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MICB MHC class I polypeptide-related sequence B [ Homo sapiens (human) ]

Gene ID: 4277, updated on 31-Dec-2018

Summary

Official Symbol
MICBprovided by HGNC
Official Full Name
MHC class I polypeptide-related sequence Bprovided by HGNC
Primary source
HGNC:HGNC:7091
See related
Ensembl:ENSG00000204516 IMGT/GENE-DB:MICB; MIM:602436
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
PERB11.2
Summary
This gene encodes a heavily glycosylated protein which is a ligand for the NKG2D type II receptor. Binding of the ligand activates the cytolytic response of natural killer (NK) cells, CD8 alphabeta T cells, and gammadelta T cells which express the receptor. This protein is stress-induced and is similar to MHC class I molecules; however, it does not associate with beta-2-microglobulin or bind peptides. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2014]
Expression
Broad expression in lymph node (RPKM 4.7), bone marrow (RPKM 4.2) and 20 other tissues See more
Orthologs

Genomic context

See MICB in Genome Data Viewer
Location:
6p21.33
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 6 NC_000006.12 (31494881..31511124)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (31462054..31478901)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene HLA complex group 26 Neighboring gene MICB divergent transcript Neighboring gene peptidylprolyl isomerase A pseudogene 9 Neighboring gene ribosomal protein L15 pseudogene 4

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 FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function.
NHGRI GWA Catalog
Genome-wide association study identifies susceptibility loci for dengue shock syndrome at MICB and PLCE1.
NHGRI GWA Catalog
Genome-wide association study of atypical psychosis.
NHGRI GWA Catalog
Genome-wide association study of classical Hodgkin lymphoma and Epstein-Barr virus status-defined subgroups.
NHGRI GWA Catalog
Genome-wide screen for metabolic syndrome susceptibility Loci reveals strong lipid gene contribution but no evidence for common genetic basis for clustering of metabolic syndrome traits.
NHGRI GWA Catalog
Genomewide association study of an AIDS-nonprogression cohort emphasizes the role played by HLA genes (ANRS Genomewide Association Study 02).
NHGRI GWA Catalog
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
NHGRI GWA Catalog
Identification of a susceptibility locus in STAT4 for Behçet's disease in Han Chinese in a genome-wide association study.
NHGRI GWA Catalog
Meta-analysis of genome-wide association studies identifies ten loci influencing allergic sensitization.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of MHC class I polypeptide-related sequence B (MICB) by siRNA has both activating and inhibiting activities on HIV-1 replication in HeLa P4/R5 cells, suggesting a regulatory role in HIV replication PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Adaptive Immune System, organism-specific biosystem (from REACTOME)
    Adaptive Immune System, organism-specific biosystemAdaptive immunity refers to antigen-specific immune response efficiently involved in clearing the pathogens. The adaptive immune system is comprised of B and T lymphocytes that express receptors with...
  • Immune System, organism-specific biosystem (from REACTOME)
    Immune System, organism-specific biosystemHumans are exposed to millions of potential pathogens daily, through contact, ingestion, and inhalation. Our ability to avoid infection depends on the adaptive immune system and during the first crit...
  • Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystem (from REACTOME)
    Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell, organism-specific biosystemA number of receptors and cell adhesion molecules play a key role in modifying the response of cells of lymphoid origin (such as B-, T- and NK cells) to self and tumor antigens, as well as to pathoge...
  • Natural killer cell mediated cytotoxicity, organism-specific biosystem (from KEGG)
    Natural killer cell mediated cytotoxicity, organism-specific biosystemNatural killer (NK) cells are lymphocytes of the innate immune system that are involved in early defenses against both allogeneic (nonself) cells and autologous cells undergoing various forms of stre...
  • Natural killer cell mediated cytotoxicity, conserved biosystem (from KEGG)
    Natural killer cell mediated cytotoxicity, conserved biosystemNatural killer (NK) cells are lymphocytes of the innate immune system that are involved in early defenses against both allogeneic (nonself) cells and autologous cells undergoing various forms of stre...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
natural killer cell lectin-like receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
natural killer cell lectin-like receptor binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
T cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytolysis IEA
Inferred from Electronic Annotation
more info
 
gamma-delta T cell activation IDA
Inferred from Direct Assay
more info
PubMed 
immune response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
immune response-activating cell surface receptor signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
natural killer cell activation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
natural killer cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of defense response to virus by host IDA
Inferred from Direct Assay
more info
PubMed 
regulation of immune response TAS
Traceable Author Statement
more info
 
response to heat IDA
Inferred from Direct Assay
more info
PubMed 
response to oxidative stress IDA
Inferred from Direct Assay
more info
PubMed 
response to retinoic acid IDA
Inferred from Direct Assay
more info
PubMed 
susceptibility to natural killer cell mediated cytotoxicity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
viral process IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell surface ISS
Inferred from Sequence or Structural Similarity
more info
 
external side of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
MHC class I polypeptide-related sequence B
Names
MHC class I chain-related protein B
MHC class I mic-B antigen
MHC class I-like molecule PERB11.2-IMX
stress inducible class I homolog

NCBI Reference Sequences (RefSeq)

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.

Genomic

  1. NG_021405.1 RefSeqGene

    Range
    4973..18047
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001289160.1NP_001276089.1  MHC class I polypeptide-related sequence B isoform 2

    See identical proteins and their annotated locations for NP_001276089.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. It encodes isoform 2, which has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    AK300791, AK303655, BC044218, BQ216247, CN389975, DB121254, DC364717
    Consensus CDS
    CCDS75423.1
    UniProtKB/Swiss-Prot
    Q29980
    UniProtKB/TrEMBL
    B4DUT9, B7Z8M1, F5H7Q8
    Related
    ENSP00000442345.1, ENST00000538442.5
    Conserved Domains (2) summary
    cd07698
    Location:173264
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:3166
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  2. NM_001289161.1NP_001276090.1  MHC class I polypeptide-related sequence B isoform 3 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) contains an alternate in-frame splice site in the 5' coding region, compared to variant 1. It encodes isoform 3, which is shorter than isofom 1.
    Source sequence(s)
    AL663061, BC044218, BQ216247, CN389975, DC364717
    Consensus CDS
    CCDS75422.1
    UniProtKB/Swiss-Prot
    Q29980
    UniProtKB/TrEMBL
    A0A0G2JHB5
    Related
    ENSP00000382103.3, ENST00000399150.7
    Conserved Domains (2) summary
    cd07698
    Location:162253
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:24100
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
  3. NM_005931.5NP_005922.2  MHC class I polypeptide-related sequence B isoform 1 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AK314228, BC044218, BQ216247, CN389975, DC364717
    Consensus CDS
    CCDS43449.1
    UniProtKB/Swiss-Prot
    Q29980
    UniProtKB/TrEMBL
    X6R344
    Related
    ENSP00000252229.6, ENST00000252229.6
    Conserved Domains (2) summary
    cd07698
    Location:205296
    IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain
    cl08246
    Location:24198
    MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p12 Primary Assembly

    Range
    31494881..31511124
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_1

Genomic

  1. NT_167244.2 Reference GRCh38.p12 ALT_REF_LOCI_1

    Range
    2827449..2843674
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_2

Genomic

  1. NT_113891.3 Reference GRCh38.p12 ALT_REF_LOCI_2

    Range
    2972222..2988464
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_3

Genomic

  1. NT_167245.2 Reference GRCh38.p12 ALT_REF_LOCI_3

    Range
    2742492..2758910
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_4

Genomic

  1. NT_167246.2 Reference GRCh38.p12 ALT_REF_LOCI_4

    Range
    2810648..2816200
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_5

Genomic

  1. NT_167247.2 Reference GRCh38.p12 ALT_REF_LOCI_5

    Range
    2836836..2853071
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_6

Genomic

  1. NT_167248.2 Reference GRCh38.p12 ALT_REF_LOCI_6

    Range
    2750769..2767002
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p12 ALT_REF_LOCI_7

Genomic

  1. NT_167249.2 Reference GRCh38.p12 ALT_REF_LOCI_7

    Range
    2794165..2810410
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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