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    SCG5 secretogranin V [ Homo sapiens (human) ]

    Gene ID: 6447, updated on 17-Jun-2019

    Summary

    Official Symbol
    SCG5provided by HGNC
    Official Full Name
    secretogranin Vprovided by HGNC
    Primary source
    HGNC:HGNC:10816
    See related
    Ensembl:ENSG00000166922 MIM:173120
    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
    7B2; SgV; P7B2; SGNE1
    Summary
    This gene encodes a secreted chaperone protein that prevents the aggregation of other secreted proteins, including proteins that are associated with neurodegenerative and metabolic disease. The encoded protein may be best known for its role in the trafficking and activation of prohormone convertase PC2 (encoded by Gene ID: 5126). Phosphorylation of the encoded protein has been shown to have an inhibitory effect on its chaperone function. This gene also produces a ARHGAP11A-SCG5 readthrough transcript and ARHGAP11A-SCG5 protein. [provided by RefSeq, Feb 2019]
    Expression
    Biased expression in brain (RPKM 106.2), adrenal (RPKM 48.4) and 4 other tissues See more
    Orthologs

    Genomic context

    See SCG5 in Genome Data Viewer
    Location:
    15q13.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    109.20190607 current GRCh38.p13 (GCF_000001405.39) 15 NC_000015.10 (32641613..32697098)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (32933757..32989299)

    Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101928042 Neighboring gene 15q13 distal microdeletion recombination region Neighboring gene ARHGAP11A-SCG5 readthrough Neighboring gene RNA, 7SL, cytoplasmic 286, pseudogene Neighboring gene golgin A8 family member N Neighboring gene Rho GTPase activating protein 11A Neighboring gene uncharacterized LOC105370757 Neighboring gene uncharacterized LOC105370756 Neighboring gene uncharacterized LOC100131315 Neighboring gene gremlin 1, DAN family BMP antagonist Neighboring gene uncharacterized LOC107984089 Neighboring gene formin 1

    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 FunctionsWhat's a GeneRIF?

    Phenotypes

    NHGRI GWAS Catalog

    Description
    Identification of susceptibility loci for colorectal cancer in a genome-wide meta-analysis.
    NHGRI GWA Catalog
    Meta-analysis of new genome-wide association studies of colorectal cancer risk.
    NHGRI GWA Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    NHGRI GWA Catalog

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Envelope transmembrane glycoprotein gp41 env A synthetic peptide corresponding to the immunosuppressive domain (amino acids 574-592) of HIV-1 gp41 upregulates the expression of secretogranin V (SCG5; SGNE1; 7B2 protein) in peptide-treated PBMCs PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Readthrough ARHGAP11A-SCG5

    Readthrough gene: ARHGAP11A-SCG5, Included gene: ARHGAP11A

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    GTP binding TAS
    Traceable Author Statement
    more info
    PubMed 
    enzyme inhibitor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    unfolded protein binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Process Evidence Code Pubs
    intracellular protein transport ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    negative regulation of catalytic activity IEA
    Inferred from Electronic Annotation
    more info
     
    neuropeptide signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    peptide hormone processing ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of hormone secretion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    secretory granule ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    neuroendocrine protein 7B2
    Names
    pituitary polypeptide
    prohormone convertase chaperone
    secretogranin-5
    secretory granule endocrine protein I
    secretory granule, neuroendocrine protein 1 (7B2 protein)

    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_051230.1 RefSeqGene

      Range
      5001..60486
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001144757.2NP_001138229.1  neuroendocrine protein 7B2 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001138229.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BC005349, BP308267, R44275, Y00757
      Consensus CDS
      CCDS45207.1
      UniProtKB/Swiss-Prot
      P05408
      UniProtKB/TrEMBL
      A0A024R9I1
      Related
      ENSP00000300175.4, ENST00000300175.8
      Conserved Domains (1) summary
      pfam05281
      Location:22199
      Secretogranin_V; Neuroendocrine protein 7B2 precursor (Secretogranin V)
    2. NM_003020.4NP_003011.1  neuroendocrine protein 7B2 isoform 2 precursor

      See identical proteins and their annotated locations for NP_003011.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice junction compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is 1 aa shorter compared to isoform 1.
      Source sequence(s)
      BP308267, R44275, Y00757
      Consensus CDS
      CCDS45208.1
      UniProtKB/Swiss-Prot
      P05408
      Related
      ENSP00000388560.2, ENST00000413748.6
      Conserved Domains (1) summary
      pfam05281
      Location:22198
      Secretogranin_V; Neuroendocrine protein 7B2 precursor (Secretogranin V)

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000015.10 Reference GRCh38.p13 Primary Assembly

      Range
      32641613..32697098
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p13 PATCHES

    Genomic

    1. NW_011332701.1 Reference GRCh38.p13 PATCHES

      Range
      4693745..4749241
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p13 PATCHES

    Genomic

    1. NW_012132920.1 Reference GRCh38.p13 PATCHES

      Range
      2159977..2215515
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p13 ALT_REF_LOCI_2

    Genomic

    1. NT_187660.1 Reference GRCh38.p13 ALT_REF_LOCI_2

      Range
      4856197..4911693
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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