2PTT | pdb_00002ptt

Structure of NK cell receptor 2B4 (CD244) bound to its ligand 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)
B	SCOP2 Family	V set domains-like	8046481	4007530	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Immunoglobulin (Ig) domain-like	8101877	3000071	SCOP2 (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	Peptidase_M10	e2pttA1	A: a/b three-layered sandwiches	X: Profilin-like	H: sensor domains	T: sensor domains	F: Peptidase_M10	ECOD (v294.1)
B	Peptidase_M10	e2pttB1	A: a/b three-layered sandwiches	X: Profilin-like	H: sensor domains	T: sensor domains	F: Peptidase_M10	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)
B	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	CD48	1V-LIKE	Mus musculus (house mouse)	CD48*01	V-LIKE-DOMAIN V-LIKE	RPI	1V-LIKE_1V-LIKE	IMGT (202612-0)
B	CD48	1V-LIKE	Mus musculus (house mouse)	CD244*01	V-LIKE-DOMAIN V-LIKE	RPI	1V-LIKE_1V-LIKE	IMGT (202612-0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
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
B	PF11465	Natural killer cell receptor 2B4 (Receptor_2B4)	Natural killer cell receptor 2B4	2B4 is a transmembrane receptor which is expressed primarily on natural killer cells. It plays a role in activating NK-mediated cytotoxicity through its interaction with CD48 on target cells in a subset of CD8 T cells [1]. The structure of 2B4 consis ...	2B4 is a transmembrane receptor which is expressed primarily on natural killer cells. It plays a role in activating NK-mediated cytotoxicity through its interaction with CD48 on target cells in a subset of CD8 T cells [1]. The structure of 2B4 consists of an immunoglobulin variable domain fold and contains two beta-sheets. One of the beta-sheets, the six-stranded sheet, contains structural features that may have a role in ligand recognition and receptor function [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	CD48 antigen	molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity	multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation mast cell activation myeloid leukocyte activation natural killer cell activation response to stimulus immune response cellular response to stimulus regulation of biological process multicellular organismal process T cell activation immune system process cell activation cellular process lymphocyte activation leukocyte activation mast cell activation myeloid leukocyte activation natural killer cell activation response to stimulus immune response cellular response to stimulus regulation of biological process regulation of cellular process signaling biological regulation signal transduction cell communication	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular region membrane microdomain membrane raft protein-containing complex
B	Natural killer cell receptor 2B4	molecular transducer activity signaling receptor activity protein binding binding MHC class I protein binding signaling receptor binding MHC protein binding	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 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 cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process positive regulation of cytokine production regulation of metabolic process regulation of interleukin-8 production positive regulation of cell population proliferation CD8-positive, alpha-beta T cell activation regulation of alpha-beta T cell activation regulation of leukocyte activation CD8-positive, alpha-beta T cell proliferation positive regulation of alpha-beta T cell proliferation regulation of cell activation positive regulation of CD8-positive, alpha-beta T cell activation positive regulation of cell activation T cell activation alpha-beta T cell proliferation lymphocyte proliferation positive regulation of leukocyte activation positive regulation of CD8-positive, alpha-beta T cell proliferation alpha-beta T cell activation regulation of immune system process positive regulation of immune system process regulation of leukocyte proliferation positive regulation of T cell activation cell population proliferation regulation of CD8-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 mononuclear cell proliferation regulation of cell population proliferation regulation of leukocyte cell-cell adhesion positive regulation of leukocyte proliferation positive regulation of leukocyte cell-cell adhesion lymphocyte activation leukocyte cell-cell adhesion leukocyte proliferation leukocyte activation positive regulation of cell-cell adhesion positive regulation of lymphocyte activation regulation of alpha-beta T cell proliferation cell adhesion cell-cell adhesion positive regulation of mononuclear cell proliferation regulation of cell-cell adhesion T cell proliferation regulation of lymphocyte proliferation positive regulation of cell adhesion regulation of cell adhesion cell activation regulation of T cell activation regulation of T cell proliferation immune system process regulation of mononuclear cell proliferation regulation of CD8-positive, alpha-beta T cell activation regulation of lymphocyte activation response to stimulus immune response adaptive immune response natural killer cell activation biological process involved in interspecies interaction between organisms cell activation involved in immune response response to biotic stimulus response to stress natural killer cell activation involved in immune response leukocyte activation involved in immune response innate immune response response to external biotic stimulus lymphocyte activation involved in immune response response to other organism defense response defense response to symbiont response to external stimulus immune effector process defense response to other organism myeloid dendritic cell activation myeloid leukocyte activation positive regulation of granzyme B production regulation of immune effector process granzyme B production positive regulation of immune effector process production of molecular mediator of immune response regulation of granzyme B production positive regulation of production of molecular mediator of immune response regulation of production of molecular mediator of immune response positive regulation of natural killer cell proliferation regulation of natural killer cell activation positive regulation of natural killer cell activation natural killer cell proliferation regulation of natural killer cell proliferation regulation of inositol phosphate biosynthetic process alcohol metabolic process positive regulation of phosphate metabolic process inositol phosphate metabolic process regulation of primary metabolic process regulation of small molecule metabolic process phosphate-containing compound metabolic process polyol biosynthetic process small molecule metabolic process phosphorus metabolic process regulation of carbohydrate metabolic process carbohydrate metabolic process polyol metabolic process positive regulation of phosphorus metabolic process regulation of alcohol biosynthetic process small molecule biosynthetic process carbohydrate biosynthetic process primary metabolic process positive regulation of inositol phosphate biosynthetic process organophosphate metabolic process organophosphate biosynthetic process inositol phosphate biosynthetic process alcohol biosynthetic process regulation of phosphorus metabolic process positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process positive regulation of small molecule metabolic process positive regulation of alcohol biosynthetic process 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 membrane microdomain membrane raft

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
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
B	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B	IPR024303	Natural killer cell receptor 2B4, immunoglobulin domain	Domain
B	IPR015631	CD2/SLAM family receptor	Family
B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily

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.