5XU1 | pdb_00005xu1

Structure of a non-canonical ABC transporter from Streptococcus pneumoniae R6

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD
Membrane Protein Annotation: mpstruc

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	ABC transporter-like P-loop ATPases	8061064	3002020	SCOP2B (2022-06-29)
A	SCOP2 Family	ABC transporter ATPase domain-like	8061063	4003976	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ABC transporter-like P-loop ATPases	8061064	3002020	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)
D [auth S]	MacB_PCD	e5xu1S2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: MacB_PCD	ECOD (1.6)
D [auth S]	UNK_F_TYPE	e5xu1S3	A: alpha bundles	X: Type II ABC exporter transmembrane domain fold	H: Type II ABC exporter transmembrane domain-related	T: MacB transmembrane domain	F: UNK_F_TYPE	ECOD (1.6)
D [auth S]	UNK_F_TYPE	e5xu1S1	A: a+b two layers	X: Alpha-beta plaits	H: ferredoxin-like domain in periplasmic region of MacB (From Topology)	T: ferredoxin-like domain in periplasmic region of MacB	F: UNK_F_TYPE	ECOD (1.6)
C [auth M]	MacB_PCD	e5xu1M2	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: MacB_PCD	ECOD (1.6)
C [auth M]	UNK_F_TYPE	e5xu1M3	A: alpha bundles	X: Type II ABC exporter transmembrane domain fold	H: Type II ABC exporter transmembrane domain-related	T: MacB transmembrane domain	F: UNK_F_TYPE	ECOD (1.6)
C [auth M]	UNK_F_TYPE	e5xu1M1	A: a+b two layers	X: Alpha-beta plaits	H: ferredoxin-like domain in periplasmic region of MacB (From Topology)	T: ferredoxin-like domain in periplasmic region of MacB	F: UNK_F_TYPE	ECOD (1.6)
B	ABC_tran	e5xu1B1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: ABC_tran	ECOD (1.6)
A	ABC_tran	e5xu1A1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: ABC_tran	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth M], D [auth S]	PF12704	MacB-like periplasmic core domain (MacB_PCD)	MacB-like periplasmic core domain	This family represents the periplasmic core domain found in a variety of ABC transporters. The structure of this family has been solved for the MacB protein [1]. Some structural similarity was found to the periplasmic domain of the AcrB multidrug eff ...	This family represents the periplasmic core domain found in a variety of ABC transporters. The structure of this family has been solved for the MacB protein [1]. Some structural similarity was found to the periplasmic domain of the AcrB multidrug efflux transporter.	Domain
C [auth M], D [auth S]	PF02687	FtsX-like permease C-terminal (FtsX)	FtsX-like permease C-terminal	This entry represents the C-terminal helices found in members of the ABC type 3 transporter family of permeases, including Cell division protein FtsX from Gram-negative and Gram-positive bacteria [1], Permease protein MacB [2], Lipoprotein-releasing ...	This entry represents the C-terminal helices found in members of the ABC type 3 transporter family of permeases, including Cell division protein FtsX from Gram-negative and Gram-positive bacteria [1], Permease protein MacB [2], Lipoprotein-releasing system transmembrane protein LolC (Swiss:P57382) which has been shown to transport lipids targeted to the outer membrane across the inner membrane [3]. This region contains three transmembrane helices.	Domain
A, B	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
C [auth M], D [auth S]	ABC transporter permeae	transporter activity transmembrane transporter activity	-	cell periphery cellular anatomical structure plasma membrane membrane
A, B	ABC transporter ATP-binding protein	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 cation binding metal ion binding	amino acid transport localization transport establishment of localization	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth M], D [auth S]	IPR050250	Macrolide Exporter MacB	Family
C [auth M], D [auth S]	IPR003838	ABC3 transporter permease, C-terminal	Domain
C [auth M], D [auth S]	IPR025857	MacB-like periplasmic core domain	Domain
A, B	IPR003593	AAA+ ATPase domain	Domain
A, B	IPR017871	ABC transporter-like, conserved site	Conserved Site
A, B	IPR017911	MacB-like, ATP-binding domain	Domain
A, B	IPR003439	ABC transporter-like, ATP-binding domain	Domain
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
C [auth M], D [auth S]	OPM	Transmembrane	Alpha-helical polytopic	ABC transporters	FtsX-like permease

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
C [auth M], D [auth S]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	ATP Binding Cassette (ABC) Transporters	MacAB-like efflux pump, Spr0694-0695 section

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.