3MA0 | pdb_00003ma0

Closed liganded crystal structure of xylose binding protein from Escherichia coli

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3ma0a1	Alpha and beta proteins (a/b)	Periplasmic binding protein-like I	Periplasmic binding protein-like I	automated matches	automated matches	(Escherichia coli str. K-12 substr. MG1655 ) [TaxId: 511145 ],	SCOPe (2.08)
A	d3ma0a2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Escherichia coli str. K-12 substr. MG1655 ) [TaxId: 511145 ],	SCOPe (2.08)
B	d3ma0b_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like I	Periplasmic binding protein-like I	automated matches	automated matches	(Escherichia coli str. K-12 substr. MG1655 ) [TaxId: 511145 ],	SCOPe (2.08)
C	d3ma0c_	Alpha and beta proteins (a/b)	Periplasmic binding protein-like I	Periplasmic binding protein-like I	automated matches	automated matches	(Escherichia coli str. K-12 substr. MG1655 ) [TaxId: 511145 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	L-arabinose binding protein-like	8098643	4000206	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Type 1 solute binding protein-like	8098644	3000125	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Type 1 solute binding protein-like	8098644	3000125	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Type 1 solute binding protein-like	8098644	3000125	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	BON	e3ma0A1	A: a/b three-layered sandwiches	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: BON	ECOD (v294.1)
B	BON	e3ma0B1	A: a/b three-layered sandwiches	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: BON	ECOD (v294.1)
C	BON	e3ma0C1	A: a/b three-layered sandwiches	X: amino-terminal domain of OmpATb	H: amino-terminal domain of OmpATb	T: amino-terminal domain of OmpATb	F: BON	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
B	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
C	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF13407	Periplasmic binding protein domain (Peripla_BP_4)	Periplasmic binding protein domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	D-xylose-binding periplasmic protein	binding carbohydrate binding monosaccharide binding small molecule binding	transmembrane transport localization pentose transmembrane transport transport D-ribose transmembrane transport carbohydrate transport cellular process monosaccharide transmembrane transport carbohydrate transmembrane transport establishment of localization D-xylose transmembrane transport monosaccharide metabolic process carbohydrate metabolic process small molecule metabolic process transmembrane transport localization pentose transmembrane transport transport D-ribose transmembrane transport carbohydrate transport cellular process monosaccharide transmembrane transport carbohydrate transmembrane transport establishment of localization D-xylose transmembrane transport monosaccharide metabolic process carbohydrate metabolic process small molecule metabolic process metabolic process primary metabolic process D-xylose metabolic process pentose metabolic process	ATPase dependent transmembrane transport complex ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing 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 extracellular region outer membrane-bounded periplasmic space ATPase dependent transmembrane transport complex ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing 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 extracellular region outer membrane-bounded periplasmic space cell envelope periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR025997	Periplasmic binding protein	Domain
A, B, C	IPR013456	D-xylose-binding periplasmic protein	Family
A, B, C	IPR028082	Periplasmic binding protein-like I	Homologous Superfamily
A, B, C	IPR050555	Bacterial Solute-Binding Protein 2	Family

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.