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

    Gene ID: 8991, updated on 3-Nov-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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    See SELENBP1 in Genome Data Viewer
    Location:
    1q21.3
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (151364304..151372705, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (150487989..150496432, complement)
    RS_2024_09 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 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. A Critical Role for Cysteine 57 in the Biological Functions of Selenium Binding Protein-1. Ying Q, et al. Int J Mol Sci, 2015 Nov 18. PMID 26593911, Free PMC Article
    2. Expression of selenium-binding protein 1 characterizes intestinal cell maturation and predicts survival for patients with colorectal cancer. Li T, et al. Mol Nutr Food Res, 2008 Nov. PMID 18435490
    3. Family-based association study of SELENBP1 in schizophrenia. Kanazawa T, et al. Schizophr Res, 2009 Sep. PMID 19596560
    4. Progressive loss of selenium-binding protein 1 expression correlates with increasing epithelial proliferation and papillary complexity in ovarian serous borderline tumor and low-grade serous carcinoma. Zhang C, et al. Hum Pathol, 2010 Feb. PMID 19896693
    5. Selenium-Binding Protein 1 in Human Health and Disease. Elhodaky M, et al. Int J Mol Sci, 2018 Nov 2. PMID 30400135, Free PMC Article

    See all (97) 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
    		Compare labs

    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)

    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_2024_08

    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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