3R08 | pdb_00003r08

Crystal structure of mouse cd3epsilon in complex with antibody 2C11 Fab

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth E]	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8073453	3000071	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 [auth L]		e3r08L1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: ABC_tran	F:	ECOD (20:10:01)
B [auth H]		e3r08H1	A: beta-Grasp	X: Ubiquitin-related	H: Ubiquitin-like	T: ABC_tran	F:	ECOD (20:10:01)
B [auth H]		e3r08H3	A: Subtilisin-like	X: Subtilisin-like	H: Subtilisin-like	T: V-set	F:	ECOD (20:10:01)
C [auth E]		e3r08E1	A: cradle loop barrel	X: RIFT-related	H: acid protease	T: C1-set	F:	ECOD (20:10:01)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
A [auth L]	2C11 Fab, anti-CD3E /CD3E	L-KAPPA	Mus musculus (house mouse)	IGKV10-9402, IGKV10-9403, IGKV10-9404, IGKV10-9405, IGKV10-9408, IGKJ101, IGKC01, IGKC02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)
B [auth H]	2C11 Fab, anti-CD3E /CD3E	VH-CH1	Mus musculus (house mouse)	IGHV5-1701, IGHJ401, IGHG1*02	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202609-0)
C [auth E]	CD3E	CD3E	Mus musculus (house mouse)	CD3E*01	C-LIKE-DOMAIN C-LIKE	RPI	CD3E	IMGT (202609-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A [auth L]	Light Chain	IGKV14	Kappa	t-cell surface glycoprotein cd3 epsilon chain	SAbDab (2026-03-13)
B [auth H]	Heavy Chain	IGHV5	-	t-cell surface glycoprotein cd3 epsilon chain	SAbDab (2026-03-13)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth E]	PF16681	Ig-like domain on T-cell surface glycoprotein CD3 epsilon chain (Ig_5)	Ig-like domain on T-cell surface glycoprotein CD3 epsilon chain	Ig_5 is an immunoglobulin domain found on T-cell surface glycoprotein CD3 epsilon chain. It forms a first-order complex with T-cell surface glycoprotein CD3 delta chain as part of the T-cell receptor complex [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L]	Mouse anti-mouse CD3epsilon antibody 2C11 light chain	-	-	-
B [auth H]	Mouse anti-mouse CD3epsilon antibody 2C11 heavy chain	-	-	-
C [auth E]	T-cell surface glycoprotein CD3 epsilon chain	protein-macromolecule adaptor activity molecular adaptor activity SH3 domain binding protein binding binding protein domain specific binding identical protein binding molecular transducer activity transmembrane signaling receptor activity signaling receptor 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-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process cell surface receptor signaling pathway immune response-activating cell surface receptor signaling pathway immune response T cell receptor signaling pathway regulation of immune response antigen receptor-mediated signaling pathway activation of 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 regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process 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 positive regulation of cell-cell adhesion mediated by integrin cell-cell adhesion cell adhesion mediated by integrin regulation of cell-cell adhesion 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 cell activation alpha-beta T cell proliferation lymphocyte proliferation positive regulation of leukocyte activation alpha-beta T cell activation regulation of leukocyte proliferation cell population proliferation positive regulation of T cell activation 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 multicellular organismal process positive regulation of leukocyte cell-cell adhesion leukocyte proliferation leukocyte cell-cell adhesion regulation of alpha-beta T cell proliferation positive regulation of lymphocyte activation positive regulation of mononuclear cell proliferation regulation of multicellular organismal process T cell proliferation regulation of lymphocyte proliferation regulation of T cell activation regulation of T cell proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation positive thymic T cell selection positive T cell selection 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 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 smoothened signaling pathway 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 T cell tolerance induction T cell anergy T cell tolerance induction regulation of tolerance induction positive regulation of tolerance induction tolerance induction positive regulation of MAPK cascade regulation of MAPK cascade MAPK cascade plasma membrane bounded cell projection organization cell projection organization neuron projection development cellular component organization generation of neurons neurogenesis neuron differentiation dendrite development neuron development cellular component organization or biogenesis 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 cell death apoptotic signaling pathway apoptotic process programmed cell death lymphocyte costimulation T cell costimulation negative regulation of metabolic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of macromolecule metabolic process response to nutrient levels response to chemical response to nutrient 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 periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane cell-cell junction anchoring junction cell junction protein-containing complex plasma membrane protein complex plasma membrane signaling receptor complex membrane protein complex cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane cell-cell junction anchoring junction cell junction protein-containing complex plasma membrane protein complex plasma membrane signaling receptor complex membrane protein complex T cell receptor complex receptor complex immunological synapse 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 endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth E]	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
C [auth E]	IPR003598	Immunoglobulin subtype 2	Domain
C [auth E]	IPR015484	CD3 protein, epsilon/gamma/delta subunit	Family
C [auth E]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
C [auth E]	IPR007110	Immunoglobulin-like domain	Domain
C [auth E]	IPR003110	Phosphorylated immunoreceptor signalling ITAM	Repeat

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.