8F0L

Crystal Structure of the Human T cell Receptor CD3(EPSILON) N-Terminal Peptide Complexed with ADI-26906 FAB

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody 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)
B [auth L]	PF07654	e8f0lL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
B [auth L]	PF07686	e8f0lL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
D [auth B]	PF07654	e8f0lB2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
D [auth B]	PF07686	e8f0lB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
A [auth H]	PF07654	e8f0lH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
A [auth H]	PF07686	e8f0lH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
C [auth A]	PF07654	e8f0lA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
C [auth A]	PF07686	e8f0lA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth L], D [auth B]	Light Chain	IGKV4	Kappa	t-cell surface glycoprotein cd3 epsilon chain	SAbDab (2024-05-10)
A [auth H], C [auth A]	Heavy Chain	IGHV1	-	t-cell surface glycoprotein cd3 epsilon chain	SAbDab (2024-05-10)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth L], D [auth B]	ADI-26906 Fab Light Chain	-	-	-
A [auth H], C [auth A]	ADI-26906 Fab Heavy Chain	-	-	-
E [auth P], F [auth Q]	T-cell surface glycoprotein CD3 epsilon chain	SH3 domain binding protein binding binding protein domain specific binding protein-containing complex binding signaling receptor binding T cell receptor binding identical protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity kinase binding enzyme binding protein kinase binding SH3 domain binding protein binding binding protein domain specific binding protein-containing complex binding signaling receptor binding T cell receptor binding identical protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity kinase binding enzyme binding protein kinase binding signaling receptor complex adaptor activity protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity	cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of calcium-mediated signaling cellular response to stimulus positive regulation of cell communication regulation of cellular process positive regulation of signal transduction response to stimulus signaling positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette regulation of calcium-mediated signaling positive regulation of calcium-mediated signaling signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction regulation of response to stimulus calcium-mediated signaling regulation of cell communication cellular process positive regulation of signaling developmental process thymic T cell selection multicellular organismal process cellular developmental process hemopoiesis cell activation cell development mononuclear cell differentiation lymphocyte activation lymphocyte differentiation leukocyte activation T cell differentiation in thymus T cell activation immune system process cell differentiation negative thymic T cell selection anatomical structure development T cell differentiation negative T cell selection T cell selection leukocyte differentiation immune response adaptive immune response regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion cell-substrate adhesion positive regulation of cell-matrix adhesion cell adhesion cell-matrix adhesion positive regulation of cell-substrate adhesion regulation of cell-matrix adhesion cellular biosynthetic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of biosynthetic process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process gamma-delta T cell activation regulation of apoptotic process apoptotic process regulation of programmed cell death cell death programmed cell death head development animal organ development brain development nervous system development multicellular organism development cerebellum development central nervous system development metencephalon development hindbrain development system development alpha-beta T cell activation immune system development regulation of T cell anergy lymphocyte anergy regulation of lymphocyte anergy positive regulation of lymphocyte anergy positive regulation of T cell tolerance induction positive regulation of T cell anergy regulation of immune system process regulation of multicellular organismal process regulation of T cell tolerance induction positive regulation of immune system process T cell anergy T cell tolerance induction positive regulation of multicellular organismal process regulation of tolerance induction positive regulation of tolerance induction tolerance induction positive regulation of cell population proliferation regulation of leukocyte activation regulation of alpha-beta T cell activation positive regulation of alpha-beta T cell proliferation regulation of cell activation positive regulation of CD4-positive, alpha-beta T cell proliferation positive regulation of cell activation alpha-beta T cell proliferation lymphocyte proliferation positive regulation of leukocyte activation regulation of leukocyte proliferation cell population proliferation positive regulation of T cell activation regulation of CD4-positive, alpha-beta T cell proliferation positive regulation of lymphocyte proliferation positive regulation of T cell proliferation positive regulation of alpha-beta T cell activation regulation of cell population proliferation mononuclear cell proliferation regulation of leukocyte cell-cell adhesion positive regulation of leukocyte proliferation positive regulation of leukocyte cell-cell adhesion leukocyte proliferation leukocyte cell-cell adhesion positive regulation of cell-cell adhesion regulation of alpha-beta T cell proliferation positive regulation of lymphocyte activation positive regulation of CD4-positive, alpha-beta T cell activation cell-cell adhesion CD4-positive, alpha-beta T cell activation positive regulation of mononuclear cell proliferation regulation of cell-cell adhesion T cell proliferation regulation of lymphocyte proliferation CD4-positive, alpha-beta T cell proliferation regulation of T cell activation regulation of T cell proliferation regulation of CD4-positive, alpha-beta T cell activation regulation of mononuclear cell proliferation regulation of lymphocyte activation lymphocyte costimulation T cell costimulation protein-containing complex organization cellular component organization cellular component biogenesis signal complex assembly cellular component assembly protein-containing complex assembly cellular component organization or biogenesis cell surface receptor signaling pathway smoothened signaling pathway immune response-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response immune response-activating cell surface receptor signaling pathway T cell receptor signaling pathway regulation of immune response antigen receptor-mediated signaling pathway activation of immune response cell-cell adhesion mediated by integrin positive regulation of cell adhesion mediated by integrin regulation of cell adhesion mediated by integrin regulation of cell-cell adhesion mediated by integrin positive regulation of cell-cell adhesion mediated by integrin cell adhesion mediated by integrin positive thymic T cell selection positive T cell selection negative regulation of signaling negative regulation of biological process negative regulation of cell communication negative regulation of smoothened signaling pathway negative regulation of cellular process regulation of smoothened signaling pathway negative regulation of response to stimulus negative regulation of signal transduction plasma membrane bounded cell projection organization cell projection organization neuron projection development generation of neurons neurogenesis neuron differentiation dendrite development neuron development regulation of cytokine production cytokine production regulation of interleukin-2 production interleukin-2 production positive regulation of interleukin-2 production positive regulation of cytokine production apoptotic signaling pathway G protein-coupled receptor signaling pathway negative regulation of cellular metabolic process negative regulation of macromolecule metabolic process negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of interleukin-4 production positive regulation of interleukin-4 production interleukin-4 production regulation of type II interferon production type II interferon production positive regulation of type II interferon production cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway regulation of protein modification process positive regulation of phosphorylation regulation of protein phosphorylation positive regulation of protein metabolic process peptidyl-tyrosine modification positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of peptidyl-tyrosine phosphorylation positive regulation of protein modification process regulation of phosphate metabolic process peptidyl-amino acid modification phosphate-containing compound metabolic process protein metabolic process protein modification process phosphorus metabolic process positive regulation of protein phosphorylation organonitrogen compound metabolic process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process regulation of peptidyl-tyrosine phosphorylation primary metabolic process macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process peptidyl-tyrosine phosphorylation	protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex gamma-delta T cell receptor complex cellular anatomical entity receptor complex cell periphery plasma membrane signaling receptor complex T cell receptor complex cell surface external side of plasma membrane side of membrane protein-containing complex plasma membrane protein complex membrane plasma membrane membrane protein complex gamma-delta T cell receptor complex cellular anatomical entity receptor complex cell periphery plasma membrane signaling receptor complex T cell receptor complex cell surface external side of plasma membrane side of membrane cell-cell junction anchoring junction cell junction membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system alpha-beta T cell receptor complex neuron spine synapse neuron projection dendritic spine plasma membrane bounded cell projection somatodendritic compartment cell projection postsynapse dendrite dendritic tree cell body immunological synapse endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth P], F [auth Q]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
E [auth P], F [auth Q]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
E [auth P], F [auth Q]	IPR003110	Phosphorylated immunoreceptor signalling ITAM	Repeat
E [auth P], F [auth Q]	IPR003598	Immunoglobulin subtype 2	Domain
E [auth P], F [auth Q]	IPR015484	CD3 protein, epsilon/gamma/delta subunit	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
E [auth P], F [auth Q]	Pharos: P07766	immunodeficiency 18 severe combined immunodeficiency rheumatoid arthritis gastrointestinal stromal tumor primary immunodeficiency disease Inflammation lung carcinoma psoriasis lung adenocarcinoma malignant glioma non-small cell lung carcinoma glioblastoma lung cancer Omenn syndrome cutaneous lupus erythematosus immunodeficiency 18 severe combined immunodeficiency rheumatoid arthritis gastrointestinal stromal tumor primary immunodeficiency disease Inflammation lung carcinoma psoriasis lung adenocarcinoma malignant glioma non-small cell lung carcinoma glioblastoma lung cancer Omenn syndrome cutaneous lupus erythematosus MHC class II deficiency ovarian cancer

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A [auth H], C [auth A]	PCA	Parent Component: GLN RESID: AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420
E [auth P], F [auth Q]	PCA	Parent Component: GLN RESID: AA0031 , AA0031 PSI-MOD : 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420 , 2-pyrrolidone-5-carboxylic acid (Gln) MOD:00040 , 2-pyrrolidone-5-carboxylic acid (Glu) MOD:00420

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 R01GM133198.