3OZE | pdb_00003oze

Crystal Structure of human 5'-deoxy-5'-methyladenosine phosphorylase

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d3ozef_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	Purine and uridine phosphorylases	5'-deoxy-5'-methylthioadenosine phosphorylase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d3ozee_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	Purine and uridine phosphorylases	5'-deoxy-5'-methylthioadenosine phosphorylase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d3ozed_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	Purine and uridine phosphorylases	5'-deoxy-5'-methylthioadenosine phosphorylase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d3ozec_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	Purine and uridine phosphorylases	5'-deoxy-5'-methylthioadenosine phosphorylase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d3ozeb_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	Purine and uridine phosphorylases	5'-deoxy-5'-methylthioadenosine phosphorylase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3ozea_	Alpha and beta proteins (a/b)	Phosphorylase/hydrolase-like	Purine and uridine phosphorylases	Purine and uridine phosphorylases	5'-deoxy-5'-methylthioadenosine phosphorylase	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Purine and uridine phosphorylases	8036168	3000626	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Purine and uridine phosphorylases	8036168	3000626	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Purine and uridine phosphorylases	8036168	3000626	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Purine and uridine phosphorylases	8036168	3000626	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Purine and uridine phosphorylases	8036168	3000626	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Purine and uridine phosphorylases	8036168	3000626	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)
F	Ion_trans_2	e3ozeF1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
E	Ion_trans_2	e3ozeE1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
D	Ion_trans_2	e3ozeD1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
C	Ion_trans_2	e3ozeC1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
B	Ion_trans_2	e3ozeB1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)
A	Ion_trans_2	e3ozeA1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Ion_trans_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
E	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
D	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
C	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
B	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)
A	3.40.50.1580	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleoside phosphorylase domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF01048	Phosphorylase superfamily (PNP_UDP_1)	Phosphorylase superfamily	Members of this family include: purine nucleoside phosphorylase (PNP) Uridine phosphorylase (UdRPase) 5'-methylthioadenosine phosphorylase (MTA phosphorylase)	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	S-methyl-5'-thioadenosine phosphorylase	1,4-alpha-oligoglucan phosphorylase activity glycosyltransferase activity transferase activity hexosyltransferase activity catalytic activity pentosyltransferase activity S-methyl-5-thioadenosine phosphorylase activity purine-nucleoside phosphorylase activity	nucleobase-containing compound metabolic process primary metabolic process metabolic process cellular process carbohydrate derivative metabolic process nucleoside biosynthetic process metabolic compound salvage nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process small molecule metabolic process purine ribonucleoside metabolic process carbohydrate derivative biosynthetic process glycosyl compound biosynthetic process purine-containing compound salvage nucleobase-containing compound metabolic process primary metabolic process metabolic process cellular process carbohydrate derivative metabolic process nucleoside biosynthetic process metabolic compound salvage nucleobase-containing small molecule metabolic process purine-containing compound biosynthetic process small molecule metabolic process purine ribonucleoside metabolic process carbohydrate derivative biosynthetic process glycosyl compound biosynthetic process purine-containing compound salvage small molecule biosynthetic process nucleoside salvage purine ribonucleoside biosynthetic process ribonucleoside biosynthetic process nucleobase-containing compound biosynthetic process nucleoside metabolic process nucleobase-containing small molecule biosynthetic process purine-containing compound metabolic process purine ribonucleoside salvage biosynthetic process purine nucleoside biosynthetic process purine nucleoside metabolic process ribonucleoside metabolic process response to ketone response to lipid response to stimulus response to chemical response to oxygen-containing compound response to testosterone methylation	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol nucleus membrane-enclosed lumen extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR035994	Nucleoside phosphorylase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR018099	Purine phosphorylase, family 2, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR010044	Methylthioadenosine phosphorylase (MTAP)	Family
A, B, C, D, E A, B, C, D, E, F	IPR000845	Nucleoside phosphorylase domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: Q13126	melanoma diaphyseal medullary stenosis-bone malignancy syndrome prostate cancer cutaneous melanoma non-small cell lung carcinoma ovarian carcinoma psoriasis skin neoplasm acute lymphoblastic leukemia brain glioma Diaphyseal medullary stenosis with bone malignancy glioblastoma large cell medulloblastoma malignant mesothelioma open-angle glaucoma melanoma diaphyseal medullary stenosis-bone malignancy syndrome prostate cancer cutaneous melanoma non-small cell lung carcinoma ovarian carcinoma psoriasis skin neoplasm acute lymphoblastic leukemia brain glioma Diaphyseal medullary stenosis with bone malignancy glioblastoma large cell medulloblastoma malignant mesothelioma open-angle glaucoma plasma cell myeloma prostate carcinoma sarcoma adrenal cortex carcinoma breast carcinoma heart disease lung adenocarcinoma medulloblastoma ovarian cancer primitive neuroectodermal tumor skin basal cell carcinoma B-cell acute lymphoblastic leukemia inflammatory bowel disease lung carcinoma melanocytic nevus

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.