4NXR | pdb_00004nxr

Crystal Structure of T-cell Lymphoma Invasion and Metastasis-1 PDZ Domain Quadruple Mutant (QM) in Complex With Neurexin-1 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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PDZ	e4nxrA1	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
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 surface receptor protein tyrosine kinase signaling pathway cell communication signal transduction 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 non-canonical Wnt signaling pathway Wnt signaling 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 regulation of Wnt signaling pathway regulation of non-canonical Wnt signaling pathway activation of GTPase activity positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity regulation of protein binding positive regulation of protein binding regulation of binding positive regulation of binding	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
B	Neurexin-2-beta Peptide	neuroligin family protein binding protein binding binding signaling receptor binding cell adhesion molecule binding cation binding ion binding metal ion binding small molecule binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity	cell adhesion cell-cell adhesion neuron cell-cell adhesion cellular process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus signaling biological regulation signal transduction cell communication	cell periphery cellular anatomical structure plasma membrane membrane presynapse synapse cell junction presynaptic membrane plasma membrane region synaptic membrane cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
B	IPR001791	Laminin G domain	Domain
B	IPR050372	Neurexin-related cell adhesion and synaptic protein	Family
B	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
B	IPR003585	Neurexin/syndecan/glycophorin C	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: 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
B	Pharos: P58401	attention deficit hyperactivity disorder, inattentive type autism spectrum disorder glioblastoma invasive ductal breast carcinoma malignant glioma osteosarcoma subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor Autism Spectrum Disorders gout large cell medulloblastoma malignant mesothelioma psoriasis autism breast cancer attention deficit hyperactivity disorder, inattentive type autism spectrum disorder glioblastoma invasive ductal breast carcinoma malignant glioma osteosarcoma subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor Autism Spectrum Disorders gout large cell medulloblastoma malignant mesothelioma psoriasis autism breast cancer intellectual disability malignant ependymoma medulloblastoma schizophrenia

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.