Annotations: 4GVC

Crystal Structure of T-cell Lymphoma Invasion and Metastasis-1 PDZ in complex with phosphorylated Syndecan1 Peptide

External Resource: Annotation

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: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	DIM1	e4gvcA1	A: beta barrels	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: DIM1	ECOD (v294.2)

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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Syndecan-1	cargo receptor activity identical protein binding protein binding binding	cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling canonical Wnt signaling pathway biological regulation cell communication cellular process signal transduction Wnt signaling pathway exosomal secretion establishment of organelle localization cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling canonical Wnt signaling pathway biological regulation cell communication cellular process signal transduction Wnt signaling pathway exosomal secretion establishment of organelle localization regulation of localization cellular localization transport positive regulation of biological process positive regulation of secretion by cell positive regulation of exosomal secretion vesicle-mediated transport positive regulation of exocytosis cellular component biogenesis localization secretion by cell regulation of secretion by cell positive regulation of secretion organelle localization establishment of localization in cell cellular component organization or biogenesis positive regulation of cellular process vesicle localization positive regulation of cellular component biogenesis secretion regulation of transport regulation of exosomal secretion establishment of vesicle localization export from cell regulation of cellular component biogenesis regulation of vesicle-mediated transport establishment of localization extracellular exosome biogenesis regulation of secretion exocytosis positive regulation of transport extracellular vesicle biogenesis regulation of exocytosis developmental process muscle structure development cellular developmental process cell differentiation anatomical structure development cell development myoblast development myoblast differentiation muscle cell differentiation striated muscle cell development muscle cell development striated muscle cell differentiation positive regulation of extracellular exosome assembly positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization regulation of extracellular exosome assembly cellular component organization vesicle organization cellular component assembly extracellular exosome assembly organelle assembly regulation of organelle organization organelle organization regulation of organelle assembly positive regulation of organelle assembly cell migration cell motility import into cell receptor-mediated endocytosis endocytosis	membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle cellular anatomical structure organelle lumen organelle cytoplasm cell periphery membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle cellular anatomical structure organelle lumen organelle cytoplasm cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane lytic vacuole vacuolar lumen vacuole lysosomal lumen lysosome extracellular exosome extracellular vesicle extracellular organelle extracellular region vesicle extracellular membrane-bounded organelle
A	T-lymphoma invasion and metastasis-inducing protein 1	protein binding binding kinase binding enzyme binding lipid binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis developmental process multicellular organismal process regulation of biological process regulation of cellular process cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis developmental process multicellular organismal process regulation of biological process regulation of cellular process dopaminergic neuron differentiation cellular developmental process regulation of developmental process biological regulation regulation of cell differentiation nervous system development generation of neurons neurogenesis multicellular organism development neuron differentiation regulation of dopaminergic neuron differentiation cell differentiation anatomical structure development system development regulation of neuron differentiation regulation of epithelial to mesenchymal transition positive regulation of biological process positive regulation of epithelial to mesenchymal transition mesenchyme development positive regulation of developmental process positive regulation of cell differentiation regulation of multicellular organismal process positive regulation of cellular process animal organ development tissue development epithelial to mesenchymal transition positive regulation of multicellular organismal process mesenchymal cell differentiation cellular response to stimulus cell surface receptor signaling pathway response to stimulus signaling cell communication non-canonical Wnt signaling pathway signal transduction Wnt signaling pathway cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway ephrin receptor signaling pathway positive regulation of nervous system development axonogenesis cell projection organization regulation of neurogenesis neuron projection development regulation of cell development cell projection morphogenesis neuron projection morphogenesis positive regulation of cell projection organization regulation of cell projection organization positive regulation of cell development regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization plasma membrane bounded cell projection morphogenesis cell development cell morphogenesis regulation of nervous system development regulation of axonogenesis positive regulation of neurogenesis positive regulation of axonogenesis regulation of anatomical structure morphogenesis regulation of multicellular organismal development plasma membrane bounded cell projection organization axon development cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis neuron development regulation of plasma membrane bounded cell projection organization cell migration cell motility cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation Wnt signaling pathway, planar cell polarity pathway small GTPase-mediated signal transduction Rac protein signal transduction intracellular signal transduction intracellular signaling cassette positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration locomotion regulation of signaling regulation of small GTPase mediated signal transduction regulation of signal transduction regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication	cell-cell junction cellular anatomical structure anchoring junction cell junction intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane cell-cell contact zone synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR027789	Syndecan/Neurexin domain	Domain
B	IPR030479	Syndecan, conserved site	Conserved Site
B	IPR001050	Syndecan	Family
B	IPR003585	Neurexin/syndecan/glycophorin C	Domain
A	IPR003116	Raf-like Ras-binding	Domain
A	IPR001849	Pleckstrin homology domain	Domain
A	IPR000219	Dbl homology domain	Domain
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR043537	Tiam1/Tiam2/Protein still life	Family
A	IPR001331	Guanine-nucleotide dissociation stimulator, CDC24, conserved site	Conserved Site
A	IPR055230	Tiam1/2, second PH-like domain	Domain
A	IPR036034	PDZ superfamily	Homologous Superfamily
A	IPR040655	TIAM1, CC-Ex domain	Domain
A	IPR035899	Dbl homology (DH) domain superfamily	Homologous Superfamily
A	IPR001478	PDZ domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	: P18827	malignant mesothelioma malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia ABri amyloidosis spina bifida breast cancer cancer glioblastoma invasive ductal breast carcinoma lung carcinoma malignant glioma medulloblastoma osteosarcoma malignant mesothelioma malignant pancreatic neoplasm non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia ABri amyloidosis spina bifida breast cancer cancer glioblastoma invasive ductal breast carcinoma lung carcinoma malignant glioma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor ADan amyloidosis breast carcinoma cystic fibrosis hematologic disease large cell medulloblastoma lymphatic system disease nephrosclerosis ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis atypical teratoid rhabdoid tumor breast fibroadenoma ductal breast carcinoma in situ interstitial cystitis lung adenocarcinoma malignant ependymoma
A	: Q13009	squamous cell carcinoma amyotrophic lateral sclerosis type 1 Mouth Neoplasms ovarian cancer primitive neuroectodermal tumor amyotrophic lateral sclerosis common variable immunodeficiency ductal breast carcinoma in situ interstitial cystitis malignant ependymoma nephrosclerosis pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor squamous cell carcinoma amyotrophic lateral sclerosis type 1 Mouth Neoplasms ovarian cancer primitive neuroectodermal tumor amyotrophic lateral sclerosis common variable immunodeficiency ductal breast carcinoma in situ interstitial cystitis malignant ependymoma nephrosclerosis pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor cystic fibrosis esophageal adenocarcinoma large cell medulloblastoma malignant glioma medulloblastoma oral cavity neoplasm pituitary cancer Sjogren syndrome colorectal cancer Down syndrome glioblastoma lung cancer malignant mesothelioma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	PTR	Parent Component: TYR : AA0039 : O4'-phospho-L-tyrosine MOD:00048

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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.