4TQU

Crystal structure of a bacterial ABC transporter involved in the import of the acidic polysaccharide alginate

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)
D [auth Q]	SCOP2B Superfamily	Type 2 solute binding protein-like	8032259	3000083	SCOP2B (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 M]	BPD_transp_1	e4tquM1	A: alpha bundles	X: Type II ABC exporter transmembrane domain fold	H: Type I ABC importer transmembrane domain fold (From Topology)	T: Type I ABC importer transmembrane domain fold	F: BPD_transp_1	ECOD (1.6)
B [auth N]	BPD_transp_1	e4tquN1	A: alpha bundles	X: Type II ABC exporter transmembrane domain fold	H: Type I ABC importer transmembrane domain fold (From Topology)	T: Type I ABC importer transmembrane domain fold	F: BPD_transp_1	ECOD (1.6)
C [auth S]	PRK11000	e4tquS3	A: beta barrels	X: OB-fold	H: MOP-like (From Topology)	T: MOP-like	F: PRK11000	ECOD (1.6)
C [auth S]	TOBE_1	e4tquS1	A: beta barrels	X: OB-fold	H: MOP-like (From Topology)	T: MOP-like	F: TOBE_1	ECOD (1.6)
C [auth S]	PRK11000,ABC_tran	e4tquS2	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK11000,ABC_tran	ECOD (1.6)
E [auth T]	PRK11000	e4tquT2	A: beta barrels	X: OB-fold	H: MOP-like (From Topology)	T: MOP-like	F: PRK11000	ECOD (1.6)
E [auth T]	TOBE_1	e4tquT3	A: beta barrels	X: OB-fold	H: MOP-like (From Topology)	T: MOP-like	F: TOBE_1	ECOD (1.6)
E [auth T]	PRK11000,ABC_tran	e4tquT1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PRK11000,ABC_tran	ECOD (1.6)
D [auth Q]	SBP_bac_1_N	e4tquQ2	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: SBP_bac_1_N	ECOD (1.6)
D [auth Q]	SBP_bac_1_C_3	e4tquQ1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II (From Topology)	H: Periplasmic binding protein-like II (From Topology)	T: Periplasmic binding protein-like II	F: SBP_bac_1_C_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth M]	1.10.3720.10	Mainly Alpha	Orthogonal Bundle	MetI-like fold	MetI-like	CATH (4.3.0)
B [auth N]	1.10.3720.10	Mainly Alpha	Orthogonal Bundle	MetI-like fold	MetI-like	CATH (4.3.0)
C [auth S]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C [auth S]	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.3.0)
C [auth S]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
E [auth T]	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
E [auth T]	2.40.50.100	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain	CATH (4.3.0)
E [auth T]	2.40.50.140	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	Nucleic acid-binding proteins	CATH (4.3.0)
D [auth Q]	3.40.190.10	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth M]	PF00528	Binding-protein-dependent transport system inner membrane component (BPD_transp_1)	Binding-protein-dependent transport system inner membrane component	-	Family
B [auth N]	PF00528	Binding-protein-dependent transport system inner membrane component (BPD_transp_1)	Binding-protein-dependent transport system inner membrane component	-	Family
C [auth S], E [auth T]	PF17912	MalK OB fold domain (OB_MalK)	MalK OB fold domain	This entry corresponds to one of two OB-fold domains found in the MalK transport protein.	Domain
C [auth S], E [auth T]	PF03459	TOBE domain (TOBE)	TOBE domain	The TOBE domain [1] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. Probably involved in the recognition of small ligands such as molybdenum (eg Swiss:P46930) and sulfate (Swiss: ...	The TOBE domain [1] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. Probably involved in the recognition of small ligands such as molybdenum (eg Swiss:P46930) and sulfate (Swiss:P16676). Found in ABC transporters immediately after the ATPase domain.	Domain
C [auth S], E [auth T]	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
D [auth Q]	PF13416	Bacterial extracellular solute-binding protein (SBP_bac_8)	Bacterial extracellular solute-binding protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth M]	AlgM1	-	transmembrane transport localization transport cellular process establishment of localization	cell periphery plasma membrane membrane cellular anatomical entity
B [auth N]	AlgM2	-	transmembrane transport localization transport cellular process establishment of localization	cell periphery plasma membrane membrane cellular anatomical entity
C [auth S], E [auth T]	AlgS	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound 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	localization transport organic substance transport carbohydrate transport establishment of localization	ATPase dependent transmembrane transport complex protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex cellular anatomical entity transporter complex ATP-binding cassette (ABC) transporter complex cell periphery transmembrane transporter complex
D [auth Q]	AlgQ2	cation binding ion binding binding metal ion binding small molecule binding	-	periplasmic space cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth M]	IPR000515	ABC transporter type 1, transmembrane domain MetI-like	Domain
A [auth M]	IPR035906	MetI-like superfamily	Homologous Superfamily
B [auth N]	IPR000515	ABC transporter type 1, transmembrane domain MetI-like	Domain
B [auth N]	IPR035906	MetI-like superfamily	Homologous Superfamily
C [auth S], E [auth T]	IPR017871	ABC transporter-like, conserved site	Conserved Site
C [auth S], E [auth T]	IPR047641	ABC transporter, ATP-binding protein MalK/UgpC-like	Family
C [auth S], E [auth T]	IPR003439	ABC transporter-like, ATP-binding domain	Domain
C [auth S], E [auth T]	IPR003593	AAA+ ATPase domain	Domain
C [auth S], E [auth T]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
C [auth S], E [auth T]	IPR008995	Molybdate/tungstate binding, C-terminal	Homologous Superfamily
C [auth S], E [auth T]	IPR015855	ABC transporter, maltose/maltodextrin import, MalK-like	Domain
C [auth S], E [auth T]	IPR040582	MalK-like, OB fold domain	Domain
C [auth S], E [auth T]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth S], E [auth T]	IPR005116	Transport-associated OB, type 1	Domain
D [auth Q]	IPR006059	Bacterial-type extracellular solute-binding protein	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A [auth M], B [auth N], D [auth Q]	OPM	Transmembrane	Alpha-helical polytopic	ABC transporters	Binding-protein-dependent transport system

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A [auth M], B [auth N], D [auth Q]	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	ATP Binding Cassette (ABC) Transporters	Alginate transporter AlgM1M2SS with bound periplasmic protein AlgQ2

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.