1UFU | pdb_00001ufu

Crystal structure of ligand binding domain of immunoglobulin-like transcript 2 (ILT2; LIR-1)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1ufua1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	I set domains	Ligand binding domain of lir-1 (ilt2)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

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	8055614	3000071	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054837	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	Copper-bind	e1ufuA1	A: alpha bundles	X: Cloacin translocation domain	H: beta-Prism I	T: beta-Prism I	F: Copper-bind	ECOD (develop294)

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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13895	Immunoglobulin domain (Ig_2)	Immunoglobulin domain	This domain contains immunoglobulin-like domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Immunoglobulin-like transcript 2	MHC class Ib receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity immune receptor activity inhibitory MHC class I receptor activity MHC class I receptor activity HLA-B specific inhibitory MHC class I receptor activity MHC class Ib protein binding protein binding binding signaling receptor binding MHC protein binding protein phosphatase binding MHC class Ib receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity immune receptor activity inhibitory MHC class I receptor activity MHC class I receptor activity HLA-B specific inhibitory MHC class I receptor activity MHC class Ib protein binding protein binding binding signaling receptor binding MHC protein binding protein phosphatase binding phosphatase binding protein phosphatase 1 binding enzyme binding HLA-A specific inhibitory MHC class I receptor activity protein-containing complex binding MHC protein complex binding MHC class Ib protein complex binding SH2 domain binding protein domain specific binding identical protein binding protein homodimerization activity protein dimerization activity MHC class I protein binding	regulation of transforming growth factor beta production multicellular organismal process regulation of cellular process negative regulation of biological process regulation of cytokine production cytokine production negative regulation of cellular process regulation of multicellular organismal process transforming growth factor beta production negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation regulation of transforming growth factor beta production multicellular organismal process regulation of cellular process negative regulation of biological process regulation of cytokine production cytokine production negative regulation of cellular process regulation of multicellular organismal process transforming growth factor beta production negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of biological process negative regulation of metabolic process biological regulation negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process negative regulation of transforming growth factor beta production regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process negative regulation of multicellular organismal process regulation of metabolic process regulation of alpha-beta T cell activation regulation of leukocyte activation regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte cell-cell adhesion negative regulation of cell adhesion leukocyte activation cell adhesion cell-cell adhesion T cell activation alpha-beta T cell activation regulation of immune system process regulation of cell-cell adhesion regulation of cell adhesion cell activation regulation of T cell activation negative regulation of cell activation negative regulation of T cell activation negative regulation of immune system process negative regulation of leukocyte cell-cell adhesion immune system process negative regulation of cell-cell adhesion regulation of leukocyte cell-cell adhesion negative regulation of alpha-beta T cell activation negative regulation of leukocyte activation regulation of lymphocyte activation regulation of leukocyte proliferation negative regulation of cell population proliferation cell population proliferation leukocyte proliferation negative regulation of mononuclear cell proliferation negative regulation of leukocyte proliferation regulation of cell population proliferation mononuclear cell proliferation regulation of mononuclear cell proliferation regulation of tumor necrosis factor production negative regulation of tumor necrosis factor production tumor necrosis factor superfamily cytokine production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production negative regulation of tumor necrosis factor superfamily cytokine production response to stimulus immune response adaptive immune response localization import into cell receptor internalization transport receptor-mediated endocytosis endocytosis establishment of localization vesicle-mediated transport positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of gene expression positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process negative regulation of cell cycle cell cycle regulation of cell cycle positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death negative regulation of lymphocyte proliferation negative regulation of T cell proliferation lymphocyte proliferation T cell proliferation regulation of lymphocyte proliferation regulation of T cell proliferation regulation of immune effector process cytokine production involved in immune response production of molecular mediator of immune response negative regulation of cytokine production involved in immune response regulation of cytokine production involved in immune response negative regulation of immune effector process immune effector process negative regulation of production of molecular mediator of immune response regulation of production of molecular mediator of immune response regulation of leukocyte differentiation cellular developmental process regulation of developmental process negative regulation of dendritic cell differentiation cell development mononuclear cell differentiation regulation of cell differentiation regulation of cell development multicellular organism development cell differentiation anatomical structure development negative regulation of cell differentiation negative regulation of hemopoiesis developmental process regulation of multicellular organismal development negative regulation of leukocyte differentiation hemopoiesis negative regulation of developmental process regulation of dendritic cell differentiation negative regulation of cell development regulation of hemopoiesis dendritic cell differentiation leukocyte differentiation regulation of localization regulation of calcium ion transport regulation of transport negative regulation of monoatomic ion transport regulation of monoatomic ion transport negative regulation of transport calcium ion transport metal ion transport negative regulation of calcium ion transport monoatomic ion transport monoatomic cation transport regulation of metal ion transport adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity T cell mediated immunity negative regulation of lymphocyte mediated immunity regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains negative regulation of leukocyte mediated cytotoxicity leukocyte mediated immunity negative regulation of cell killing regulation of T cell mediated immunity T cell mediated cytotoxicity regulation of adaptive immune response negative regulation of response to stimulus negative regulation of immune response negative regulation of T cell mediated cytotoxicity regulation of leukocyte mediated cytotoxicity negative regulation of adaptive immune response leukocyte mediated cytotoxicity negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of leukocyte mediated immunity regulation of T cell mediated cytotoxicity regulation of lymphocyte mediated immunity regulation of response to stimulus regulation of immune response regulation of cell killing negative regulation of leukocyte mediated immunity negative regulation of T cell mediated immunity cell killing regulation of cellular component organization negative regulation of cellular component organization negative regulation of endocytosis regulation of vesicle-mediated transport cellular component organization cellular component organization or biogenesis regulation of endocytosis regulation of type II interferon production type II interferon production negative regulation of type II interferon production regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus defense response response to other organism response to external stimulus response to biotic stimulus regulation of defense response to virus defense response to virus response to stress regulation of response to stress positive regulation of defense response to virus by host regulation of defense response to virus by host response to external biotic stimulus response to virus positive regulation of myeloid leukocyte cytokine production involved in immune response positive regulation of immune effector process myeloid leukocyte cytokine production positive regulation of immune system process regulation of macrophage cytokine production positive regulation of cytokine production involved in immune response positive regulation of production of molecular mediator of immune response positive regulation of multicellular organismal process positive regulation of cytokine production positive regulation of macrophage cytokine production macrophage cytokine production positive regulation of DNA-templated transcription RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription cellular response to stimulus signaling cell communication immune response-regulating signaling pathway signal transduction immune response-regulating cell surface receptor signaling pathway Fc receptor mediated inhibitory signaling pathway cell surface receptor signaling pathway immune response-inhibiting cell surface receptor signaling pathway immune response-inhibiting signal transduction monoamine transport nitrogen compound transport organic hydroxy compound transport secretion by cell negative regulation of secretion regulation of secretion by cell signal release negative regulation of secretion by cell serotonin secretion negative regulation of serotonin secretion secretion cell-cell signaling export from cell serotonin transport regulation of serotonin secretion regulation of secretion skeletal system development regulation of osteoclast development system development regulation of myeloid leukocyte differentiation negative regulation of myeloid cell differentiation negative regulation of myeloid leukocyte differentiation osteoclast development myeloid leukocyte differentiation regulation of osteoclast differentiation bone cell development osteoclast differentiation bone development regulation of myeloid cell differentiation animal organ development negative regulation of osteoclast differentiation negative regulation of osteoclast development myeloid cell differentiation myeloid cell development response to lipid cellular response to lipopolysaccharide response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to biotic stimulus cellular response to chemical stimulus response to chemical response to bacterium cellular response to lipid response to molecule of bacterial origin negative regulation of type I interferon production regulation of interferon-beta production interferon-beta production type I interferon production negative regulation of interferon-beta production regulation of type I interferon production negative regulation of interleukin-10 production interleukin-10 production regulation of interleukin-10 production negative regulation of natural killer cell mediated immunity natural killer cell mediated immunity regulation of natural killer cell mediated immunity regulation of innate immune response defense response to other organism negative regulation of response to external stimulus negative regulation of defense response natural killer cell mediated cytotoxicity negative regulation of natural killer cell mediated cytotoxicity regulation of natural killer cell mediated cytotoxicity negative regulation of response to biotic stimulus innate immune response defense response to symbiont negative regulation of innate immune response regulation of leukocyte apoptotic process dendritic cell apoptotic process negative regulation of dendritic cell apoptotic process negative regulation of programmed cell death leukocyte apoptotic process negative regulation of apoptotic process negative regulation of leukocyte apoptotic process regulation of dendritic cell apoptotic process response to cytokine cytokine-mediated signaling pathway response to peptide interleukin-10-mediated signaling pathway cellular response to cytokine stimulus cell activation involved in immune response T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell T cell activation involved in immune response leukocyte activation involved in immune response lymphocyte activation involved in immune response regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell negative regulation of T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell regulation of interleukin-12 production negative regulation of interleukin-12 production interleukin-12 production T cell proliferation involved in immune response positive regulation of type II interferon production CD8-positive, alpha-beta T cell activation negative regulation of CD8-positive, alpha-beta T cell activation regulation of CD8-positive, alpha-beta T cell activation	cell periphery cellular anatomical structure cell surface membrane plasma membrane external side of plasma membrane side of membrane intracellular anatomical structure cytoplasm extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR050412	Immunoglobulin-like Receptors in Immune Regulation	Family
A	IPR003599	Immunoglobulin domain subtype	Domain
A	IPR013151	Immunoglobulin-like beta-sandwich domain	Domain
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR007110	Immunoglobulin-like domain	Domain
A	IPR003598	Immunoglobulin subtype 2	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q8NHL6	chronic obstructive pulmonary disease head and neck cancer lung carcinoma non-small cell lung carcinoma peripheral nervous system disease psoriasis subependymal giant cell astrocytoma cutaneous lupus erythematosus interstitial cystitis MALT lymphoma osteosarcoma peripheral neuropathy schizophrenia ulcerative colitis glioblastoma chronic obstructive pulmonary disease head and neck cancer lung carcinoma non-small cell lung carcinoma peripheral nervous system disease psoriasis subependymal giant cell astrocytoma cutaneous lupus erythematosus interstitial cystitis MALT lymphoma osteosarcoma peripheral neuropathy schizophrenia ulcerative colitis glioblastoma large cell medulloblastoma medulloblastoma ovarian cancer pilocytic astrocytoma Sjogren syndrome

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.