4WZ7

Crystal structure of mitochondrial NADH:ubiquinone oxidoreductase from Yarrowia lipolytica.

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
N [auth K]	SCOP2B Superfamily	Nqo6/HydA N-terminal domain-like	8085725	3002291	SCOP2B (2022-06-29)
O [auth L]	SCOP2 Family	NADH-quinone oxidoreductase NDH subunit 11-like	8047737	4005793	SCOP2 (2022-06-29)
O [auth L]	SCOP2 Superfamily	NADH-quinone oxidoreductase, subunit 11-like	8053510	3002200	SCOP2 (2022-06-29)
F [auth 6]	SCOP2 Family	NADH-quinone oxidoreductase NDH subunit 10-like	8047845	4005844	SCOP2 (2022-06-29)
F [auth 6]	SCOP2 Superfamily	NADH-quinone oxidoreductase, subunit 11-like	8053517	3002200	SCOP2 (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]	NADHdh	e4wz711	A: alpha complex topology	X: Sodium/proton antiporter subunits-like (From Homology)	H: Sodium/proton antiporter subunits-like	T: NADH-quinone oxidoreductase subunit 8 (Nqo8)-related	F: NADHdh	ECOD (1.6)
K [auth G]	Complex1_30kDa	e4wz7G1	A: a+b two layers	X: Nqo5-like	H: Nqo5-like (From Topology)	T: Nqo5-like	F: Complex1_30kDa	ECOD (1.6)
M [auth I]	Fer4_21_1	e4wz7I1	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)
N [auth K]	Oxidored_q6	e4wz7K1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: Oxidored_q6	ECOD (1.6)
O [auth L]	Oxidored_q2	e4wz7L1	A: alpha complex topology	X: NADH-quinone oxidoreductase subunit K (From Topology)	H: NADH-quinone oxidoreductase subunit K (From Topology)	T: NADH-quinone oxidoreductase subunit K	F: Oxidored_q2	ECOD (1.6)
B [auth 2]	Proton_antipo_M	e4wz721	A: alpha complex topology	X: Sodium/proton antiporter subunits-like (From Homology)	H: Sodium/proton antiporter subunits-like	T: NADH-quinone oxidoreductase subunit L (NuoL)-related	F: Proton_antipo_M	ECOD (1.6)
C [auth 3]	Oxidored_q4	e4wz731	A: extended segments	X: NADH-quinone oxidoreductase subunit A (From Topology)	H: NADH-quinone oxidoreductase subunit A (From Topology)	T: NADH-quinone oxidoreductase subunit A	F: Oxidored_q4	ECOD (1.6)
D [auth 4]	Proton_antipo_M	e4wz741	A: alpha complex topology	X: Sodium/proton antiporter subunits-like (From Homology)	H: Sodium/proton antiporter subunits-like	T: NADH-quinone oxidoreductase subunit L (NuoL)-related	F: Proton_antipo_M	ECOD (1.6)
E [auth 5]	Proton_antipo_M	e4wz751	A: alpha complex topology	X: Sodium/proton antiporter subunits-like (From Homology)	H: Sodium/proton antiporter subunits-like	T: NADH-quinone oxidoreductase subunit L (NuoL)-related	F: Proton_antipo_M	ECOD (1.6)
F [auth 6]	Oxidored_q3	e4wz761	A: extended segments	X: NADH-quinone oxidoreductase subunit J (From Topology)	H: NADH-quinone oxidoreductase subunit J (From Topology)	T: NADH-quinone oxidoreductase subunit J	F: Oxidored_q3	ECOD (1.6)
H [auth B]	NADH_4Fe-4S	e4wz7B1	A: alpha bundles	X: Bromodomain-like	H: Nqo1C-terminal domain-like (From Topology)	T: Nqo1C-terminal domain-like	F: NADH_4Fe-4S	ECOD (1.6)
I [auth C]	Complex1_49kDa_1st	e4wz7C1	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: Complex1_49kDa_1st	ECOD (1.6)
I [auth C]	NuoD	e4wz7C2	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: NuoD	ECOD (1.6)
I [auth C]	Complex1_49kDa_2nd	e4wz7C3	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: Complex1_49kDa_2nd	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
N [auth K]	PF01058	NADH ubiquinone oxidoreductase, 20 Kd subunit (Oxidored_q6)	NADH ubiquinone oxidoreductase, 20 Kd subunit	-	Family
O [auth L]	PF00420	NADH-ubiquinone/plastoquinone oxidoreductase chain 4L (Oxidored_q2)	NADH-ubiquinone/plastoquinone oxidoreductase chain 4L	-	Family
F [auth 6]	PF00499	NADH-ubiquinone/plastoquinone oxidoreductase chain 6 (Oxidored_q3)	NADH-ubiquinone/plastoquinone oxidoreductase chain 6	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth 1]	NADH-ubiquinone oxidoreductase chain 1	-	-	-
J [auth E]	39-kDa subunit	-	-	-
K [auth G]	NUGM protein	-	-	-
L [auth H]	Subunit NUHM of protein NADH:Ubiquinone Oxidoreductase (Complex I)	-	-	-
M [auth I]	Subunit NUIM of protein NADH:Ubiquinone Oxidoreductase (Complex I)	-	-	-
N [auth K]	Subunit NUKM of protein NADH:Ubiquinone Oxidoreductase (Complex I)	iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation 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 iron-sulfur cluster binding binding 4 iron, 4 sulfur cluster binding metal cluster binding small molecule binding cation 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	-	-
O [auth L]	NADH-ubiquinone oxidoreductase chain 4L	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	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	-
P [auth Z], Q [auth D]	unknown subunits 1	-	-	-
R [auth F]	unknown subunits 2	-	-	-
S [auth J]	unknown subunits	-	-	-
T [auth M]	unknown subunits	-	-	-
B [auth 2]	NADH dehydrogenase subunit 2	-	-	-
U [auth N]	unknown subunits	-	-	-
V [auth O]	unknown subunits	-	-	-
W [auth P]	unknown subunits	-	-	-
X [auth Q]	unknown subunits	-	-	-
Y [auth R]	unknown subunits	-	-	-
Z [auth S]	unknown subunits	-	-	-
AA [auth T], NA [auth AH]	unknown subunits	-	-	-
BA [auth U]	unknown subunits	-	-	-
CA [auth V]	unknown subunits	-	-	-
DA [auth W], EB [auth AY], HA [auth AB], KB [auth BE]	unknown subunits	-	-	-
C [auth 3]	NADH-ubiquinone oxidoreductase chain 3	-	-	-
BB [auth AV], EA [auth X], NB [auth BH], PA [auth AJ]	unknown subunits	-	-	-
FA [auth Y], XA [auth AR], ZA [auth AT]	unknown subunits	-	-	-
CB [auth AW], GA [auth AA], HB [auth BB], MB [auth BG]	unknown subunits	-	-	-
IA [auth AC], JA [auth AD]	unknown subunits	-	-	-
KA [auth AE]	unknown subunits	-	-	-
LA [auth AF]	unknown subunits	-	-	-
MA [auth AG]	unknown subunits	-	-	-
OA [auth AI], RA [auth AL]	unknown subunits	-	-	-
QA [auth AK], TA [auth AN]	unknown subunits	-	-	-
SA [auth AM]	unknown subunits	-	-	-
D [auth 4]	NADH-ubiquinone oxidoreductase chain 4	-	-	-
UA [auth AO]	unknown subunits	-	-	-
VA [auth AP], YA [auth AS]	unknown subunits	-	-	-
GB [auth BA], WA [auth AQ]	unknown subunits	-	-	-
AB [auth AU]	unknown subunits	-	-	-
DB [auth AX]	unknown subunits	-	-	-
FB [auth AZ]	unknown subunits	-	-	-
IB [auth BC]	unknown subunits	-	-	-
JB [auth BD], LB [auth BF]	unknown subunits	-	-	-
OB [auth BI]	unknown subunits	-	-	-
E [auth 5]	NADH-ubiquinone oxidoreductase chain 5	-	-	-
F [auth 6]	NADH-ubiquinone oxidoreductase chain 6	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	-	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure mitochondrion membrane cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle organelle envelope mitochondrial envelope organelle cytoplasm organelle membrane
G [auth A]	NUAM protein	-	-	-
H [auth B]	NUBM protein	-	-	-
I [auth C]	NUCM protein	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
N [auth K]	IPR006138	NADH-ubiquinone oxidoreductase, 20 Kd subunit	Family
N [auth K]	IPR006137	NADH:ubiquinone oxidoreductase-like, 20kDa subunit	Domain
O [auth L]	IPR001133	NADH-ubiquinone oxidoreductase chain 4L/K	Family
O [auth L]	IPR039428	NADH-ubiquinone oxidoreductase chain 4L/Mnh complex subunit C1-like	Family
F [auth 6]	IPR042106	NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ	Homologous Superfamily
F [auth 6]	IPR001457	NADH:ubiquinone/plastoquinone oxidoreductase, chain 6	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
F [auth 6], O [auth L]	OPM	Transmembrane	Alpha-helical polytopic	Electron transport chain complex I (NADH dehydrogenase) and supercomplexes	H+ or Na+ translocating NADH dehydrogenase