3LNY

Second PDZ domain from human PTP1E in complex with RA-GEF2 peptide

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)
A	d3lnya_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Phosphatase hPTP1e	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)
A	SCOP2B Superfamily	PDZ domain-like	8038560	3000388	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	PDZ	e3lnyA1	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00595	PDZ domain (PDZ)	PDZ domain	PDZ domains are found in diverse signaling proteins.	Domain
A	PF16599	Unstructured linker region on PTN13 protein between PDZ (PTN13_u3)	Unstructured linker region on PTN13 protein between PDZ	-	Disordered

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Tyrosine-protein phosphatase non-receptor type 13	phosphatidylinositol 3-kinase binding protein binding binding phosphatidylinositol 3-kinase regulatory subunit 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	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 cellular process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process 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 cellular process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process regulation of cellular process regulation of protein modification process regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process negative regulation of cellular metabolic process regulation of primary metabolic process regulation of phosphate metabolic process negative regulation of protein modification process negative regulation of cellular process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biological process protein phosphorylation phosphorylation regulation of protein metabolic process negative regulation of metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process negative regulation of protein phosphorylation negative regulation of phosphorus metabolic process regulation of phosphorylation regulation of phosphorus metabolic process negative regulation of phosphorylation regulation of metabolic process cellular response to stimulus cellular response to chemical stimulus response to stimulus response to chemical cellular response to toxic substance response to toxic substance peptidyl-tyrosine dephosphorylation regulation of signaling regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction signaling regulation of signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette regulation of cell communication signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction multicellular organismal process regulation of cellular component organization regulation of developmental process negative regulation of excitatory synapse assembly cellular component organization cellular component biogenesis regulation of nervous system development multicellular organism development cellular component assembly negative regulation of cell junction assembly cell junction assembly regulation of excitatory synapse assembly anatomical structure development regulation of synapse structure or activity negative regulation of nervous system development regulation of multicellular organismal process synapse organization cellular component organization or biogenesis regulation of synapse assembly regulation of biological quality system development developmental process regulation of multicellular organismal development negative regulation of cellular component organization negative regulation of developmental process nervous system development negative regulation of synapse organization regulation of cellular component biogenesis excitatory synapse assembly regulation of cell junction assembly regulation of synapse organization cell junction organization synapse assembly negative regulation of multicellular organismal process negative regulation of synapse assembly	cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell projection cell leading edge cellular anatomical entity plasma membrane bounded cell projection lamellipodium extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen nuclear lumen cytoskeleton intracellular non-membrane-bounded organelle non-membrane-bounded organelle nucleolus fibrillar center cell body
B	Rap guanine nucleotide exchange factor 6	small GTPase binding protein binding binding enzyme binding GTPase binding GTP-dependent protein binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity ion binding anion binding phosphatidic acid binding small GTPase binding protein binding binding enzyme binding GTPase binding GTP-dependent protein binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity ion binding anion binding phosphatidic acid binding phospholipid binding lipid binding small molecule binding	plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly microvillus organization cellular component organization cellular component biogenesis cellular component assembly microvillus assembly cellular process cellular component organization or biogenesis cell projection assembly positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly microvillus organization cellular component organization cellular component biogenesis cellular component assembly microvillus assembly cellular process cellular component organization or biogenesis cell projection assembly positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity biological regulation positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity protein localization localization protein localization to cell periphery cellular localization protein localization to plasma membrane cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane cellular response to stimulus regulation of biological process small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling Ras protein signal transduction intracellular signal transduction cell communication intracellular signaling cassette signal transduction	cell periphery apical part of cell membrane plasma membrane plasma membrane region cellular anatomical entity apical plasma membrane intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle intracellular non-membrane-bounded organelle cell periphery apical part of cell membrane plasma membrane plasma membrane region cellular anatomical entity apical plasma membrane intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle intracellular non-membrane-bounded organelle microtubule cytoskeleton non-membrane-bounded organelle cytoplasm cytosol membrane-bounded organelle intracellular vesicle intracellular membrane-bounded organelle cytoplasmic vesicle vesicle endocytic vesicle

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	IPR012153	Tyrosine-protein phosphatase non-receptor type 13	Family
A	IPR003595	Protein-tyrosine phosphatase, catalytic	Domain
A	IPR019748	FERM central domain	Domain
A	IPR018980	FERM, C-terminal PH-like domain	Domain
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
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	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
A	IPR011019	KIND domain	Domain
B	IPR000159	Ras-associating domain	Domain
B	IPR000595	Cyclic nucleotide-binding domain	Domain
B	IPR036034	PDZ superfamily	Homologous Superfamily
B	IPR000651	Ras-like guanine nucleotide exchange factor, N-terminal	Domain
B	IPR014710	RmlC-like jelly roll fold	Homologous Superfamily
B	IPR036964	Ras guanine-nucleotide exchange factor, catalytic domain superfamily	Homologous Superfamily
B	IPR001478	PDZ domain	Domain
B	IPR023578	Ras guanine nucleotide exchange factor domain superfamily	Homologous Superfamily
B	IPR001895	Ras guanine-nucleotide exchange factors catalytic domain	Domain
B	IPR018490	Cyclic nucleotide-binding domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q12923	classic familial adenomatous polyposis glioblastoma lung cancer medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia spina bifida Crohn disease interstitial cystitis lung carcinoma ovarian cancer peripheral nervous system disease ulcerative colitis cystic fibrosis lung adenocarcinoma malignant mesothelioma classic familial adenomatous polyposis glioblastoma lung cancer medulloblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia spina bifida Crohn disease interstitial cystitis lung carcinoma ovarian cancer peripheral nervous system disease ulcerative colitis cystic fibrosis lung adenocarcinoma malignant mesothelioma pancreatic intraductal papillary-mucinous carcinoma peripheral neuropathy
B	Pharos: Q8TEU7	Crohn disease myopathy inflammatory bowel disease schizophrenia juvenile dermatomyositis Sjogren syndrome