NADH dehydrogenase ubiquinone Fe-S protein 4 mitochondrial-like	Family
N [auth g]	IPR016488	NADH dehydrogenase [ubiquinone] (complex I), alpha subcomplex, subunit 6	Family
N [auth g]	IPR045299	NDUFA6, LYR domain	Domain
O [auth h]	IPR009947	NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7	Family
Q [auth j]	IPR006162	Phosphopantetheine attachment site	PTM
Q [auth j]	IPR009081	Phosphopantetheine binding ACP domain	Domain
Q [auth j]	IPR036736	ACP-like superfamily	Homologous Superfamily
Q [auth j]	IPR003231	Acyl carrier protein	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth 1], J [auth c], N [auth g], O [auth h]	OPM	Transmembrane	Alpha-helical polytopic	Electron transport chain complex I (NADH dehydrogenase) and supercomplexes	H+ or Na+ translocating NADH dehydrogenase

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth 1], J [auth c], N [auth g], O [auth h]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Electron Transport Chain Complexes: Complex I	Mitochondrial Complex I: native complex, closed

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
D [auth 4]	2MR	Parent Component: ARG RESID: AA0067 PSI-MOD : symmetric dimethyl-L-arginine MOD:00076
O [auth h]	AYA	Parent Component: ALA RESID: AA0067