5PGM | pdb_00005pgm

SACCHAROMYCES CEREVISIAE PHOSPHOGLYCERATE MUTASE

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)
B [auth C]	d5pgmc_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
A [auth D]	d5pgmd_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
C [auth A]	d5pgma_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
D [auth B]	d5pgmb_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
E	d5pgme_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
F	d5pgmf_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
G	d5pgmg_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
H	d5pgmh_	Alpha and beta proteins (a/b)	Phosphoglycerate mutase-like	Phosphoglycerate mutase-like	Cofactor-dependent phosphoglycerate mutase	Phosphoglycerate mutase	(Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth C]	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	SCOP2B (2022-06-29)
A [auth D]	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	SCOP2B (2022-06-29)
D [auth B]	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Histidine phosphatase-like	8032225	3000781	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)
B [auth C]	His_Phos_1	e5pgmC1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)
A [auth D]	His_Phos_1	e5pgmD1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)
C [auth A]	His_Phos_1	e5pgmA1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)
D [auth B]	His_Phos_1	e5pgmB1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)
E	His_Phos_1	e5pgmE1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)
F	His_Phos_1	e5pgmF1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)
G	His_Phos_1	e5pgmG1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)
H	His_Phos_1	e5pgmH1	A: a/b three-layered sandwiches	X: Phosphoglycerate mutase-like (From Topology)	H: Phosphoglycerate mutase-like (From Topology)	T: Phosphoglycerate mutase-like	F: His_Phos_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B [auth C]	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)
A [auth D]	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)
C [auth A]	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)
D [auth B]	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)
E	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)
F	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)
G	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)
H	3.40.50.1240	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Phosphoglycerate mutase-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth D], B [auth C], C [auth A], D [auth B], E, A [auth D], B [auth C], C [auth A], D [auth B], E, F, G, H	PF00300	Histidine phosphatase superfamily (branch 1) (His_Phos_1)	Histidine phosphatase superfamily (branch 1)	The histidine phosphatase superfamily is so named because catalysis centres on a conserved His residue that is transiently phosphorylated during the catalytic cycle. Other conserved residues contribute to a 'phosphate pocket' and interact with the p ...	The histidine phosphatase superfamily is so named because catalysis centres on a conserved His residue that is transiently phosphorylated during the catalytic cycle. Other conserved residues contribute to a 'phosphate pocket' and interact with the phospho group of substrate before, during and after its transfer to the His residue. Structure and sequence analyses show that different families contribute different additional residues to the 'phosphate pocket' and, more surprisingly, differ in the position, in sequence and in three dimensions, of a catalytically essential acidic residue. The superfamily may be divided into two main branches. The larger branch 1 contains a wide variety of catalytic functions, the best known being fructose 2,6-bisphosphatase (found in a bifunctional protein with 2-phosphofructokinase) and cofactor-dependent phosphoglycerate mutase. The latter is an unusual example of a mutase activity in the superfamily: the vast majority of members appear to be phosphatases. The bacterial regulatory protein phosphatase SixA is also in branch 1 and has a minimal, and possible ancestral-like structure, lacking the large domain insertions that contribute to binding of small molecules in branch 1 members.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D], B [auth C], C [auth A], D [auth B], E, A [auth D], B [auth C], C [auth A], D [auth B], E, F, G, H	PHOSPHOGLYCERATE MUTASE 1	isomerase activity phosphoglycerate mutase activity intramolecular phosphotransferase activity catalytic activity intramolecular transferase activity	ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process purine ribonucleotide catabolic process phosphorus metabolic process pyridine nucleotide metabolic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process pyruvate metabolic process purine nucleoside diphosphate metabolic process primary metabolic process purine-containing compound catabolic process nucleotide metabolic process nucleobase-containing compound catabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process cellular respiration catabolic process ATP metabolic process energy derivation by oxidation of organic compounds purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process ribonucleoside diphosphate metabolic process ribonucleoside diphosphate catabolic process nucleotide catabolic process ribonucleoside triphosphate metabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process carbohydrate metabolic process carbohydrate derivative catabolic process ADP catabolic process carboxylic acid metabolic process generation of precursor metabolites and energy purine-containing compound metabolic process ADP metabolic process organophosphate metabolic process purine ribonucleoside diphosphate metabolic process cellular process purine ribonucleoside diphosphate catabolic process monosaccharide metabolic process small molecule biosynthetic process carbohydrate biosynthetic process hexose metabolic process monosaccharide biosynthetic process gluconeogenesis hexose biosynthetic process biosynthetic process glucose metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle mitochondrion organelle intracellular membrane-bounded organelle mitochondrial membrane membrane organelle outer membrane organelle envelope bounding membrane of organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle intracellular organelle mitochondrion organelle intracellular membrane-bounded organelle mitochondrial membrane membrane organelle outer membrane organelle envelope bounding membrane of organelle mitochondrial envelope mitochondrial outer membrane outer membrane organelle membrane mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth D], B [auth C], C [auth A], D [auth B], E, A [auth D], B [auth C], C [auth A], D [auth B], E, F, G, H	IPR013078	Histidine phosphatase superfamily, clade-1	Family
A [auth D], B [auth C], C [auth A], D [auth B], E, A [auth D], B [auth C], C [auth A], D [auth B], E, F, G, H	IPR005952	Phosphoglycerate mutase 1	Family
A [auth D], B [auth C], C [auth A], D [auth B], E, A [auth D], B [auth C], C [auth A], D [auth B], E, F, G, H	IPR001345	Phosphoglycerate/bisphosphoglycerate mutase, active site	Active Site
A [auth D], B [auth C], C [auth A], D [auth B], E, A [auth D], B [auth C], C [auth A], D [auth B], E, F, G, H	IPR029033	Histidine phosphatase superfamily	Homologous Superfamily

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.