7QBA | pdb_00007qba

CryoEM structure of the ABC transporter NosDFY complexed with nitrous oxide reductase NosZ

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
G [auth I]	Beta-lactamase2	e7qbaI1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Beta-lactamase2	ECOD (v294.1)
F [auth H]	Beta-lactamase2	e7qbaH1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Beta-lactamase2	ECOD (v294.1)
E	Beta-lactamase2	e7qbaE1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Beta-lactamase2	ECOD (v294.1)
D	Beta-lactamase2	e7qbaD1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Beta-lactamase2	ECOD (v294.1)
B		e7qbaB01	A: a/b three-layered sandwiches	X: Rossmann-like	H: all-alpha NTP pyrophosphatases	T: Hypothetical protein AF_0060	F:	ECOD (v294.1)
A	Beta-lactamase2	e7qbaA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Beta-lactamase2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F [auth H], G [auth I]	Nitrous-oxide reductase	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity cation binding ion binding binding calcium ion binding metal ion binding small molecule binding monoatomic cation transmembrane transporter activity proton transmembrane transporter activity primary active transmembrane transporter activity cytochrome-c oxidase activity electron transfer activity active monoatomic ion transmembrane transporter activity oxidoreduction-driven active transmembrane transporter activity active transmembrane transporter activity monoatomic ion transmembrane transporter activity transporter activity transmembrane transporter activity transition metal ion binding copper ion binding oxidoreductase activity, acting on other nitrogenous compounds as donors, cytochrome as acceptor oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors nitrous-oxide reductase activity catalytic activity	localization transport copper ion import copper ion transport transition metal ion transport monoatomic ion transport monoatomic cation transport establishment of localization metal ion transport nitrogen cycle metabolic process denitrification pathway metabolic process cellular process	cellular anatomical structure membrane periplasmic space
D, E	Probable ABC transporter permease protein NosY	ABC-type transporter activity active transmembrane transporter activity primary active transmembrane transporter activity ATPase-coupled transmembrane transporter activity transporter activity transmembrane transporter activity ATP-dependent activity	-	cell periphery cellular anatomical structure plasma membrane membrane
B, C	Probable ABC transporter ATP-binding protein NosF	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity	-	cell periphery cellular anatomical structure plasma membrane membrane
A	Probable ABC transporter binding protein NosD	-	-	cellular anatomical structure periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F [auth H], G [auth I]	IPR011045	Nitrous oxide reductase, N-terminal	Homologous Superfamily
F [auth H], G [auth I]	IPR023644	Nitrous-oxide reductase	Family
F [auth H], G [auth I]	IPR006311	Twin-arginine translocation pathway, signal sequence	Conserved Site
F [auth H], G [auth I]	IPR041142	Nitrous oxide reductase, propeller repeat 2	Repeat
F [auth H], G [auth I]	IPR034205	Nitrous-oxide reductase, C-terminal	Domain
F [auth H], G [auth I]	IPR041114	Nitrous oxide reductase, propeller repeat 1	Repeat
F [auth H], G [auth I]	IPR002429	Cytochrome c oxidase subunit II-like C-terminal	Domain
F [auth H], G [auth I]	IPR008972	Cupredoxin	Homologous Superfamily
F [auth H], G [auth I]	IPR001505	Copper centre Cu(A)	Binding Site
F [auth H], G [auth I]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
F [auth H], G [auth I]	IPR019546	Twin-arginine translocation pathway, signal sequence, bacterial/archaeal	Conserved Site
F [auth H], G [auth I]	IPR051403	NosZ/Cytochrome c oxidase subunit 2	Family
B, C	IPR051782	ABC Transporter Superfamily, Various Functions	Family
B, C	IPR003593	AAA+ ATPase domain	Domain
B, C	IPR017871	ABC transporter-like, conserved site	Conserved Site
B, C	IPR003439	ABC transporter-like, ATP-binding domain	Domain
B, C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR026464	Nitrous oxide reductase family maturation protein NosD	Family
A	IPR006626	Parallel beta-helix repeat	Repeat
A	IPR012334	Pectin lyase fold	Homologous Superfamily
A	IPR007742	Periplasmic copper-binding protein NosD-like, beta helix domain	Domain
A	IPR006633	Carbohydrate-binding/sugar hydrolysis domain	Domain
A	IPR022441	Parallel beta-helix repeat-2	Repeat
A	IPR011050	Pectin lyase fold/virulence factor	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D, E A, B, C, D, E, F [auth H], G [auth I]	OPM	Transmembrane	Alpha-helical polytopic	ABC transporters	Gliding motility ABC transporters

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D, E A, B, C, D, E, F [auth H], G [auth I]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B, C, D, E A, B, C, D, E, F [auth H], G [auth I]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	ATP Binding Cassette (ABC) Transporters	NosDFY (NosF mutant E154Q) ABC transporter complexed with nitrous oxide reductase NosZ, NosZDF^E154QY, in DDM