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

    Gene ID: 10288, updated on 10-Dec-2024

    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See LILRB2 in Genome Data Viewer
    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_000019.10Genomic Context describing neighboring genes Neighboring gene RNA, U6 small nuclear 1307, pseudogene Neighboring gene Sharpr-MPRA regulatory region 15373 Neighboring gene YME1 like 1 ATPase pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:54778410-54779374 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr19:54782879-54784078 Neighboring gene microRNA 4752 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:54789309-54789810 Neighboring gene MPRA-validated peak3552 silencer Neighboring gene leukocyte immunoglobulin like receptor A5

    Genomic regions, transcripts, and products

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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

    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)

    NEW Try the new Transcript table

    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)

    1. NM_001080978.4NP_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:231296
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    2. NM_001278403.3NP_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:231296
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    3. NM_001278404.3NP_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:115180
      IG_like; Immunoglobulin like
      cl11960
      Location:7102
      Ig; Immunoglobulin domain
    4. NM_001278405.2NP_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:231296
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    5. NM_001278406.2NP_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:231296
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain
    6. NM_005874.5NP_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:231296
      IG_like; Immunoglobulin like
      cl11960
      Location:27118
      Ig; Immunoglobulin domain

    RNA

    1. 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

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      54273812..54281110 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NW_003571054.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      248553..255849 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_7

    Genomic

    1. NW_003571060.1 Reference GRCh38.p14 ALT_REF_LOCI_7

      Range
      248796..288281 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_8

    Genomic

    1. NW_003571061.2 Reference GRCh38.p14 ALT_REF_LOCI_8

      Range
      248808..256104 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 ALT_REF_LOCI_9

    Genomic

    1. NT_187693.1 Reference GRCh38.p14 ALT_REF_LOCI_9

      Range
      248780..256079 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      57356204..57363500 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)