1XVI

Crystal Structure of YedP, phosphatase-like domain protein from Escherichia coli K12

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	d1xvia_	Alpha and beta proteins (a/b)	HAD-like	HAD-like	Predicted hydrolases Cof	Putative mannosyl-3-phosphoglycerate phosphatase MPGP (YedP)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d1xvib_	Alpha and beta proteins (a/b)	HAD-like	HAD-like	Predicted hydrolases Cof	Putative mannosyl-3-phosphoglycerate phosphatase MPGP (YedP)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Predicted hydrolases Cof	8031799	4002994	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	HAD-like	8044177	3001890	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	HAD-like	8044177	3001890	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	UNK_F_TYPE	e1xviA2	A: a+b two layers	X: Cof C2 cap domain (From Topology)	H: Cof C2 cap domain (From Topology)	T: Cof C2 cap domain	F: UNK_F_TYPE	ECOD (1.6)
A	Hydrolase_3	e1xviA3	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: HAD-like	F: Hydrolase_3	ECOD (1.6)
B	UNK_F_TYPE	e1xviB1	A: a+b two layers	X: Cof C2 cap domain (From Topology)	H: Cof C2 cap domain (From Topology)	T: Cof C2 cap domain	F: UNK_F_TYPE	ECOD (1.6)
B	Hydrolase_3	e1xviB2	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: HAD-like	F: Hydrolase_3	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
A	3.30.980.20	Alpha Beta	2-Layer Sandwich	Threonyl-tRNA Synthetase	Chain A, domain 2	CATH (4.3.0)
B	3.40.50.1000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	HAD superfamily/HAD-like	CATH (4.3.0)
B	3.30.980.20	Alpha Beta	2-Layer Sandwich	Threonyl-tRNA Synthetase	Chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF08282	haloacid dehalogenase-like hydrolase (Hydrolase_3)	haloacid dehalogenase-like hydrolase	This family contains haloacid dehalogenase-like hydrolase enzymes.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Putative mannosyl-3-phosphoglycerate phosphatase	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding phosphoric ester hydrolase activity mannosyl-3-phosphoglycerate phosphatase activity hydrolase activity, acting on ester bonds phosphatase activity hydrolase activity catalytic activity	glycosyl compound metabolic process oxoacid metabolic process cellular biosynthetic process carbohydrate derivative metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process organic substance metabolic process mannosylglycerate biosynthetic process organic substance biosynthetic process small molecule metabolic process mannosylglycerate metabolic process carbohydrate derivative biosynthetic process carbohydrate metabolic process glycosyl compound metabolic process oxoacid metabolic process cellular biosynthetic process carbohydrate derivative metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process organic substance metabolic process mannosylglycerate biosynthetic process organic substance biosynthetic process small molecule metabolic process mannosylglycerate metabolic process carbohydrate derivative biosynthetic process carbohydrate metabolic process glycosyl compound biosynthetic process small molecule biosynthetic process cellular metabolic process glycoside metabolic process carbohydrate biosynthetic process carboxylic acid metabolic process primary metabolic process glycoside biosynthetic process biosynthetic process metabolic process cellular process	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR012815	Mannosyl-3-phosphoglycerate phosphatase	Family
A, B	IPR036412	HAD-like superfamily	Homologous Superfamily
A, B	IPR023214	HAD superfamily	Homologous Superfamily
A, B	IPR006381	HAD-superfamily hydrolase, superfamily IIB, MPGP	Family
A, B	IPR006379	HAD-superfamily hydrolase, subfamily IIB	Family

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.