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OBP2A odorant binding protein 2A [ Homo sapiens (human) ]

Gene ID: 29991, updated on 2-Nov-2024

Summary

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Official Symbol
OBP2Aprovided by HGNC
Official Full Name
odorant binding protein 2Aprovided by HGNC
Primary source
HGNC:HGNC:23380
See related
Ensembl:ENSG00000122136 MIM:164320; AllianceGenome:HGNC:23380
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
OBP; LCN13; OBP2C; OBPIIa; hOBPIIa
Summary
This gene encodes a small extracellular protein belonging to the lipocalin superfamily. The protein is thought to transport small, hydrophobic, volatile molecules or odorants through the nasal mucus to olfactory receptors, and may also function as a scavenger of highly concentrated or toxic odors. The protein is expressed as a monomer in the nasal mucus, and can bind diverse types of odorants with a higher affinity for aldehydes and fatty acids. This gene and a highly similar family member are located in a cluster of lipocalin genes on chromosome 9. Alternatively spliced transcript variants have been described, but their biological validity has not been determined. [provided by RefSeq, Jul 2008]
Expression
Biased expression in testis (RPKM 2.5), skin (RPKM 0.2) and 1 other tissue See more
Orthologs
all
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Genomic context

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See OBP2A in Genome Data Viewer
Location:
9q34.3
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (135546126..135549969)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (147774075..147777763)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (138437972..138441815)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101928525 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:138396029-138396183 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138397212-138398185 Neighboring gene mitochondrial ribosomal protein S2 Neighboring gene NANOG hESC enhancer GRCh37_chr9:138403278-138403841 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138406747-138407428 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138408918-138409418 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138409419-138409919 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138416151-138417034 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:138418857-138419510 Neighboring gene lipocalin 1 Neighboring gene uncharacterized LOC107987040 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:138457239-138457870 Neighboring gene progestagen associated endometrial protein

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Tumor-derived OBP2A promotes prostate cancer castration resistance. Jeong JH, et al. J Exp Med, 2023 Mar 6. PMID 36547668, Free PMC Article
  2. A polymorphism in the human gene encoding OBPIIa affects the perceived intensity of smelled odors. Sollai G, et al. Behav Brain Res, 2022 Jun 3. PMID 35341882
  3. Mammalian odorant binding proteins. Tegoni M, et al. Biochim Biophys Acta, 2000 Oct 18. PMID 11058764
  4. Olfactory Function in Patients with Inflammatory Bowel Disease (IBD) Is Associated with Their Body Mass Index and Polymorphism in the Odor Binding-Protein (OBPIIa) Gene. Sollai G, et al. Nutrients, 2021 Feb 22. PMID 33671721, Free PMC Article
  5. Effect of the rs2890498 polymorphism of the OBPIIa gene on the human ability to smell single molecules. Melis M, et al. Behav Brain Res, 2021 Mar 26. PMID 33422593

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Elevated expression of LCN13 through FXR activation ameliorates hepatocellular lipid accumulation and inflammation.
    Title: Elevated expression of LCN13 through FXR activation ameliorates hepatocellular lipid accumulation and inflammation.
  2. Tumor-derived OBP2A promotes prostate cancer castration resistance.
    Title: Tumor-derived OBP2A promotes prostate cancer castration resistance.
  3. A polymorphism in the human gene encoding OBPIIa affects the perceived intensity of smelled odors.
    Title: A polymorphism in the human gene encoding OBPIIa affects the perceived intensity of smelled odors.
  4. Effect of the rs2890498 polymorphism of the OBPIIa gene on the human ability to smell single molecules.
    Title: Effect of the rs2890498 polymorphism of the OBPIIa gene on the human ability to smell single molecules.
  5. Changes of Taste, Smell and Eating Behavior in Patients Undergoing Bariatric Surgery: Associations with PROP Phenotypes and Polymorphisms in the Odorant-Binding Protein OBPIIa and CD36 Receptor Genes.
    Title: Changes of Taste, Smell and Eating Behavior in Patients Undergoing Bariatric Surgery: Associations with PROP Phenotypes and Polymorphisms in the Odorant-Binding Protein OBPIIa and CD36 Receptor Genes.
  6. Olfactory Function in Patients with Inflammatory Bowel Disease (IBD) Is Associated with Their Body Mass Index and Polymorphism in the Odor Binding-Protein (OBPIIa) Gene.
    Title: Olfactory Function in Patients with Inflammatory Bowel Disease (IBD) Is Associated with Their Body Mass Index and Polymorphism in the Odor Binding-Protein (OBPIIa) Gene.
  7. Importantly, OBPIIa gene polymorphism showed an effect on Parkinson's disease-related olfactory deficits only in women.
    Title: Odor Identification Performance in Idiopathic Parkinson's Disease Is Associated With Gender and the Genetic Variability of the Olfactory Binding Protein.
  8. Association between the rs2590498 polymorphism of Odorant Binding Protein (OBPIIa) gene and olfactory performance in healthy subjects.
    Title: Association between the rs2590498 polymorphism of Odorant Binding Protein (OBPIIa) gene and olfactory performance in healthy subjects.
  9. This study demonstrated that the OBPIIa is associated with bitter sensitivity in human.
    Title: Variant in a common odorant-binding protein gene is associated with bitter sensitivity in people.
  10. Studied the crystallographic structure of human odorant-binding protein, OBPIIa at 2.6 A resolution.
    Title: Crystal structure of the human odorant binding protein, OBPIIa.
Submit: New GeneRIF Correction See all GeneRIFs (12)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Linkage analysis identifies a locus for plasma von Willebrand factor undetected by genome-wide association.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables odorant binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables odorant binding NAS
Non-traceable Author Statement
more info
 PubMed 
enables small molecule binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in glucose homeostasis ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in sensory perception of chemical stimulus TAS
Traceable Author Statement
more info
 PubMed 
involved_in sensory perception of smell IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
is_active_in cellular_component ND
No biological Data available
more info
  
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
odorant-binding protein 2a
Names
odorant-binding protein IIa
putative odorant-binding protein 2c

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

  1. NG_029693.1 RefSeqGene

    Range
    4988..8831
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001293189.2 → NP_001280118.1  odorant-binding protein 2a isoform gamma precursor

    Status: REVIEWED

    Source sequence(s)
    AI219510, AJ251024, AL161452, BC143803
    Consensus CDS
    CCDS78455.1
    UniProtKB/TrEMBL
    A0A087WXL2, Q5T8A5
    Related
    ENSP00000342097.3, ENST00000340780.7
    Conserved Domains (1) summary
    pfam00061
    Location:26 → 130
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

  2. NM_001293193.2 → NP_001280122.1  odorant-binding protein 2a isoform delta precursor

    Status: REVIEWED

    Source sequence(s)
    AI219510, AJ251023, AL161452, BC069563
    Consensus CDS
    CCDS78456.1
    UniProtKB/TrEMBL
    Q5T8A4
    Related
    ENSP00000340950.4, ENST00000342114.8
    Conserved Domains (1) summary
    pfam00061
    Location:107 → 141
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

  3. NM_001412135.1 → NP_001399064.1  odorant-binding protein 2a isoform 5 precursor

    Status: REVIEWED

    Source sequence(s)
    CP068269
    UniProtKB/TrEMBL
    B7ZLH4

  4. NM_014582.3 → NP_055397.1  odorant-binding protein 2a isoform alpha precursor

    See identical proteins and their annotated locations for NP_055397.1

    Status: REVIEWED

    Source sequence(s)
    AI219510, AJ251021, AL161452
    Consensus CDS
    CCDS6992.1
    UniProtKB/Swiss-Prot
    Q5T8A3, Q9NY50, Q9NY53, Q9NY54, Q9NY55, Q9NY56
    UniProtKB/TrEMBL
    Q2PAD7
    Related
    ENSP00000360841.1, ENST00000371776.6
    Conserved Domains (1) summary
    pfam00061
    Location:26 → 164
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

RNA

  1. NR_120603.2 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    AI219510, AJ251022, AJ251023, AL161452
    Related
    ENST00000471886.5

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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    135546126..135549969
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    147774075..147777763
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9NY56.1 GenPept UniProtKB/Swiss-Prot:Q9NY56

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