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SCG5 secretogranin V [ Homo sapiens (human) ]

Gene ID: 6447, updated on 11-Sep-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
109.20190905 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 Functions

What'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 details...Open this link in a new tab

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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