8WD9 | pdb_00008wd9

Cryo-EM structure of Mycobacterium tuberculosis DppABCD in apo form

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: PDBTM

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
D [auth A]	PF00496	Bacterial extracellular solute-binding proteins, family 5 Middle (SBP_bac_5)	Bacterial extracellular solute-binding proteins, family 5 Middle	The borders of this family are based on the PDBSum definitions of the domain edges for Swiss:P06202.	Domain
C [auth D]	PF08352	Oligopeptide/dipeptide transporter, C-terminal region (oligo_HPY)	Oligopeptide/dipeptide transporter, C-terminal region	-	Family
C [auth D]	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
B [auth C]	PF00528	Binding-protein-dependent transport system inner membrane component (BPD_transp_1)	Binding-protein-dependent transport system inner membrane component	-	Family
A [auth B]	PF00528	Binding-protein-dependent transport system inner membrane component (BPD_transp_1)	Binding-protein-dependent transport system inner membrane component	-	Family
A [auth B]	PF19300	Binding-prot-dependent transport system membrane comp, N-term (BPD_transp_1_N)	Binding-prot-dependent transport system membrane comp, N-term	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth A]	Probable periplasmic dipeptide-binding lipoprotein DppA	peptide transmembrane transporter activity transporter activity transmembrane transporter activity	peptide transport localization nitrogen compound transport amide transport transport establishment of localization	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex transporter complex ATP-binding cassette (ABC) transporter complex cell periphery cellular anatomical structure transmembrane transporter complex periplasmic space
C [auth D]	Probable dipeptide-transport ATP-binding protein ABC transporter DppD	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 transporter activity transmembrane transporter activity	peptide transport localization nitrogen compound transport amide transport transport establishment of localization	cell periphery cellular anatomical structure plasma membrane membrane
B [auth C]	Probable dipeptide-transport integral membrane protein ABC transporter DppC	transporter activity transmembrane transporter activity	-	cell periphery cellular anatomical structure plasma membrane membrane
A [auth B]	Probable dipeptide-transport integral membrane protein ABC transporter DppB	transporter activity transmembrane transporter activity	-	cell periphery cellular anatomical structure plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
D [auth A]	IPR000914	Solute-binding protein family 5 domain	Domain
D [auth A]	IPR039424	Solute-binding protein family 5	Family
D [auth A]	IPR030678	Peptide/nickel binding protein, MppA-type	Family
C [auth D]	IPR050388	ABC Transporter, Nickel and Peptide Import	Family
C [auth D]	IPR003593	AAA+ ATPase domain	Domain
C [auth D]	IPR017871	ABC transporter-like, conserved site	Conserved Site
C [auth D]	IPR013563	Oligopeptide/dipeptide ABC transporter, C-terminal	Domain
C [auth D]	IPR003439	ABC transporter-like, ATP-binding domain	Domain
C [auth D]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
B [auth C]	IPR050366	Binding-protein-dependent transport system permease	Family
B [auth C]	IPR000515	ABC transporter type 1, transmembrane domain MetI-like	Domain
B [auth C]	IPR035906	MetI-like superfamily	Homologous Superfamily
A [auth B]	IPR000515	ABC transporter type 1, transmembrane domain MetI-like	Domain
A [auth B]	IPR035906	MetI-like superfamily	Homologous Superfamily
A [auth B]	IPR045621	ABC transporter type 1, GsiC-like, N-terminal domain	Domain

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

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.