SCG5 Gene (Protein Coding)

Secretogranin V

GC15P032641
GIFtS:
39
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 ... See more...

Aliases for SCG5 Gene

Aliases for SCG5 Gene

  • Secretogranin V 2 3 4 5
  • Secretory Granule, Neuroendocrine Protein 1 (7B2 Protein) 2 3
  • Secretory Granule Endocrine Protein I 3 4
  • Prohormone Convertase Chaperone 2 3
  • Neuroendocrine Protein 7B2 3 4
  • Pituitary Polypeptide 3 4
  • Secretogranin-5 3 4
  • SGNE1 3 4
  • P7B2 3
  • 7B2 3
  • SgV 3

External Ids for SCG5 Gene

Previous HGNC Symbols for SCG5 Gene

  • SGNE1

Previous GeneCards Identifiers for SCG5 Gene

  • GC15P030722
  • GC15P032933
  • GC15P009796

Summaries for SCG5 Gene

Entrez Gene Summary for SCG5 Gene

  • 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]

GeneCards Summary for SCG5 Gene

SCG5 (Secretogranin V) is a Protein Coding gene. Diseases associated with SCG5 include Polyposis Syndrome, Hereditary Mixed, 1 and Hereditary Mixed Polyposis Syndrome. Gene Ontology (GO) annotations related to this gene include GTP binding and enzyme inhibitor activity.

UniProtKB/Swiss-Prot Summary for SCG5 Gene

  • Acts as a molecular chaperone for PCSK2/PC2, preventing its premature activation in the regulated secretory pathway. Binds to inactive PCSK2 in the endoplasmic reticulum and facilitates its transport from there to later compartments of the secretory pathway where it is proteolytically matured and activated. Also required for cleavage of PCSK2 but does not appear to be involved in its folding. Plays a role in regulating pituitary hormone secretion. The C-terminal peptide inhibits PCSK2 in vitro.

Gene Wiki entry for SCG5 Gene

Additional gene information for SCG5 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SCG5 Gene

Genomics for SCG5 Gene

GeneHancer (GH) Regulatory Elements for SCG5 Gene

Promoters and enhancers for SCG5 Gene
GeneHancer (GH) Identifier GH Type GH
Score		 GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites		 Gene Targets
GH15J032641 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE CraniofacialAtlas 757 +0.3 332 1.2 ZNF384 EGR1 IKZF1 ATF1 POLR2A MTA3 CTBP1 HDAC2 PRDM4 TARDBP SCG5 ENSG00000285948 lnc-FMN1-9 piR-50444-122
GH15J032633 Promoter 0.3 EPDnew 750.4 -7.6 -7645 0.1 SCG5 piR-55934 ENSG00000285948 HSALNG0104774-002 ARHGAP11A
GH15J032677 Enhancer 1 Ensembl dbSUPER 15.7 +35.8 35832 1.4 FOXA1 CREB1 MIXL1 HLF RAD21 RERE ZBTB33 SP1 MAFK TFE3 SCG5 GREM1 ENSG00000212415 GOLGA8N LOC105370757 LOC105370756
GH15J032668 Enhancer 1.4 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.9 +28.9 28927 4.4 CREB1 SP1 CEBPG TFE3 CEBPA GATAD2A CEBPB ZNF629 ATF7 SOX13 lnc-ARHGAP11A-7 SCG5 ENSG00000212415 ARHGAP11A GREM1 GOLGA8O ENSG00000241818 LOC105370757
GH15J032860 Promoter/Enhancer 1.4 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.3 +220.3 220267 2.4 L3MBTL2 MAX MAFK ZIC2 MGA USF1 ZFX USF2 GREM1 ENSG00000212415 SCG5 ENSG00000241818 ENSG00000254912 piR-45191 RF01210-120 FMN1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SCG5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SCG5 gene promoter:
  • AP-1
  • ATF-2
  • c-Fos
  • c-Jun
  • CUTL1
  • En-1
  • Lmo2
  • LUN-1

Genomic Locations for SCG5 Gene

Genomic Locations for SCG5 Gene
chr15:32,641,669-32,697,098
(GRCh38/hg38)
Size:
55,430 bases
Orientation:
Plus strand
chr15:32,933,870-32,989,299
(GRCh37/hg19)
Size:
55,430 bases
Orientation:
Plus strand

Genomic View for SCG5 Gene

Genes around SCG5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SCG5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SCG5 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for SCG5 Gene

Proteins for SCG5 Gene

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  • Protein details for SCG5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P05408-7B2_HUMAN
    Recommended name:
    Neuroendocrine protein 7B2
    Protein Accession:
    P05408
    Secondary Accessions:
    • P01164
    • Q6FHD0
    • Q9BS38

    Protein attributes for SCG5 Gene

    Size:
    212 amino acids
    Molecular mass:
    23730 Da
    Quaternary structure:
    • Interacts with PCSK2/PC2 early in the secretory pathway. Dissociation occurs at later stages.

    Alternative splice isoforms for SCG5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SCG5 Gene

Protein Expression for SCG5 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for SCG5 Gene

  • Proteolytically cleaved in the Golgi by a furin-like convertase to generate bioactive peptides.
  • Sulfated on tyrosine residues.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for SCG5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SCG5 Gene

Domains & Families for SCG5 Gene

Gene Families for SCG5 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted secreted proteins

Protein Domains for SCG5 Gene

Blocks:
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for SCG5 Gene

GenScript: Design optimal peptide antigens:
  • Secretory granule endocrine protein I (7B2_HUMAN)
  • Secretory granule, neuroendocrine protein 1 (7B2 protein), isoform CRA_b (Q6FHD0_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P05408

UniProtKB/Swiss-Prot:

7B2_HUMAN :
  • Belongs to the 7B2 family.
Family:
  • Belongs to the 7B2 family.
genes like me logo Genes that share domains with SCG5: view

Function for SCG5 Gene

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Molecular function for SCG5 Gene

UniProtKB/Swiss-Prot Function:
Acts as a molecular chaperone for PCSK2/PC2, preventing its premature activation in the regulated secretory pathway. Binds to inactive PCSK2 in the endoplasmic reticulum and facilitates its transport from there to later compartments of the secretory pathway where it is proteolytically matured and activated. Also required for cleavage of PCSK2 but does not appear to be involved in its folding. Plays a role in regulating pituitary hormone secretion. The C-terminal peptide inhibits PCSK2 in vitro.

Phenotypes From GWAS Catalog for SCG5 Gene

Gene Ontology (GO) - Molecular Function for SCG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004857 enzyme inhibitor activity ISS --
GO:0005515 protein binding IPI 7913882
GO:0005525 GTP binding TAS 3134253
GO:0051082 unfolded protein binding IDA 7913882
genes like me logo Genes that share ontologies with SCG5: view
genes like me logo Genes that share phenotypes with SCG5: view

Animal Models for SCG5 Gene

MGI Knock Outs for SCG5:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SCG5

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SCG5 Gene

Localization for SCG5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SCG5 Gene

Secreted. Note=Neuroendocrine and endocrine secretory granules.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SCG5 gene
Compartment Confidence
extracellular 5
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for SCG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0030141 secretory granule IEA,ISS --
genes like me logo Genes that share ontologies with SCG5: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SCG5 Gene

Pathways & Interactions for SCG5 Gene

PathCards logo

SuperPathways for SCG5 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SCG5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport ISS --
GO:0007218 neuropeptide signaling pathway IEA --
GO:0016486 peptide hormone processing ISS --
GO:0043086 negative regulation of catalytic activity IEA --
GO:0046883 regulation of hormone secretion ISS --
genes like me logo Genes that share ontologies with SCG5: view

No data available for Pathways by source and SIGNOR curated interactions for SCG5 Gene

Drugs & Compounds for SCG5 Gene

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  1. Drug

(30) Drugs for SCG5 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(29) Additional Compounds for SCG5 Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with SCG5: view

Transcripts for SCG5 Gene

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  1. CRISPR
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  3. Inhibitory RNA
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mRNA/cDNA for SCG5 Gene

(2) REFSEQ mRNAs :
(8) Additional mRNA sequences :
(519) Selected AceView cDNA sequences:
(9) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SCG5

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SCG5 Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6a · 6b · 6c · 6d · 6e
SP1: - - - -
SP2: - - - -
SP3: - - - - -
SP4: - - - - -
SP5: - -
SP6: - -
SP7:

Relevant External Links for SCG5 Gene

GeneLoc Exon Structure for
SCG5
ECgene alternative splicing isoforms for
SCG5

Expression for SCG5 Gene

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  1. Primer
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mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SCG5 Gene

mRNA expression in normal human tissues for SCG5 Gene
mRNA expression by BioGPS for SCG5 GenemRNA expression by GTEx for SCG5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SCG5 Gene

This gene is overexpressed in Pituitary (x6.7), Brain - Frontal Cortex (BA9) (x4.9), Brain - Anterior cingulate cortex (BA24) (x4.3), and Brain - Nucleus accumbens (basal ganglia) (x4.1).

Protein differential expression in normal tissues from HIPED for SCG5 Gene

This gene is overexpressed in Cerebrospinal fluid (22.8), Frontal cortex (17.4), Vitreous humor (11.0), and Islet of Langerhans (9.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SCG5 Gene



Protein tissue co-expression partners for SCG5 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SCG5 Gene:

SCG5

SOURCE GeneReport for Unigene cluster for SCG5 Gene:

Hs.156540

Evidence on tissue expression from TISSUES for SCG5 Gene

  • Pancreas(5)
  • Nervous system(5)
  • Adrenal gland(2.5)
  • Stomach(2.2)
  • Intestine(2)
genes like me logo Genes that share expression patterns with SCG5: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SCG5 Gene

Orthologs for SCG5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for SCG5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia SCG5 33 32
  • 99.37 (n)
 OneToOne
cow
(Bos Taurus)
 Mammalia SCG5 33
  • 96 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia SCG5 33
  • 89 (a)
 OneToOne
oppossum
(Monodelphis domestica)
 Mammalia SCG5 33
  • 88 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Scg5 17 33 32
  • 87.74 (n)
rat
(Rattus norvegicus)
 Mammalia Scg5 32
  • 87.3 (n)
platypus
(Ornithorhynchus anatinus)
 Mammalia SCG5 33
  • 74 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves SCG5 33 32
  • 75.67 (n)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia SCG5 33
  • 82 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia scg5 32
  • 73.13 (n)
African clawed frog
(Xenopus laevis)
 Amphibia LOC397865 32
zebrafish
(Danio rerio)
 Actinopterygii scg5 33 33 32
  • 70.24 (n)
 OneToMany
zgc73132 32
rainbow trout
(Oncorhynchus mykiss)
 Actinopterygii Omy.9417 32
Species where no ortholog for SCG5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for SCG5 Gene

ENSEMBL:
Gene Tree for SCG5 (if available)
TreeFam:
Gene Tree for SCG5 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SCG5: view image

Paralogs for SCG5 Gene

No data available for Paralogs for SCG5 Gene

Variants for SCG5 Gene

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Sequence variations from dbSNP and Humsavar for SCG5 Gene

SNP ID Clin Chr 15 pos Variation AA Info Type
rs200799739 uncertain-significance, Hereditary Mixed Polyposis 32,691,752(+) C/T coding_sequence_variant, stop_gained
rs1000105728 -- 32,673,039(+) T/G intron_variant
rs1000227557 -- 32,666,913(+) C/T intron_variant
rs1000314072 -- 32,653,812(+) A/G intron_variant
rs1000347790 -- 32,640,591(+) G/C upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for SCG5 Gene

Variant ID Type Subtype PubMed ID
dgv4456n54 CNV gain 21841781
esv2422296 CNV duplication 17116639
esv2760023 CNV gain+loss 17122850
esv3307524 CNV mobile element insertion 20981092
esv33337 CNV gain+loss 17666407
esv3420441 CNV insertion 20981092
esv3581613 CNV loss 25503493
esv3892661 CNV gain 25118596
nsv1052620 CNV gain 25217958
nsv1481 CNV deletion 18451855
nsv428302 CNV gain+loss 18775914
nsv456785 CNV gain 19166990
nsv469587 CNV loss 16826518
nsv483039 CNV gain 15286789
nsv517740 CNV gain+loss 19592680
nsv568913 CNV gain 21841781
nsv568915 CNV gain 21841781
nsv568916 CNV loss 21841781

Variation tolerance for SCG5 Gene

Residual Variation Intolerance Score: 45.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.91; 18.83% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SCG5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SCG5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SCG5 Gene

Disorders for SCG5 Gene

MalaCards: The human disease database

(4) MalaCards diseases for SCG5 Gene - From: ClinVar, DISEASES, and GeneCards

Disorder Aliases PubMed IDs
polyposis syndrome, hereditary mixed, 1
  • hmps1
hereditary mixed polyposis syndrome
  • hmps
wolfram syndrome
  • wfs
xanthogranulomatous pyelonephritis
  • pyelonephritis, xanthogranulomatous
- elite association - COSMIC cancer census association via MalaCards
Search SCG5 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for SCG5

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with SCG5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SCG5 Gene

Publications for SCG5 Gene

  1. Secretory granule neuroendocrine protein 1 (SGNE1) genetic variation and glucose intolerance in severe childhood and adult obesity. (PMID: 17617923) Bouatia-Naji N … Meyre D (BMC medical genetics 2007) 3 23 43 56
  2. Structural organization of the gene encoding the neuroendocrine chaperone 7B2. (PMID: 8617287) Braks JA … Martens GJ (European journal of biochemistry 1996) 3 4 23 56
  3. Meta-analysis of new genome-wide association studies of colorectal cancer risk. (PMID: 21761138) Peters U … Casey G (Human genetics 2012) 3 43 56
  4. A common variant in DRD3 receptor is associated with autism spectrum disorder. (PMID: 19058789) de Krom M … van Ree JM (Biological psychiatry 2009) 3 43 56
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 56

ExternalLinks

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