4QUM

Crystal structure of PTPN3 (PTPH1) in complex with a dually phosphorylated MAPK12 peptide

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
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	(Phosphotyrosine protein) phosphatases II	8078039	3000304	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	Y_phosphatase	e4qumA1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: (Phosphotyrosine protein) phosphatases II	F: Y_phosphatase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.190.10	Alpha Beta	Alpha-Beta Complex	Protein-Tyrosine Phosphatase	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00102	Protein-tyrosine phosphatase (Y_phosphatase)	Protein-tyrosine phosphatase	-	Domain
B	PF00069	Protein kinase domain (Pkinase)	Protein kinase domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Tyrosine-protein phosphatase non-receptor type 3	cytoskeletal protein binding protein binding binding phosphoprotein binding phosphotyrosine residue binding protein phosphorylated amino acid binding phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity cytoskeletal protein binding protein binding binding phosphoprotein binding phosphotyrosine residue binding protein phosphorylated amino acid binding phosphoric ester hydrolase activity phosphoprotein phosphatase activity catalytic activity, acting on a protein hydrolase activity, acting on ester bonds protein tyrosine phosphatase activity phosphatase activity hydrolase activity catalytic activity channel regulator activity ion channel regulator activity molecular function regulator activity sodium channel regulator activity transporter regulator activity ATPase binding enzyme binding	regulation of localization regulation of cellular process transport monoatomic ion transmembrane transport regulation of transmembrane transporter activity sodium ion transmembrane transport regulation of monoatomic ion transmembrane transport regulation of sodium ion transport regulation of sodium ion transmembrane transport metal ion transport regulation of transporter activity monoatomic cation transmembrane transport regulation of sodium ion transmembrane transporter activity localization regulation of localization regulation of cellular process transport monoatomic ion transmembrane transport regulation of transmembrane transporter activity sodium ion transmembrane transport regulation of monoatomic ion transmembrane transport regulation of sodium ion transport regulation of sodium ion transmembrane transport metal ion transport regulation of transporter activity monoatomic cation transmembrane transport regulation of sodium ion transmembrane transporter activity localization monoatomic ion transport monoatomic cation transport regulation of metal ion transport regulation of monoatomic ion transmembrane transporter activity regulation of biological process regulation of transport regulation of monoatomic ion transport biological regulation inorganic ion transmembrane transport establishment of localization inorganic cation transmembrane transport transmembrane transport regulation of molecular function regulation of transmembrane transport cellular process regulation of monoatomic cation transmembrane transport sodium ion transport protein dephosphorylation organonitrogen compound metabolic process dephosphorylation cellular metabolic process primary metabolic process organic substance metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process cellular response to stimulus response to stimulus signaling negative regulation of signaling negative regulation of ERBB signaling pathway negative regulation of biological process regulation of signal transduction cell surface receptor protein tyrosine kinase signaling pathway negative regulation of cell communication cell communication regulation of epidermal growth factor receptor signaling pathway negative regulation of cellular process epidermal growth factor receptor signaling pathway signal transduction enzyme-linked receptor protein signaling pathway regulation of signaling regulation of ERBB signaling pathway cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of signal transduction regulation of response to stimulus negative regulation of epidermal growth factor receptor signaling pathway ERBB signaling pathway regulation of cell communication developmental process multicellular organismal process gland development animal organ development animal organ regeneration liver development regeneration multicellular organism development hepaticobiliary system development anatomical structure development liver regeneration system development membrane depolarization during action potential action potential regulation of membrane depolarization membrane depolarization regulation of biological quality regulation of membrane depolarization during action potential regulation of membrane potential intracellular signal transduction intracellular signaling cassette MAPK cascade negative regulation of membrane protein ectodomain proteolysis negative regulation of cellular catabolic process catabolic process negative regulation of proteolysis macromolecule catabolic process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of protein catabolic process cellular catabolic process regulation of proteolysis proteolysis membrane protein proteolysis negative regulation of protein metabolic process membrane protein ectodomain proteolysis negative regulation of macromolecule metabolic process organonitrogen compound catabolic process negative regulation of catabolic process regulation of membrane protein ectodomain proteolysis regulation of protein metabolic process negative regulation of metabolic process regulation of cellular metabolic process regulation of catabolic process regulation of macromolecule metabolic process protein catabolic process regulation of cellular catabolic process regulation of metabolic process organic substance catabolic process regulation of protein catabolic process negative regulation of cell cycle negative regulation of mitotic cell cycle mitotic cell cycle regulation of mitotic cell cycle cell cycle regulation of cell cycle	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane intracellular organelle cytoskeleton organelle intracellular non-membrane-bounded organelle non-membrane-bounded organelle cytoplasmic side of plasma membrane cytoplasmic side of membrane intracellular anatomical structure cytoplasm cellular anatomical entity cytosol cell periphery plasma membrane membrane intracellular organelle cytoskeleton organelle intracellular non-membrane-bounded organelle non-membrane-bounded organelle cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane
B	Mitogen-activated protein kinase 12	catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding protein serine/threonine kinase activity MAP kinase activity	cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication cellular response to stress DNA damage response response to stress signal transduction in response to DNA damage cellular process signal transduction cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication cellular response to stress DNA damage response response to stress signal transduction in response to DNA damage cellular process signal transduction developmental process muscle structure development cellular developmental process cell differentiation anatomical structure development myoblast differentiation regulation of developmental process positive regulation of biological process regulation of cell differentiation muscle cell differentiation positive regulation of muscle cell differentiation positive regulation of developmental process regulation of muscle cell differentiation positive regulation of cell differentiation positive regulation of cellular process negative regulation of cellular process negative regulation of biological process negative regulation of cell cycle cell cycle regulation of cell cycle animal organ development muscle organ development regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity regulation of primary metabolic process positive regulation of molecular function positive regulation of metabolic process organic substance metabolic process regulation of proteolysis proteolysis positive regulation of macromolecule metabolic process protein metabolic process organonitrogen compound metabolic process regulation of protein metabolic process regulation of peptidase activity positive regulation of catalytic activity primary metabolic process regulation of macromolecule metabolic process regulation of molecular function positive regulation of hydrolase activity regulation of hydrolase activity positive regulation of proteolysis metabolic process macromolecule metabolic process regulation of metabolic process intracellular signaling cassette MAPK cascade protein phosphorylation phosphorylation cellular metabolic process peptidyl-serine modification peptidyl-serine phosphorylation macromolecule modification peptidyl-amino acid modification phosphate-containing compound metabolic process protein modification process phosphorus metabolic process	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytosol nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytosol nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000299	FERM domain	Domain
A	IPR014352	FERM/acyl-CoA-binding protein superfamily	Homologous Superfamily
A	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A	IPR019748	FERM central domain	Domain
A	IPR018980	FERM, C-terminal PH-like domain	Domain
A	IPR012151	Protein-tyrosine phosphatase, non-receptor type-3, -4	Family
A	IPR041783	PTPN3/4, FERM domain C-lobe	Domain
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR016130	Protein-tyrosine phosphatase, active site	Active Site
A	IPR019749	Band 4.1 domain	Domain
A	IPR029021	Protein-tyrosine phosphatase-like	Homologous Superfamily
A	IPR035963	FERM superfamily, second domain	Homologous Superfamily
A	IPR000242	Tyrosine-specific protein phosphatase, PTPase domain	Domain
A	IPR036034	PDZ superfamily	Homologous Superfamily
A	IPR019747	FERM conserved site	Conserved Site
A	IPR000387	Tyrosine-specific protein phosphatases domain	Domain
A	IPR018979	FERM, N-terminal	Domain
A	IPR001478	PDZ domain	Domain
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
B	IPR003527	Mitogen-activated protein (MAP) kinase, conserved site	Conserved Site
B	IPR017441	Protein kinase, ATP binding site	Binding Site
B	IPR000719	Protein kinase domain	Domain
B	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
B	IPR008352	Mitogen-activated protein (MAP) kinase p38-like	Family
B	IPR038786	Mitogen-activated protein kinase 12	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P26045	cholangiocarcinoma bile duct carcinoma pituitary cancer subependymal giant cell astrocytoma astrocytic tumor Duchenne muscular dystrophy large cell medulloblastoma malignant glioma myopathy pancreatic ductal adenocarcinoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor glioblastoma malignant colon neoplasm malignant mesothelioma cholangiocarcinoma bile duct carcinoma pituitary cancer subependymal giant cell astrocytoma astrocytic tumor Duchenne muscular dystrophy large cell medulloblastoma malignant glioma myopathy pancreatic ductal adenocarcinoma primitive neuroectodermal tumor atypical teratoid rhabdoid tumor glioblastoma malignant colon neoplasm malignant mesothelioma oligodendroglioma pilocytic astrocytoma spina bifida bile duct cancer cholelithiasis interstitial cystitis malignant ependymoma medulloblastoma osteosarcoma
B	Pharos: P53778	atypical teratoid rhabdoid tumor Emery-Dreifuss muscular dystrophy juvenile dermatomyositis bipolar disorder endogenous depression malignant ependymoma cutaneous melanoma hypertensive disorder medulloblastoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	PTR	Parent Component: TYR RESID: AA0039 PSI-MOD : O4'-phospho-L-tyrosine MOD:00048
B	TPO	Parent Component: THR RESID: AA0039 , AA0038 PSI-MOD : O4'-phospho-L-tyrosine MOD:00048 , O-phospho-L-threonine MOD:00047