LILRB2 leukocyte immunoglobulin like receptor B2 [Homo sapiens (human)] - Gene

Summary

Official Symbol: LILRB2provided by HGNC
Official Full Name: leukocyte immunoglobulin like receptor B2provided by HGNC
Primary source: HGNC:HGNC:6606
See related: Ensembl:ENSG00000131042 MIM:604815; AllianceGenome:HGNC:6606
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: ILT4; LIR2; CD85D; ILT-4; LIR-2; MIR10; MIR-10
Summary: This gene is a member of the leukocyte immunoglobulin-like receptor (LIR) family, which is found in a gene cluster at chromosomal region 19q13.4. The encoded protein belongs to the subfamily B class of LIR receptors which contain two or four extracellular immunoglobulin domains, a transmembrane domain, and two to four cytoplasmic immunoreceptor tyrosine-based inhibitory motifs (ITIMs). The receptor is expressed on immune cells where it binds to MHC class I molecules on antigen-presenting cells and transduces a negative signal that inhibits stimulation of an immune response. It is thought to control inflammatory responses and cytotoxicity to help focus the immune response and limit autoreactivity. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Expression: Biased expression in appendix (RPKM 54.6), bone marrow (RPKM 26.2) and 5 other tissues See more
Orthologs: all
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Genomic context

Location:: 19q13.42

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	19	NC_000019.10 (54273812..54281110, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	19	NC_060943.1 (57356204..57363500, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	19	NC_000019.9 (54777666..54784965, complement)

Chromosome 19 - NC_000019.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Genome-Wide Association Analysis Identifies LILRB2 Gene for Pathological Myopia.
Title: Genome-Wide Association Analysis Identifies LILRB2 Gene for Pathological Myopia.
ILT2 and ILT4 Drive Myeloid Suppression via Both Overlapping and Distinct Mechanisms.
Title: ILT2 and ILT4 Drive Myeloid Suppression via Both Overlapping and Distinct Mechanisms.
ILT4 reprograms glucose metabolism to promote tumor progression in triple-negative breast cancer.
Title: ILT4 reprograms glucose metabolism to promote tumor progression in triple-negative breast cancer.
LILRB2/PirB mediates macrophage recruitment in fibrogenesis of nonalcoholic steatohepatitis.
Title: LILRB2/PirB mediates macrophage recruitment in fibrogenesis of nonalcoholic steatohepatitis.
Genetic diversity of the LILRB1 and LILRB2 coding regions in an admixed Brazilian population sample.
Title: Genetic diversity of the LILRB1 and LILRB2 coding regions in an admixed Brazilian population sample.
Placental Malaria is Associated with Higher LILRB2 Expression in Monocyte Subsets and Lower Anti-Malarial IgG Antibodies During Infancy.
Title: Placental Malaria is Associated with Higher LILRB2 Expression in Monocyte Subsets and Lower Anti-Malarial IgG Antibodies During Infancy.
Antibody-Mediated LILRB2-Receptor Antagonism Induces Human Myeloid-Derived Suppressor Cells to Kill Mycobacterium tuberculosis.
Title: Antibody-Mediated LILRB2-Receptor Antagonism Induces Human Myeloid-Derived Suppressor Cells to Kill Mycobacterium tuberculosis.
LILRB2-mediated TREM2 signaling inhibition suppresses microglia functions.
Title: LILRB2-mediated TREM2 signaling inhibition suppresses microglia functions.
Prognostic significance of the immune checkpoint HLA-G/ILT-4 in the survival of patients with gastric cancer.
Title: Prognostic significance of the immune checkpoint HLA-G/ILT-4 in the survival of patients with gastric cancer.
Tumor-derived ILT4 induces T cell senescence and suppresses tumor immunity.
Title: Tumor-derived ILT4 induces T cell senescence and suppresses tumor immunity.

Submit: New GeneRIF Correction See all GeneRIFs (68)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Biological, clinical and population relevance of 95 loci for blood lipids. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

ECD18254 (e-PCR)
- UniSTS:299265

REN91988 (e-PCR)
- UniSTS:416786

REN91989 (e-PCR)
- UniSTS:416787

stSG605930 (e-PCR)
- UniSTS:448053

stSG605931 (e-PCR)
- UniSTS:448054

stSG605948 (e-PCR)
- UniSTS:448067

ECD09101 (e-PCR)
- UniSTS:290147

REN93617 (e-PCR)
- UniSTS:418415

REN93618 (e-PCR)
- UniSTS:418416

ECD11182 (e-PCR)
- UniSTS:292218

REN92094 (e-PCR)
- UniSTS:416892

ECD00616 (e-PCR)
- UniSTS:281725

REN93644 (e-PCR)
- UniSTS:418442

REN93646 (e-PCR)
- UniSTS:418444

REN93648 (e-PCR)
- UniSTS:418446

ECD00642 (e-PCR)
- UniSTS:281751

WI-15638 (e-PCR)
- UniSTS:80055

ECD12015 (e-PCR)
- UniSTS:293048

ECD12272 (e-PCR)
- UniSTS:293305

ECD00165 (e-PCR)
- UniSTS:281279

ECD12535 (e-PCR)
- UniSTS:293568

REN92183 (e-PCR)
- UniSTS:416981

REN92184 (e-PCR)
- UniSTS:416982

REN92185 (e-PCR)
- UniSTS:416983

REN93465 (e-PCR)
- UniSTS:418263

stSG606188 (e-PCR)
- UniSTS:448215

REN92186 (e-PCR)
- UniSTS:416984

REN93466 (e-PCR)
- UniSTS:418264

REN92187 (e-PCR)
- UniSTS:416985

REN92188 (e-PCR)
- UniSTS:416986

REN92189 (e-PCR)
- UniSTS:416987

REN92190 (e-PCR)
- UniSTS:416988

ECD00454 (e-PCR)
- UniSTS:281565

REN92191 (e-PCR)
- UniSTS:416989

REN92192 (e-PCR)
- UniSTS:416990

REN92193 (e-PCR)
- UniSTS:416991

REN92194 (e-PCR)
- UniSTS:416992

REN92195 (e-PCR)
- UniSTS:416993

REN92196 (e-PCR)
- UniSTS:416994

REN92197 (e-PCR)
- UniSTS:416995

REN92198 (e-PCR)
- UniSTS:416996

REN92199 (e-PCR)
- UniSTS:416997

REN92200 (e-PCR)
- UniSTS:416998

REN92201 (e-PCR)
- UniSTS:416999

REN92202 (e-PCR)
- UniSTS:417000

REN92205 (e-PCR)
- UniSTS:417003

REN92206 (e-PCR)
- UniSTS:417004

REN92207 (e-PCR)
- UniSTS:417005

REN92208 (e-PCR)
- UniSTS:417006

REN92209 (e-PCR)
- UniSTS:417007

REN92212 (e-PCR)
- UniSTS:417010

REN92213 (e-PCR)
- UniSTS:417011

REN92214 (e-PCR)
- UniSTS:417012

REN92216 (e-PCR)
- UniSTS:417014

REN92217 (e-PCR)
- UniSTS:417015

REN92218 (e-PCR)
- UniSTS:417016

REN92219 (e-PCR)
- UniSTS:417017

REN92220 (e-PCR)
- UniSTS:417018

REN92221 (e-PCR)
- UniSTS:417019

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables MHC class I protein binding	IDA Inferred from Direct Assay more info	PubMed
enables MHC class I protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables MHC class Ib protein binding	IDA Inferred from Direct Assay more info	PubMed
enables MHC class Ib protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables MHC class Ib protein complex binding	IDA Inferred from Direct Assay more info	PubMed
enables amyloid-beta binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables amyloid-beta binding	TAS Traceable Author Statement more info	PubMed
enables cell adhesion molecule binding	IPI Inferred from Physical Interaction more info	PubMed
enables inhibitory MHC class I receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables inhibitory MHC class I receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables inhibitory MHC class I receptor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase 1 binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in Fc receptor mediated inhibitory signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in adaptive immune response	IEA Inferred from Electronic Annotation more info
involved_in cell surface receptor signaling pathway	TAS Traceable Author Statement more info	PubMed
involved_in cell-cell signaling	TAS Traceable Author Statement more info	PubMed
involved_in cellular defense response	TAS Traceable Author Statement more info	PubMed
involved_in cellular response to lipopolysaccharide	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in heterotypic cell-cell adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in immune response	TAS Traceable Author Statement more info	PubMed
involved_in immune response-inhibiting cell surface receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in immune response-inhibiting cell surface receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in immune response-regulating signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in interleukin-10-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in interleukin-10-mediated signaling pathway	IEP Inferred from Expression Pattern more info	PubMed
involved_in learning or memory	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in negative regulation of T cell costimulation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of T cell proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of T cell proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of antigen processing and presentation	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of calcium ion transport	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of postsynaptic density organization	IC Inferred by Curator more info
involved_in negative regulation of protein metabolic process	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in positive regulation of T cell proliferation	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of T cell tolerance induction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of interleukin-6 production	NAS Non-traceable Author Statement more info	PubMed
involved_in positive regulation of long-term synaptic depression	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in positive regulation of regulatory T cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of tolerance induction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of dendritic cell differentiation	IC Inferred by Curator more info	PubMed
involved_in regulation of long-term synaptic potentiation	ISS Inferred from Sequence or Structural Similarity more info	PubMed
involved_in signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
located_in ficolin-1-rich granule membrane	TAS Traceable Author Statement more info
located_in membrane	TAS Traceable Author Statement more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IC Inferred by Curator more info	PubMed
located_in plasma membrane	TAS Traceable Author Statement more info
located_in tertiary granule membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: leukocyte immunoglobulin-like receptor subfamily B member 2

Names: CD85 antigen-like family member D; Ig-like transcript 4; leucocyte Ig-like receptor B2; leukocyte immunoglobulin-like receptor, subfamily B (with TM and ITIM domains), member 2; monocyte/macrophage immunoglobulin-like receptor 10; myeloid inhibitory receptor 10

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001080978.4 → NP_001074447.2 leukocyte immunoglobulin-like receptor subfamily B member 2 isoform 2 precursor

See identical proteins and their annotated locations for NP_001074447.2

Status: REVIEWED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1. Both variants 2 and 3 encode the same isoform.

Source sequence(s)

AC245052, AF004231, AK226015, DC429053

Consensus CDS

CCDS42612.1

UniProtKB/Swiss-Prot

A2IXV5, A8MU67, C9JF29, O75017, Q8N423, Q8NHJ7, Q8NHJ8

UniProtKB/TrEMBL

A0A0G2JNQ7

Related

ENSP00000319960.5, ENST00000314446.10

Conserved Domains (2) summary

smart00410
Location:231 → 296

IG_like; Immunoglobulin like

cl11960
Location:27 → 118

Ig; Immunoglobulin domain
NM_001278403.3 → NP_001265332.2 leukocyte immunoglobulin-like receptor subfamily B member 2 isoform 2 precursor

See identical proteins and their annotated locations for NP_001265332.2

Status: REVIEWED

Description

Transcript Variant: This variant (3) differs in the 5' UTR and uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1. Both variants 2 and 3 encode the same isoform.

Source sequence(s)

AC245052, AF004231

Consensus CDS

CCDS42612.1

UniProtKB/Swiss-Prot

A2IXV5, A8MU67, C9JF29, O75017, Q8N423, Q8NHJ7, Q8NHJ8

UniProtKB/TrEMBL

A0A0G2JNQ7

Related

ENSP00000375628.1, ENST00000391748.5

Conserved Domains (2) summary

smart00410
Location:231 → 296

IG_like; Immunoglobulin like

cl11960
Location:27 → 118

Ig; Immunoglobulin domain
NM_001278404.3 → NP_001265333.2 leukocyte immunoglobulin-like receptor subfamily B member 2 isoform 3

Status: REVIEWED

Description

Transcript Variant: This variant (4) lacks a portion of the 5' coding region, and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) has a shorter N-terminus, compared to isoform 1.

Source sequence(s)

AC245052, AF004231, AK226015, AK297041, DC429053

Consensus CDS

CCDS62791.1

UniProtKB/TrEMBL

A0A0G2JNT8

Related

ENSP00000410117.1, ENST00000434421.5

Conserved Domains (2) summary

smart00410
Location:115 → 180

IG_like; Immunoglobulin like

cl11960
Location:7 → 102

Ig; Immunoglobulin domain
NM_001278405.2 → NP_001265334.2 leukocyte immunoglobulin-like receptor subfamily B member 2 isoform 4 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (5) has a shorter 5' UTR, and lacks an internal exon which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (4) has a shorter and distinct C-terminus, compared to isoform 1.

Source sequence(s)

AF004231, AF011566

Consensus CDS

CCDS62792.1

UniProtKB/TrEMBL

A0A0G2JNH0

Related

ENSP00000375626.1, ENST00000391746.5

Conserved Domains (2) summary

smart00410
Location:231 → 296

IG_like; Immunoglobulin like

cl11960
Location:27 → 118

Ig; Immunoglobulin domain
NM_001278406.2 → NP_001265335.2 leukocyte immunoglobulin-like receptor subfamily B member 2 isoform 5 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (6) has a shorter 5' UTR, lacks several exons, and its 3'-terminal exon extends past a splice site that is used in variant 1. The resulting protein (isoform 5) has a shorter and distinct C-terminus, compared to isoform 1. Isoform 5 lacks the transmembrane domain found in isoform 1 and is suspected to be soluble (PMID: 19658091).

Source sequence(s)

AF004231, EU915606

UniProtKB/TrEMBL

A0A140JSW6

Conserved Domains (2) summary

smart00410
Location:231 → 296

IG_like; Immunoglobulin like

cl11960
Location:27 → 118

Ig; Immunoglobulin domain
NM_005874.5 → NP_005865.3 leukocyte immunoglobulin-like receptor subfamily B member 2 isoform 1 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).

Source sequence(s)

AC245052, AF004231, AK226015, AK297041, DC429053

Consensus CDS

CCDS12886.1

UniProtKB/TrEMBL

A0A0G2JNQ7

Related

ENSP00000375629.4, ENST00000391749.4

Conserved Domains (2) summary

smart00410
Location:231 → 296

IG_like; Immunoglobulin like

cl11960
Location:27 → 118

Ig; Immunoglobulin domain

RNA

NR_103521.3 RNA Sequence

Status: REVIEWED

Description

Transcript Variant: This variant (7) uses an alternate 5' exon structure and two alternate splice sites at internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

AC245052, AF004231, AK310263, DC429031