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XBP1 X-box binding protein 1 [ Homo sapiens (human) ]

Gene ID: 7494, updated on 24-Nov-2020

Summary

Official Symbol
XBP1provided by HGNC
Official Full Name
X-box binding protein 1provided by HGNC
Primary source
HGNC:HGNC:12801
See related
Ensembl:ENSG00000100219 MIM:194355
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
XBP2; TREB5; XBP-1; TREB-5
Summary
This gene encodes a transcription factor that regulates MHC class II genes by binding to a promoter element referred to as an X box. This gene product is a bZIP protein, which was also identified as a cellular transcription factor that binds to an enhancer in the promoter of the T cell leukemia virus type 1 promoter. It may increase expression of viral proteins by acting as the DNA binding partner of a viral transactivator. It has been found that upon accumulation of unfolded proteins in the endoplasmic reticulum (ER), the mRNA of this gene is processed to an active form by an unconventional splicing mechanism that is mediated by the endonuclease inositol-requiring enzyme 1 (IRE1). The resulting loss of 26 nt from the spliced mRNA causes a frame-shift and an isoform XBP1(S), which is the functionally active transcription factor. The isoform encoded by the unspliced mRNA, XBP1(U), is constitutively expressed, and thought to function as a negative feedback regulator of XBP1(S), which shuts off transcription of target genes during the recovery phase of ER stress. A pseudogene of XBP1 has been identified and localized to chromosome 5. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in salivary gland (RPKM 196.1), urinary bladder (RPKM 191.7) and 25 other tissues See more
Orthologs

Genomic context

See XBP1 in Genome Data Viewer
Location:
22q12.1; 22q12
Exon count:
6
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 22 NC_000022.11 (28794560..28800569, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (29190548..29196560, complement)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene HscB mitochondrial iron-sulfur cluster cochaperone Neighboring gene coiled-coil domain containing 117 Neighboring gene zinc and ring finger 3 Neighboring gene uncharacterized LOC107985549 Neighboring gene chromosome 9 open reading frame 16 pseudogene

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?

Phenotypes

Associated conditions

Description Tests
Genome-wide association analyses of esophageal squamous cell carcinoma in Chinese identify multiple susceptibility loci and gene-environment interactions.
GeneReviews: Not available
Genome-wide association study identifies multiple susceptibility loci for pancreatic cancer.
GeneReviews: Not available
Joint analysis of three genome-wide association studies of esophageal squamous cell carcinoma in Chinese populations.
GeneReviews: Not available
Major affective disorder 7
MedGen: C2700438 OMIM: 612371 GeneReviews: Not available
Compare labs

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env gp120 upregulates XBP-1 in SVGA cells, human fetal astrocytes, and the prefrontal cortex of gp120 transgenic mice PubMed
Tat tat Neurons exposed to HIV-1 Tat induces calcium loss from the endoplasmic reticulum via ryanodine receptor (RyR) and increases the phosphorylated levels of PERK, eIF2a, and XBP1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
ATF6-mediated unfolded protein response TAS
Traceable Author Statement
more info
 
IRE1-mediated unfolded protein response TAS
Traceable Author Statement
more info
PubMed 
adipose tissue development ISS
Inferred from Sequence or Structural Similarity
more info
 
angiogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 
autophagy IEA
Inferred from Electronic Annotation
more info
 
cellular response to amino acid stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to fructose stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to glucose starvation ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to glucose stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to insulin stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to interleukin-4 ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to leukemia inhibitory factor IEA
Inferred from Electronic Annotation
more info
 
cellular response to lipopolysaccharide IDA
Inferred from Direct Assay
more info
PubMed 
cellular response to nutrient ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular response to peptide hormone stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
cellular triglyceride homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
cholesterol homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
endoplasmic reticulum unfolded protein response ISS
Inferred from Sequence or Structural Similarity
more info
 
endothelial cell proliferation IEA
Inferred from Electronic Annotation
more info
 
epithelial cell maturation involved in salivary gland development IEA
Inferred from Electronic Annotation
more info
 
exocrine pancreas development IEA
Inferred from Electronic Annotation
more info
 
fatty acid biosynthetic process TAS
Traceable Author Statement
more info
PubMed 
fatty acid homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
immune response TAS
Traceable Author Statement
more info
PubMed 
intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress IEA
Inferred from Electronic Annotation
more info
 
liver development ISS
Inferred from Sequence or Structural Similarity
more info
 
muscle organ development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of apoptotic process ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of myotube differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
neuron development ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of B cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of MHC class II biosynthetic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of T cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of angiogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell migration IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell population proliferation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of cell population proliferation IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of endoplasmic reticulum unfolded protein response IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of fat cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of hepatocyte proliferation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of immunoglobulin production IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of immunoglobulin production ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of interleukin-6 production ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of lactation ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of plasma cell differentiation IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response ISS
Inferred from Sequence or Structural Similarity
more info
 
positive regulation of vascular wound healing IDA
Inferred from Direct Assay
more info
PubMed 
protein destabilization IEA
Inferred from Electronic Annotation
more info
 
protein transport IEA
Inferred from Electronic Annotation
more info
 
regulation of autophagy IEA
Inferred from Electronic Annotation
more info
 
response to insulin-like growth factor stimulus ISS
Inferred from Sequence or Structural Similarity
more info
 
sterol homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
 
transcription by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
ubiquitin-dependent protein catabolic process ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
cytoplasm ISS
Inferred from Sequence or Structural Similarity
more info
 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
X-box-binding protein 1
Names
tax-responsive element-binding protein 5

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_012266.1 RefSeqGene

    Range
    5001..11013
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001079539.2NP_001073007.1  X-box-binding protein 1 isoform XBP1(S)

    See identical proteins and their annotated locations for NP_001073007.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks a 26 nt segment in the CDS compared to variant 1, that causes a frameshift. The resulting isoform, XBP1(S), has the same N-terminus, but a longer and distinct C-terminus compared to isoform XBP1(U). Isoform XBP1(S) functions as a transcription factor.
    Source sequence(s)
    AB076383, AB076384, BC015709, BI545390
    UniProtKB/Swiss-Prot
    P17861
    Related
    ENSP00000481170.1, ENST00000611155.4
    Conserved Domains (1) summary
    cd14691
    Location:70126
    bZIP_XBP1; Basic leucine zipper (bZIP) domain of X-box binding protein 1 (XBP1) and similar proteins: a DNA-binding and dimerization domain
  2. NM_005080.4NP_005071.2  X-box-binding protein 1 isoform XBP1(U)

    See identical proteins and their annotated locations for NP_005071.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript but encodes the shorter isoform, XBP1(U).
    Source sequence(s)
    Z93930
    Consensus CDS
    CCDS13847.1
    UniProtKB/Swiss-Prot
    P17861
    UniProtKB/TrEMBL
    A0A024R1F0
    Related
    ENSP00000216037.6, ENST00000216037.10
    Conserved Domains (1) summary
    cd14691
    Location:70126
    bZIP_XBP1; Basic leucine zipper (bZIP) domain of X-box binding protein 1 (XBP1) and similar proteins: a DNA-binding and dimerization domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000022.11 Reference GRCh38.p13 Primary Assembly

    Range
    28794560..28800569 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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