2DRU | pdb_00002dru

Crystal structure and binding properties of the CD2 and CD244 (2B4) binding protein, CD48

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT 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)
A	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054745	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	Nuc_deoxyrib_tr	e2druA3	A: a/b three-layered sandwiches	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: Nuc_deoxyrib_tr	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

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	Chimera of CD48 and CD2	1V-1C-LIKE	Rattus norvegicus (Norway rat)	CD48*01	V-LIKE-DOMAIN V-LIKE	RPI	1V-1C-LIKE	IMGT (202611-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF05790	Immunoglobulin C2-set domain (C2-set)	Immunoglobulin C2-set domain		Domain
A	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	chimera of CD48 antigen and T-cell surface antigen CD2	protein binding binding signaling receptor binding kinase binding enzyme binding protein kinase binding protein tyrosine kinase binding receptor tyrosine kinase binding identical protein binding molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity	response to stimulus immune response immune system process lymphocyte mediated immunity biological process involved in interspecies interaction between organisms response to other organism defense response defense response to symbiont response to external stimulus leukocyte mediated cytotoxicity response to biotic stimulus immune effector process defense response to other organism response to stress response to stimulus immune response immune system process lymphocyte mediated immunity biological process involved in interspecies interaction between organisms response to other organism defense response defense response to symbiont response to external stimulus leukocyte mediated cytotoxicity response to biotic stimulus immune effector process defense response to other organism response to stress natural killer cell mediated cytotoxicity innate immune response leukocyte mediated immunity cellular process response to external biotic stimulus natural killer cell mediated immunity cell killing multicellular organismal process regulation of cellular process positive regulation of interleukin-8 production positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process cytokine production regulation of cytokine production positive regulation of macromolecule metabolic process regulation of multicellular organismal process positive regulation of cellular process regulation of biosynthetic process regulation of biological process biological regulation interleukin-8 production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process positive regulation of cytokine production regulation of metabolic process regulation of interleukin-8 production cell activation natural killer cell activation lymphocyte activation leukocyte activation cell adhesion cell-cell adhesion heterotypic cell-cell adhesion regulation of tumor necrosis factor production positive regulation of tumor necrosis factor superfamily cytokine production tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production regulation of type II interferon production type II interferon production positive regulation of type II interferon production T cell activation mast cell activation myeloid leukocyte activation cellular response to stimulus signaling signal transduction cell communication	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 membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen 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 membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex Golgi apparatus cytoplasm endomembrane system extracellular region cytoplasmic side of plasma membrane cytoplasmic side of membrane membrane microdomain membrane raft

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR015632	T-cell surface antigen CD2	Family
A	IPR013106	Immunoglobulin V-set domain	Domain
A	IPR008424	Immunoglobulin C2-set	Domain
A	IPR015631	CD2/SLAM family receptor	Family
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR015631	CD2/SLAM family receptor	Family
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR013106	Immunoglobulin V-set domain	Domain
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR007110	Immunoglobulin-like domain	Domain

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.