4LR9 | pdb_00004lr9

Phosphopentomutase S154A variant soaked with 2,3-dideoxyribose 5-phosphate

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
C	KAsynt_C_assoc	e4lr9C1	A: alpha bundles	X: Type II ABC importer transmembrane domain fold	H: Type II ABC importer transmembrane domain fold	T: Type II ABC importer transmembrane domain fold	F: KAsynt_C_assoc	ECOD (develop294)
B	KAsynt_C_assoc	e4lr9B2	A: alpha bundles	X: Type II ABC importer transmembrane domain fold	H: Type II ABC importer transmembrane domain fold	T: Type II ABC importer transmembrane domain fold	F: KAsynt_C_assoc	ECOD (develop294)
A	KAsynt_C_assoc	e4lr9A1	A: alpha bundles	X: Type II ABC importer transmembrane domain fold	H: Type II ABC importer transmembrane domain fold	T: Type II ABC importer transmembrane domain fold	F: KAsynt_C_assoc	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.720.10	Alpha Beta	3-Layer(aba) Sandwich	Alkaline Phosphatase, subunit A	Alkaline Phosphatase, subunit A	CATH (4.3.0)
C	3.30.70.1250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Phosphopentomutase	CATH (4.3.0)
B	3.40.720.10	Alpha Beta	3-Layer(aba) Sandwich	Alkaline Phosphatase, subunit A	Alkaline Phosphatase, subunit A	CATH (4.3.0)
B	3.30.70.1250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Phosphopentomutase	CATH (4.3.0)
A	3.40.720.10	Alpha Beta	3-Layer(aba) Sandwich	Alkaline Phosphatase, subunit A	Alkaline Phosphatase, subunit A	CATH (4.3.0)
A	3.30.70.1250	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Phosphopentomutase	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF01676	Metalloenzyme superfamily (Metalloenzyme)	Metalloenzyme superfamily	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Phosphopentomutase	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding manganese ion binding transition metal ion binding isomerase activity intramolecular phosphotransferase activity catalytic activity phosphopentomutase activity intramolecular transferase activity	carbohydrate derivative catabolic process catabolic process carbohydrate derivative metabolic process organophosphate catabolic process deoxyribose phosphate catabolic process organophosphate metabolic process 2-deoxyribose 1-phosphate catabolic process phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process metabolic compound salvage biosynthetic process 5-phosphoribose 1-diphosphate biosynthetic process carbohydrate derivative catabolic process catabolic process carbohydrate derivative metabolic process organophosphate catabolic process deoxyribose phosphate catabolic process organophosphate metabolic process 2-deoxyribose 1-phosphate catabolic process phosphate-containing compound metabolic process metabolic process cellular process phosphorus metabolic process metabolic compound salvage biosynthetic process 5-phosphoribose 1-diphosphate biosynthetic process ribose phosphate metabolic process carbohydrate derivative biosynthetic process 5-phosphoribose 1-diphosphate metabolic process organophosphate biosynthetic process ribose phosphate biosynthetic process nucleoside phosphate metabolic process primary metabolic process nucleotide metabolic process nucleobase-containing compound metabolic process nucleobase-containing small molecule metabolic process small molecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR010045	Phosphopentomutase	Family
A, B, C	IPR006124	Metalloenzyme	Domain
A, B, C	IPR017850	Alkaline-phosphatase-like, core domain superfamily	Homologous Superfamily
A, B, C	IPR024052	Phosphopentomutase DeoB cap domain superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C	TPO	Parent Component: THR RESID: AA0038 PSI-MOD : O-phospho-L-threonine MOD:00047

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.