8IPQ | pdb_00008ipq

Cryo-EM structure of heme transporter CydDC from Mycobacterium smegmatis in the inward facing apo state

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Cullin_AB	e8ipqD1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (develop294)
B [auth A]	Cullin_AB	e8ipqA1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (develop294)
C	Cullin_AB	e8ipqC1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (develop294)
A [auth B]	Cullin_AB	e8ipqB1	A: alpha bundles	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Cullin_AB	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.20.1560.10	Mainly Alpha	Up-down Bundle	ABC transporter transmembrane region fold	ABC transporter type 1, transmembrane domain	CATH (utative)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
B [auth A]	1.20.1560.10	Mainly Alpha	Up-down Bundle	ABC transporter transmembrane region fold	ABC transporter type 1, transmembrane domain	CATH (utative)
B [auth A]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
C	1.20.1560.10	Mainly Alpha	Up-down Bundle	ABC transporter transmembrane region fold	ABC transporter type 1, transmembrane domain	CATH (utative)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)
A [auth B]	1.20.1560.10	Mainly Alpha	Up-down Bundle	ABC transporter transmembrane region fold	ABC transporter type 1, transmembrane domain	CATH (utative)
A [auth B]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], C	PF00664	ABC transporter transmembrane region (ABC_membrane)	ABC transporter transmembrane region	-	Family
A [auth B], C	PF00005	ABC transporter (ABC_tran)	ABC transporter	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are comp ...	ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain Pfam:PF00664. These four domains may belong to a single polypeptide as in Swiss:P13569, or belong in different polypeptide chains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth A], D	Component linked with the assembly of cytochrome' ABC transporter ATP-binding protein CydC	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 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 lipid transporter activity lipid transmembrane transporter activity ATPase-coupled lipid transmembrane transporter activity 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	-	cell periphery cellular anatomical structure plasma membrane membrane
A [auth B], C	Transmembrane ATP-binding protein ABC transporter cydD	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 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 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	nitrogen compound transport organic anion transport carboxylic acid transport transport neutral amino acid transport establishment of localization organic cation transport amino acid transport organic acid transport localization sulfur amino acid transport cysteine transport sulfur compound transport	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth A], D	IPR036640	ABC transporter type 1, transmembrane domain superfamily	Homologous Superfamily
B [auth A], D	IPR003593	AAA+ ATPase domain	Domain
B [auth A], D	IPR017871	ABC transporter-like, conserved site	Conserved Site
B [auth A], D	IPR011527	ABC transporter type 1, transmembrane domain	Domain
B [auth A], D	IPR039421	Type 1 protein exporter	Family
B [auth A], D	IPR003439	ABC transporter-like, ATP-binding domain	Domain
B [auth A], D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A [auth B], C	IPR017871	ABC transporter-like, conserved site	Conserved Site
A [auth B], C	IPR003439	ABC transporter-like, ATP-binding domain	Domain
A [auth B], C	IPR036640	ABC transporter type 1, transmembrane domain superfamily	Homologous Superfamily
A [auth B], C	IPR003593	AAA+ ATPase domain	Domain
A [auth B], C	IPR011527	ABC transporter type 1, transmembrane domain	Domain
A [auth B], C	IPR039421	Type 1 protein exporter	Family
A [auth B], C	IPR014216	ABC transporter, CydDC cysteine exporter (CydDC-E) family, permease/ATP-binding protein CydD	Family
A [auth B], C	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A [auth B], B [auth A], C, D	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A [auth B], B [auth A], C, D	MemProtMD	Annotated as membrane protein by MemProtMD

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

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