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

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; AllianceGenome:HGNC:7091
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: all
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Genomic context

Location:: 6p21.33

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	6	NC_000006.12 (31494918..31511124)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	6	NC_060930.1 (31345743..31364224)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	6	NC_000006.11 (31462695..31478901)

Chromosome 6 - NC_000006.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

MICB Genetic Variants and Its Protein Soluble Level Are Associated with the Risk of Chronic GvHD and CMV Infection after Allogeneic HSCT.
Title: MICB Genetic Variants and Its Protein Soluble Level Are Associated with the Risk of Chronic GvHD and CMV Infection after Allogeneic HSCT.
Linc-ROR inhibits NK cell-killing activity by promoting RXRA ubiquitination and reducing MICB expression in gastric cancer patients.
Title: Linc-ROR inhibits NK cell-killing activity by promoting RXRA ubiquitination and reducing MICB expression in gastric cancer patients.
MICB Genomic Variant Is Associated with NKG2D-mediated Acute Lung Injury and Death.
Title: MICB Genomic Variant Is Associated with NKG2D-mediated Acute Lung Injury and Death.
Associations between MICA and MICB Genetic Variants, Protein Levels, and Colorectal Cancer: Atherosclerosis Risk in Communities (ARIC).
Title: Associations between MICA and MICB Genetic Variants, Protein Levels, and Colorectal Cancer: Atherosclerosis Risk in Communities (ARIC).
Clinical Significance of Plasma Soluble MICB in Children With EBV-associated Hemophagocytic Lymphohistiocytosis.
Title: Clinical Significance of Plasma Soluble MICB in Children With EBV-associated Hemophagocytic Lymphohistiocytosis.
HLA class I chain-related MICA and MICB genes polymorphism in healthy individuals from the Bulgarian population.
Title: HLA class I chain-related MICA and MICB genes polymorphism in healthy individuals from the Bulgarian population.
Immunomodulatory effect of NEDD8-activating enzyme inhibition in Multiple Myeloma: upregulation of NKG2D ligands and sensitization to Natural Killer cell recognition.
Title: Immunomodulatory effect of NEDD8-activating enzyme inhibition in Multiple Myeloma: upregulation of NKG2D ligands and sensitization to Natural Killer cell recognition.
Intracellular Sequestration of the NKG2D Ligand MIC B by Species F Adenovirus.
Title: Intracellular Sequestration of the NKG2D Ligand MIC B by Species F Adenovirus.
Increased Concentrations of Circulating Soluble MHC Class I-Related Chain A (sMICA) and sMICB and Modulation of Plasma Membrane MICA Expression: Potential Mechanisms and Correlation With Natural Killer Cell Activity in Systemic Lupus Erythematosus.
Title: Increased Concentrations of Circulating Soluble MHC Class I-Related Chain A (sMICA) and sMICB and Modulation of Plasma Membrane MICA Expression: Potential Mechanisms and Correlation With Natural Killer Cell Activity in Systemic Lupus Erythematosus.
Associations of high-resolution-typing-defined MICA and MICB polymorphisms, and the levels of soluble MICA and MICB with Oral Squamous Cell Carcinoma in Bulgarian patients.
Title: Associations of high-resolution-typing-defined MICA and MICB polymorphisms, and the levels of soluble MICA and MICB with Oral Squamous Cell Carcinoma in Bulgarian patients.

Submit: New GeneRIF Correction See all GeneRIFs (122)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association study identifies susceptibility loci for dengue shock syndrome at MICB and PLCE1. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association study of atypical psychosis. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association study of classical Hodgkin lymphoma and Epstein-Barr virus status-defined subgroups. EBI GWAS Catalog EBI GWAS CatalogPubMed
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. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genomewide association study of an AIDS-nonprogression cohort emphasizes the role played by HLA genes (ANRS Genomewide Association Study 02). EBI GWAS Catalog EBI GWAS CatalogPubMed
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. EBI GWAS Catalog EBI GWAS CatalogPubMed
Identification of a susceptibility locus in STAT4 for Beh&#x000e7;et's disease in Han Chinese in a genome-wide association study. EBI GWAS Catalog EBI GWAS CatalogPubMed
Meta-analysis of genome-wide association studies identifies ten loci influencing allergic sensitization. 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)

HIV-1 interactions

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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

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D1S1423 (e-PCR)
- UniSTS:149619

STS-U65416 (e-PCR)
- UniSTS:30343

STS-X91625 (e-PCR)
- UniSTS:46271

D6S2672 (e-PCR)
- UniSTS:256723

C1_2_A (e-PCR)
- UniSTS:239063

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables natural killer cell lectin-like receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables peptide antigen binding	IBA Inferred from Biological aspect of Ancestor more info
enables signaling receptor binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in adaptive immune response	IEA Inferred from Electronic Annotation more info
involved_in antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent	IBA Inferred from Biological aspect of Ancestor more info
involved_in antigen processing and presentation of endogenous peptide antigen via MHC class Ib	IBA Inferred from Biological aspect of Ancestor more info
involved_in gamma-delta T cell activation	IDA Inferred from Direct Assay more info	PubMed
involved_in immune response	IBA Inferred from Biological aspect of Ancestor more info
involved_in immune response-activating cell surface receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in killing of cells of another organism	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of defense response to virus by host	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of T cell mediated cytotoxicity	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to heat	IDA Inferred from Direct Assay more info	PubMed
involved_in response to oxidative stress	IDA Inferred from Direct Assay more info	PubMed
involved_in response to retinoic acid	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in cell surface	ISS Inferred from Sequence or Structural Similarity more info
is_active_in external side of plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	TAS Traceable Author Statement more info

General protein information

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Preferred Names: MHC class I polypeptide-related sequence B

Names: MHC class I antigen-related protein B; 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)

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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.

Genomic

NG_021405.1 RefSeqGene

Range

5068..18047

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001289160.2 → NP_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, DC364717

Consensus CDS

CCDS75423.1

UniProtKB/TrEMBL

B4DUT9, F5H7Q8

Related

ENSP00000442345.1, ENST00000538442.5

Conserved Domains (2) summary

cd07698
Location:173 → 264

IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain

cl08246
Location:3 → 166

MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
NM_001289161.2 → NP_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)

BC044218, BQ216247, CN389975, DC364717

Consensus CDS

CCDS75422.1

UniProtKB/TrEMBL

A0A0G2JHB5, A0A140T9D8

Related

ENSP00000382103.3, ENST00000399150.7

Conserved Domains (2) summary

cd07698
Location:162 → 253

IgC_MHC_I_alpha3; Class I major histocompatibility complex (MHC) alpha chain immunoglobulin domain

cl08246
Location:24 → 100

MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2
NM_005931.5 → NP_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

A2AC57, A6NP85, B0UZ10, B2RAK2, O14499, O14500, O19798, O19799, O19800, O19801, O19802, O19803, O78099, O78100, O78101, O78102, O78103, O78104, P79525, P79541, Q29980, Q5GR31, Q5GR37, Q5GR41, Q5GR42, Q5GR43, Q5GR44, Q5GR46, Q5GR48, Q5RIY6, Q5SSK1, Q5ST25, Q7JK51, Q7YQ89, Q861E6, Q9MY18, Q9MY19, Q9MY20, Q9UBH4, Q9UBZ8, Q9UEJ0, X6R344

UniProtKB/TrEMBL

A0A7D9D4H5, A0A7D9D4Q4, A0A7D9D6V3, A0A7D9H7X8, A0A7D9H960

Related

ENSP00000252229.6, ENST00000252229.7

Conserved Domains (2) summary

cd21017
Location:203 → 297

IgC1_MHC_Ia_MIC-A_MIC-B; Class Ia major histocompatibility complex (MHC) immunoglobulin domain of MIC-A and MIC-B; member of the C1-set of Ig superfamily (IgSF) domains

cl08246
Location:24 → 198

MHC_I; Class I Histocompatibility antigen, domains alpha 1 and 2