3NP5 | pdb_00003np5

Crystal structure of an abridged form of the mature ectodomain of the human receptor-type protein tyrosine phosphatase ICA512/IA-2 AT pH 4.5

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Mature ectodomain of IA-2-like	8053999	3002260	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Mature ectodomain of IA-2-like	8053999	3002260	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Mature ectodomain of IA-2-like	8053999	3002260	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Mature ectodomain of IA-2-like	8053999	3002260	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)
D	Gal-bind_lectin	e3np5D1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Gal-bind_lectin	ECOD (v294.1)
C	Gal-bind_lectin	e3np5C1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Gal-bind_lectin	ECOD (v294.1)
B	Gal-bind_lectin	e3np5B1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Gal-bind_lectin	ECOD (v294.1)
A	Gal-bind_lectin	e3np5A1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Gal-bind_lectin	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.30.70.2470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Protein-tyrosine phosphatase receptor IA-2 ectodomain	CATH (4.3.0)
C	3.30.70.2470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Protein-tyrosine phosphatase receptor IA-2 ectodomain	CATH (4.3.0)
B	3.30.70.2470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Protein-tyrosine phosphatase receptor IA-2 ectodomain	CATH (4.3.0)
A	3.30.70.2470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	Protein-tyrosine phosphatase receptor IA-2 ectodomain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF11548	Protein-tyrosine phosphatase receptor IA-2 (Receptor_IA-2)	Protein-tyrosine phosphatase receptor IA-2	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Receptor-type tyrosine-protein phosphatase-like N	cytoskeletal protein binding spectrin binding protein-containing complex binding protein binding binding transcription factor binding ubiquitin-like protein ligase binding enzyme binding	developmental process secretory granule organization dense core granule maturation developmental maturation secretory granule maturation vesicle organization cellular component organization organelle organization anatomical structure maturation anatomical structure development cellular process cellular component organization or biogenesis endomembrane system organization cellular response to stimulus developmental process secretory granule organization dense core granule maturation developmental maturation secretory granule maturation vesicle organization cellular component organization organelle organization anatomical structure maturation anatomical structure development cellular process cellular component organization or biogenesis endomembrane system organization cellular response to stimulus establishment of protein localization nitrogen compound transport response to stimulus cell communication localization carbohydrate homeostasis establishment of localization in cell regulation of biological quality intracellular protein localization regulation of biological process regulation of hormone levels establishment of protein localization to extracellular region intracellular glucose homeostasis protein secretion establishment of localization cellular response to oxygen-containing compound cellular response to carbohydrate stimulus chemical homeostasis response to glucose response to chemical glucose homeostasis insulin secretion involved in cellular response to glucose stimulus cellular localization transport signaling homeostatic process hormone secretion protein localization to extracellular region peptide secretion secretion by cell response to monosaccharide response to carbohydrate signal release cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus secretion biological regulation cell-cell signaling export from cell response to oxygen-containing compound cellular response to glucose stimulus peptide transport response to hexose cellular response to chemical stimulus cellular homeostasis protein transport peptide hormone secretion macromolecule localization hormone transport insulin secretion regulation of localization regulation of transport regulation of secretion cell population proliferation regulation of cellular process positive regulation of cell population proliferation positive regulation of type B pancreatic cell proliferation positive regulation of epithelial cell proliferation positive regulation of biological process regulation of type B pancreatic cell proliferation regulation of cell population proliferation type B pancreatic cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation positive regulation of cellular process response to oxidative stress response to stress response to reactive oxygen species positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process rhythmic process ovulation cycle process multicellular organismal process gonad development reproductive system development luteinization reproductive process female gonad development sex differentiation multicellular organismal reproductive process animal organ development female sex differentiation development of primary female sexual characteristics developmental process involved in reproduction ovulation cycle multicellular organism development development of primary sexual characteristics reproductive structure development system development	somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body cell periphery plasma membrane membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle somatodendritic compartment cell body cellular anatomical structure perikaryon neuronal cell body cell periphery plasma membrane membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle Golgi apparatus endosome synapse cell junction axon neuron projection axon terminus plasma membrane bounded cell projection presynapse cell projection distal axon neuron projection terminus transport vesicle transport vesicle membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR021613	Protein-tyrosine phosphatase receptor IA-2 ectodomain	Domain
A, B, C, D	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A, B, C, D	IPR029403	RESP18 domain	Domain
A, B, C, D	IPR038112	Protein-tyrosine phosphatase receptor IA-2, ectodomain superfamily	Homologous Superfamily
A, B, C, D	IPR033522	Receptor-type tyrosine-protein phosphatase-like N/N2	Family
A, B, C, D	IPR016130	Protein-tyrosine phosphatase, active site	Active Site
A, B, C, D	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A, B, C, D	IPR000242	Tyrosine-specific protein phosphatase, PTPase domain	Domain
A, B, C, D	IPR000387	Tyrosine-specific protein phosphatases domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q16849	acquired metabolic disease cervical cancer glioblastoma malignant ependymoma medulloblastoma Pick disease astrocytic tumor diabetes mellitus inborn carbohydrate metabolic disorder malignant glioma oligodendroglioma pilocytic astrocytoma atypical teratoid rhabdoid tumor DOID:0081062 lung carcinoma acquired metabolic disease cervical cancer glioblastoma malignant ependymoma medulloblastoma Pick disease astrocytic tumor diabetes mellitus inborn carbohydrate metabolic disorder malignant glioma oligodendroglioma pilocytic astrocytoma atypical teratoid rhabdoid tumor DOID:0081062 lung carcinoma malignant mesothelioma pancreatic insulinoma

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.