4PDD

CRYSTAL STRUCTURE OF A TRAP PERIPLASMIC SOLUTE BINDING PROTEIN FROM POLAROMONAS SP JS666 (Bpro_0088, TARGET EFI-510167) BOUND TO D-ERYTHRONATE

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4pdda1	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	automated matches	automated matches	(Polaromonas sp. JS666 ) [TaxId: 296591 ],	SCOPe (2.08)
A	d4pdda2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Polaromonas sp. JS666 ) [TaxId: 296591 ],	SCOPe (2.08)
B	d4pddb1	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	automated matches	automated matches	(Polaromonas sp. JS666 ) [TaxId: 296591 ],	SCOPe (2.08)
B	d4pddb2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Polaromonas sp. JS666 ) [TaxId: 296591 ],	SCOPe (2.08)
C	d4pddc1	Alpha and beta proteins (a/b)	Periplasmic binding protein-like II	Periplasmic binding protein-like II	automated matches	automated matches	(Polaromonas sp. JS666 ) [TaxId: 296591 ],	SCOPe (2.08)
C	d4pddc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Polaromonas sp. JS666 ) [TaxId: 296591 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	DctP	e4pddA1	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: DctP	ECOD (1.6)
B	DctP	e4pddB1	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: DctP	ECOD (1.6)
C	DctP	e4pddC1	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: DctP	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.190.170	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)
B	3.40.190.170	Alpha Beta	3-Layer(aba) Sandwich	D-Maltodextrin-Binding Protein	domain 2	CATH (4.3.0)
C	3.40.190.170	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, B, C	PF03480	Bacterial extracellular solute-binding protein, family 7 (DctP)	Bacterial extracellular solute-binding protein, family 7	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	TRAP dicarboxylate transporter, DctP subunit	-	localization transport organic substance transport establishment of localization transmembrane transport cellular process	outer membrane-bounded periplasmic space cell envelope periplasmic space cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR018389	TRAP transporter solute receptor DctP	Family
A, B, C	IPR038404	TRAP transporter solute receptor DctP superfamily	Homologous Superfamily
A, B, C	IPR004682	TRAP transporter solute receptor, DctP family	Family

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C	PCA	Parent Component: GLN RESID: AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420

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.