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SELENBP1 selenium binding protein 1 [ Homo sapiens (human) ]

Gene ID: 8991, updated on 16-Apr-2024

Summary

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Official Symbol
SELENBP1provided by HGNC
Official Full Name
selenium binding protein 1provided by HGNC
Primary source
HGNC:HGNC:10719
See related
Ensembl:ENSG00000143416 MIM:604188; AllianceGenome:HGNC:10719
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
MTO; LPSB; SP56; hSBP; EHMTO; SBP56; HEL-S-134P
Summary
This gene encodes a member of the selenium-binding protein family. Selenium is an essential nutrient that exhibits potent anticarcinogenic properties, and deficiency of selenium may cause certain neurologic diseases. The effects of selenium in preventing cancer and neurologic diseases may be mediated by selenium-binding proteins, and decreased expression of this gene may be associated with several types of cancer. The encoded protein may play a selenium-dependent role in ubiquitination/deubiquitination-mediated protein degradation. Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene. [provided by RefSeq, Apr 2012]
Expression
Broad expression in colon (RPKM 232.0), lung (RPKM 124.7) and 17 other tissues See more
Orthologs
all
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Genomic context

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Location:
1q21.3
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (151364304..151372705, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (150487989..150496432, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (151336780..151345181, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene RNA, 7SL, cytoplasmic 444, pseudogene Neighboring gene phosphatidylinositol 4-kinase beta Neighboring gene Sharpr-MPRA regulatory region 1421 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151299400-151300324 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151315395-151315895 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1718 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:151318990-151320189 Neighboring gene MPRA-validated peak412 silencer Neighboring gene RFX5 antisense RNA 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:151332077-151332231 Neighboring gene regulatory factor X5 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151342446-151343117 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:151343118-151343788 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151344535-151345118 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151345119-151345702 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151371406-151372128 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:151372129-151372850 Neighboring gene proteasome 20S subunit beta 4 Neighboring gene pogo transposable element derived with ZNF domain Neighboring gene RNY4 pseudogene 25

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
  • 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. SELENBP1 overexpression in the prefrontal cortex underlies negative symptoms of schizophrenia. Kim S, et al. Proc Natl Acad Sci U S A, 2022 Dec 20. PMID 36512497, Free PMC Article
  2. Tumor microenvironment-related gene selenium-binding protein 1 (SELENBP1) is associated with immunotherapy efficacy and survival in colorectal cancer. Zhu C, et al. BMC Gastroenterol, 2022 Oct 17. PMID 36253721, Free PMC Article
  3. A coupled enzyme assay for detection of selenium-binding protein 1 (SELENBP1) methanethiol oxidase (MTO) activity in mature enterocytes. Philipp TM, et al. Redox Biol, 2021 Jul. PMID 33901808, Free PMC Article
  4. Selenium-binding protein 1 alters energy metabolism in prostate cancer cells. Elhodaky M, et al. Prostate, 2020 Sep. PMID 32511787, Free PMC Article
  5. Hepatitis B Virus-X Downregulates Expression of Selenium Binding Protein 1. Lee YM, et al. Viruses, 2020 May 20. PMID 32443734, Free PMC Article

See all (92) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Selenium binding protein 1 protects renal tubular epithelial cells from ferroptosis by upregulating glutathione peroxidase 4.
    Title: Selenium binding protein 1 protects renal tubular epithelial cells from ferroptosis by upregulating glutathione peroxidase 4.
  2. Selenium-binding protein 1 inhibits malignant progression and induces apoptosis via distinct mechanisms in non-small cell lung cancer.
    Title: Selenium-binding protein 1 inhibits malignant progression and induces apoptosis via distinct mechanisms in non-small cell lung cancer.
  3. SBP1 promotes tumorigenesis of thyroid cancer through TXN/NIS pathway.
    Title: SBP1 promotes tumorigenesis of thyroid cancer through TXN/NIS pathway.
  4. Selenium-binding protein 1 (SELENBP1) is a copper-dependent thiol oxidase.
    Title: Selenium-binding protein 1 (SELENBP1) is a copper-dependent thiol oxidase.
  5. SELENBP1 overexpression in the prefrontal cortex underlies negative symptoms of schizophrenia.
    Title: SELENBP1 overexpression in the prefrontal cortex underlies negative symptoms of schizophrenia.
  6. Role of SELENBP1 and SELENOF in prostate cancer bioenergetics.
    Title: Role of SELENBP1 and SELENOF in prostate cancer bioenergetics.
  7. Tumor microenvironment-related gene selenium-binding protein 1 (SELENBP1) is associated with immunotherapy efficacy and survival in colorectal cancer.
    Title: Tumor microenvironment-related gene selenium-binding protein 1 (SELENBP1) is associated with immunotherapy efficacy and survival in colorectal cancer.
  8. Downregulation of SELENBP1 enhances oral squamous cell carcinoma chemoresistance through KEAP1-NRF2 signaling.
    Title: Downregulation of SELENBP1 enhances oral squamous cell carcinoma chemoresistance through KEAP1-NRF2 signaling.
  9. A coupled enzyme assay for detection of selenium-binding protein 1 (SELENBP1) methanethiol oxidase (MTO) activity in mature enterocytes.
    Title: A coupled enzyme assay for detection of selenium-binding protein 1 (SELENBP1) methanethiol oxidase (MTO) activity in mature enterocytes.
  10. Selenium-binding protein 1 transcriptionally activates p21 expression via p53-independent mechanism and its frequent reduction associates with poor prognosis in bladder cancer.
    Title: Selenium-binding protein 1 transcriptionally activates p21 expression via p53-independent mechanism and its frequent reduction associates with poor prognosis in bladder cancer.
Submit: New GeneRIF Correction See all GeneRIFs (50)

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

Associated conditions

Description Tests
Extraoral halitosis due to methanethiol oxidase deficiency
MedGen: C4748387 OMIM: 618148 GeneReviews: Not available
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EBI GWAS Catalog

Description
Genome-wide association study identifies loci affecting blood copper, selenium and zinc.
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

Pathways from PubChem

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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

Homology

Clone Names

  • FLJ13813

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables methanethiol oxidase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables selenium binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular exosome HDA PubMed 
located_in extracellular space HDA PubMed 
located_in fibrillar center IDA
Inferred from Direct Assay
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
located_in nucleolus IDA
Inferred from Direct Assay
more info
  

General protein information

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Preferred Names
methanethiol oxidase
Names
56 kDa selenium-binding protein
epididymis secretory sperm binding protein Li 134P
NP_001245217.1
NP_001245218.1
NP_003935.2
XP_047289532.1
XP_054195462.1

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.

mRNA and Protein(s)

  1. NM_001258288.2 → NP_001245217.1  methanethiol oxidase isoform 2

    See identical proteins and their annotated locations for NP_001245217.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an exon in the coding region, but maintains the reading frame, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AK303815, BQ045424, DB288439
    Consensus CDS
    CCDS58027.1
    UniProtKB/Swiss-Prot
    Q13228
    Related
    ENSP00000413960.3, ENST00000447402.7
    Conserved Domains (1) summary
    pfam05694
    Location:7 → 410
    SBP56; 56kDa selenium binding protein (SBP56)

  2. NM_001258289.2 → NP_001245218.1  methanethiol oxidase isoform 3

    See identical proteins and their annotated locations for NP_001245218.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 5' region and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (3) is longer and has a distinct N-terminus, compared to isoform 1.
    Source sequence(s)
    AK296661, BQ045424, CR456852, DB288439
    Consensus CDS
    CCDS60266.1
    UniProtKB/Swiss-Prot
    Q13228
    Related
    ENSP00000397261.2, ENST00000426705.6
    Conserved Domains (1) summary
    pfam05694
    Location:49 → 514
    SBP56; 56kDa selenium binding protein (SBP56)

  3. NM_003944.4 → NP_003935.2  methanethiol oxidase isoform 1

    See identical proteins and their annotated locations for NP_003935.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    BC009084, DB288439
    Consensus CDS
    CCDS995.1
    UniProtKB/Swiss-Prot
    A6NML9, A6PVW9, B2RDR3, B4DKP6, B4E1F3, Q13228, Q49AQ8, Q96GX7
    UniProtKB/TrEMBL
    V9HWG1
    Related
    ENSP00000357861.5, ENST00000368868.10
    Conserved Domains (1) summary
    pfam05694
    Location:7 → 472
    SBP56; 56kDa selenium binding protein (SBP56)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    151364304..151372705 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047433576.1 → XP_047289532.1  methanethiol oxidase isoform X1

RNA

  1. XR_007064849.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    150487989..150496432 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054339487.1 → XP_054195462.1  methanethiol oxidase isoform X1

RNA

  1. XR_008486201.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_032183.1: Suppressed sequence

    Description
    NM_032183.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q13228.2 GenPept UniProtKB/Swiss-Prot:Q13228

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