PGA3 Gene (Protein Coding)

Pepsinogen A3

GC11P061203
GIFtS:
34
This gene encodes a protein precursor of the digestive enzyme pepsin, a member of the peptidase A1 family of endopeptidases. The encoded precursor is secreted by gastric chief cells and undergoes autocatalytic cleavage in acidic conditions to form the active enzyme, which functions in the digestion of dietary proteins. This gene is found in a cluster of related genes on chromos... See more...

Aliases for PGA3 Gene

Aliases for PGA3 Gene

  • Pepsinogen A3 2 3
  • Pepsinogen 3, Group I (Pepsinogen A) 2 3 5
  • Pepsinogen-3 3 4
  • Pepsin A-3 3 4
  • EC 3.4.23.1 4
  • Pepsin A 2

External Ids for PGA3 Gene

Previous GeneCards Identifiers for PGA3 Gene

  • GC11U990100
  • GC11P060785
  • GC11P060787
  • GC11P060766
  • GC11P060715
  • GC11P060970

Summaries for PGA3 Gene

Entrez Gene Summary for PGA3 Gene

  • This gene encodes a protein precursor of the digestive enzyme pepsin, a member of the peptidase A1 family of endopeptidases. The encoded precursor is secreted by gastric chief cells and undergoes autocatalytic cleavage in acidic conditions to form the active enzyme, which functions in the digestion of dietary proteins. This gene is found in a cluster of related genes on chromosome 11, each of which encodes one of multiple pepsinogens. Pepsinogen levels in serum may serve as a biomarker for atrophic gastritis and gastric cancer. [provided by RefSeq, Jul 2015]

GeneCards Summary for PGA3 Gene

PGA3 (Pepsinogen A3) is a Protein Coding gene. Diseases associated with PGA3 include Atrophic Gastritis and Gastritis. Among its related pathways are Collagen chain trimerization and Surfactant metabolism. Gene Ontology (GO) annotations related to this gene include aspartic-type endopeptidase activity. An important paralog of this gene is PGA4.

UniProtKB/Swiss-Prot Summary for PGA3 Gene

  • Shows particularly broad specificity; although bonds involving phenylalanine and leucine are preferred, many others are also cleaved to some extent.

Additional gene information for PGA3 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PGA3 Gene

Genomics for PGA3 Gene

GeneHancer (GH) Regulatory Elements for PGA3 Gene

Promoters and enhancers for PGA3 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
GH11J061202 Promoter/Enhancer 1 EPDnew Ensembl dbSUPER 769.1 +2.2 2240 8.1 ZBTB33 RNF2 ZNF512 ZNF316 ZNF366 EZH2 ZNF24 PGA3 VPS37C CD6 RNU6-933P piR-45035-035
GH11J061193 Enhancer 0.3 dbSUPER 13.4 -9.4 -9355 1.5 FOXA1 PGA3 CD5 CD6 TKFC DDB1 lnc-PGA3-1
GH11J061198 Enhancer 0.2 dbSUPER 19 -4.4 -4351 0.9 PGA3 CD6 lnc-PGA3-1
GH11J061505 Enhancer 0.5 Ensembl 5.1 +302.6 302630 1.1 GLIS2 ZIC2 PRDM10 ZBTB20 ZFHX2 ZNF335 FEZF1 GLIS1 ZNF398 piR-43106-035 TMEM216 PGA3 ENSG00000255931 LOC105369329
GH11J061187 Enhancer 0.6 ENCODE 0.4 -15.6 -15563 0.2 CTCF MYC MAX RAD21 REST TRIM22 ZNF143 IRF3 RFX1 RUNX3 VPS37C CD6 CCDC86 ENSG00000255959 lnc-PGA3-1 PGA3
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PGA3 on UCSC Golden Path with GeneCards custom track

Genomic Locations for PGA3 Gene

Genomic Locations for PGA3 Gene
chr11:61,203,307-61,213,098
(GRCh38/hg38)
Size:
9,792 bases
Orientation:
Plus strand
chr11:60,970,779-60,980,570
(GRCh37/hg19)
Size:
9,792 bases
Orientation:
Plus strand

Genomic View for PGA3 Gene

Genes around PGA3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PGA3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PGA3 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for PGA3 Gene

Proteins for PGA3 Gene

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  • Protein details for PGA3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P0DJD8-PEPA3_HUMAN
    Recommended name:
    Pepsin A-3
    Protein Accession:
    P0DJD8
    Secondary Accessions:
    • A8K749
    • B2R7D6
    • B7ZW75
    • P00790
    • Q7M4R0
    • Q8N1E3

    Protein attributes for PGA3 Gene

    Size:
    388 amino acids
    Molecular mass:
    41976 Da
    Quaternary structure:
    No Data Available

neXtProt entry for PGA3 Gene

Protein Expression for PGA3 Gene

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

Post-translational modifications for PGA3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PGA3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PGA3 Gene

Domains & Families for PGA3 Gene

Gene Families for PGA3 Gene

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

Protein Domains for PGA3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PGA3 Gene

GenScript: Design optimal peptide antigens:
  • cDNA, FLJ93393, highly similar to Homo sapiens pepsinogen 5, group I (pepsinogen A) (PGA5), mRNA (B2R7D6_HUMAN)

Graphical View of Domain Structure for InterPro Entry

P0DJD8

UniProtKB/Swiss-Prot:

PEPA3_HUMAN :
  • Belongs to the peptidase A1 family.
Family:
  • Belongs to the peptidase A1 family.
genes like me logo Genes that share domains with PGA3: view

Function for PGA3 Gene

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  2. CRISPR
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  6. Cell Line

Molecular function for PGA3 Gene

UniProtKB/Swiss-Prot Function:
Shows particularly broad specificity; although bonds involving phenylalanine and leucine are preferred, many others are also cleaved to some extent.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=Preferential cleavage: hydrophobic, preferably aromatic, residues in P1 and P1' positions. Cleaves 1-Phe- -Val-2, 4-Gln- -His-5, 13-Glu- -Ala-14, 14-Ala- -Leu-15, 15-Leu- -Tyr-16, 16-Tyr- -Leu-17, 23-Gly- -Phe-24, 24-Phe- -Phe-25 and 25-Phe- -Tyr-26 bonds in the B chain of insulin.; EC=3.4.23.1; Evidence=. ;.
GENATLAS Biochemistry:
pepsinogen 3,group I (pepsinogen A),clustered with PGA4,PGA5

Enzyme Numbers (IUBMB) for PGA3 Gene

Phenotypes From GWAS Catalog for PGA3 Gene

Gene Ontology (GO) - Molecular Function for PGA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004190 aspartic-type endopeptidase activity IBA 21873635
GO:0008233 peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with PGA3: view

Phenotypes for PGA3 Gene

GenomeRNAi human phenotypes for PGA3:
genes like me logo Genes that share phenotypes with PGA3: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PGA3

No data available for Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PGA3 Gene

Localization for PGA3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PGA3 Gene

Secreted.

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 PGA3 gene
Compartment Confidence
extracellular 5
endosome 4
cytosol 1

Gene Ontology (GO) - Cellular Components for PGA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0070062 extracellular exosome HDA 23533145
GO:0097486 multivesicular body lumen TAS --
genes like me logo Genes that share ontologies with PGA3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PGA3 Gene

Pathways & Interactions for PGA3 Gene

genes like me logo Genes that share pathways with PGA3: view

Pathways by source for PGA3 Gene

2 Reactome pathways for PGA3 Gene
1 KEGG pathway for PGA3 Gene

Interacting Proteins for PGA3 Gene

STRING Interaction Network Preview (showing top 5 STRING interactants - click image to see top 25)
STRING Interaction Network
Selected Interacting proteins: ENSP00000322192 for PGA3 Gene via STRING

GPS-Prot Interaction Network for PGA3

Gene Ontology (GO) - Biological Process for PGA3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IBA,IEA 21873635
GO:0007586 digestion IEA --
GO:0030163 protein catabolic process IBA 21873635
GO:0044267 cellular protein metabolic process TAS --
genes like me logo Genes that share ontologies with PGA3: view

No data available for SIGNOR curated interactions for PGA3 Gene

Drugs & Compounds for PGA3 Gene

Products:

  1. Drug

(2) Drugs for PGA3 Gene - From: DGIdb

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Sucralfate Approved Pharma 13
Ecabet Investigational Pharma 5
genes like me logo Genes that share compounds with PGA3: view

Transcripts for PGA3 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for PGA3 Gene

(1) REFSEQ mRNAs :
(10) Additional mRNA sequences :
(8) 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 PGA3

Alternative Splicing Database (ASD) splice patterns (SP) for PGA3 Gene

No ASD Table

Relevant External Links for PGA3 Gene

GeneLoc Exon Structure for
PGA3
ECgene alternative splicing isoforms for
PGA3

Expression for PGA3 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PGA3 Gene

mRNA expression in normal human tissues for PGA3 Gene
mRNA expression by GTEx for PGA3 GenemRNA expression by BioGPS for PGA3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PGA3 Gene

This gene is overexpressed in Stomach (x52.8).

Protein differential expression in normal tissues from HIPED for PGA3 Gene

This gene is overexpressed in Stomach (58.8) and Urine (9.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for PGA3 Gene



Protein tissue co-expression partners for PGA3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PGA3 Gene:

PGA3

SOURCE GeneReport for Unigene cluster for PGA3 Gene:

Hs.601055

Evidence on tissue expression from TISSUES for PGA3 Gene

  • Stomach(5)
  • Nervous system(4.4)
genes like me logo Genes that share expression patterns with PGA3: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PGA3 Gene

Orthologs for PGA3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PGA3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
 Mammalia PGA4 32
  • 98.97 (n)
-- 33
  • 98 (a)
 OneToMany
dog
(Canis familiaris)
 Mammalia PGA 33 32
  • 86.18 (n)
 OneToMany
cow
(Bos Taurus)
 Mammalia PGA5 32
  • 84.72 (n)
PGA 33
  • 82 (a)
 OneToMany
oppossum
(Monodelphis domestica)
 Mammalia -- 33
  • 61 (a)
 ManyToMany
mouse
(Mus musculus)
 Mammalia Pga5 33
  • 55 (a)
 OneToMany
chicken
(Gallus gallus)
 Aves LOC395926 32
  • 63.53 (n)
PGA 33
  • 62 (a)
 OneToMany
lizard
(Anolis carolinensis)
 Reptilia -- 33
  • 72 (a)
 OneToMany
tropical clawed frog
(Silurana tropicalis)
 Amphibia pga4 32
  • 68.06 (n)
Species where no ortholog for PGA3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • zebrafish (Danio rerio)

Evolution for PGA3 Gene

ENSEMBL:
Gene Tree for PGA3 (if available)
TreeFam:
Gene Tree for PGA3 (if available)

Paralogs for PGA3 Gene

Paralogs for PGA3 Gene

(8) SIMAP similar genes for PGA3 Gene using alignment to 5 proteins:

  • PEPA3_HUMAN
  • F5GXL4_HUMAN
  • F5H0H6_HUMAN
  • F5H7H3_HUMAN
  • F5H842_HUMAN

Pseudogenes.org Pseudogenes for PGA3 Gene

genes like me logo Genes that share paralogs with PGA3: view

Variants for PGA3 Gene

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  1. SNP Genotyping and Copy Number Assay

Sequence variations from dbSNP and Humsavar for PGA3 Gene

SNP ID Clin Chr 11 pos Variation AA Info Type
rs1002371559 -- 61,202,961(+) A/G upstream_transcript_variant
rs1002402654 -- 61,203,786(+) AAAA/AAA intron_variant
rs1002738167 -- 61,201,875(+) T/C upstream_transcript_variant
rs1003991848 -- 61,201,732(+) A/G upstream_transcript_variant
rs1005745299 -- 61,202,438(+) T/A upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for PGA3 Gene

Variant ID Type Subtype PubMed ID
dgv1960n54 CNV loss 21841781
esv1004439 CNV deletion 20482838
esv2759831 CNV gain+loss 17122850
esv2761679 CNV loss 21179565
esv29298 CNV gain+loss 19812545
esv3342315 CNV duplication 20981092
esv3351352 CNV duplication 20981092
esv3425930 CNV duplication 20981092
esv3579734 CNV loss 25503493
nsv1078324 CNV duplication 25765185
nsv1118213 CNV deletion 24896259
nsv1124641 CNV duplication 24896259
nsv338 CNV insertion 18451855
nsv339 CNV deletion 18451855
nsv428259 CNV gain+loss 18775914
nsv436823 CNV insertion 17901297
nsv514629 CNV gain 21397061
nsv555154 CNV gain 21841781
nsv555155 CNV loss 21841781
nsv555162 CNV loss 21841781
nsv555163 CNV loss 21841781
nsv72 CNV insertion 15895083
nsv820586 CNV deletion 20802225
nsv825937 CNV loss 20364138
nsv832176 CNV gain+loss 17160897
nsv832177 CNV loss 17160897
nsv8833 CNV gain 18304495
nsv952457 CNV duplication 24416366
nsv975192 CNV duplication 23825009

Variation tolerance for PGA3 Gene

Gene Damage Index Score: 0.53; 11.48% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PGA3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
PGA3

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PGA3 Gene

Disorders for PGA3 Gene

MalaCards: The human disease database

(2) MalaCards diseases for PGA3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
atrophic gastritis
  • gastric atrophy
gastritis
  • acute gastric mucosal erosion
- elite association - COSMIC cancer census association via MalaCards
Search PGA3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for PGA3

ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with PGA3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PGA3 Gene

Publications for PGA3 Gene

  1. Primary structure of human pepsinogen gene. (PMID: 6300126) Sogawa K … Takahashi K (The Journal of biological chemistry 1983) 2 3 4 56
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 56
  3. Assignment of the pepsinogen gene complex (PGA) to human chromosome region 11q13 by in situ hybridization. (PMID: 3467902) Nakai H … Taggart RT (Cytogenetics and cell genetics 1986) 2 3 56
  4. Relationships between the human pepsinogen DNA and protein polymorphisms. (PMID: 3014868) Taggart RT … Bell GI (American journal of human genetics 1986) 2 3 56
  5. Temporal changes in serum biomarkers and risk for progression of gastric precancerous lesions: a longitudinal study. (PMID: 24895149) Tu H … Yuan Y (International journal of cancer 2015) 3 56

ExternalLinks

View latest publications for PGA3 gene in Mastermind

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