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Aliases for PGAM4 Gene

Aliases for PGAM4 Gene

  • Phosphoglycerate Mutase Family Member 4 2 3 5
  • PGAM3 3 4
  • Phosphoglycerate Mutase Processed Protein 3
  • Probable Phosphoglycerate Mutase 4 3
  • Phosphoglycerate Mutase Family 4 2
  • Phosphoglycerate Mutase Family 3 3
  • Phosphoglycerate Mutase 4 3
  • DJ1000K24.1 3
  • EC 5.4.2.11 4
  • EC 5.4.2.1 58
  • EC 5.4.2.4 4
  • PGAM-B 3
  • PGAM1 3

External Ids for PGAM4 Gene

Previous GeneCards Identifiers for PGAM4 Gene

  • GC0XM9L0730
  • GC0XM077110
  • GC0XM077223
  • GC0XM070810

Summaries for PGAM4 Gene

Entrez Gene Summary for PGAM4 Gene

  • This intronless gene appears to have arisen from a retrotransposition event, yet it is thought to be an expressed, protein-coding gene. The encoded protein is a member of the phosphoglycerate mutase family, a set of enzymes that catalyze the transfer of a phosphate group from 3-phosphoglycerate to 2-phosphoglycerate. [provided by RefSeq, May 2010]

GeneCards Summary for PGAM4 Gene

PGAM4 (Phosphoglycerate Mutase Family Member 4) is a Protein Coding gene. Among its related pathways are Glucagon signaling pathway and Glucose metabolism. GO annotations related to this gene include intramolecular transferase activity, phosphotransferases and bisphosphoglycerate 2-phosphatase activity. An important paralog of this gene is PGAM1.

Additional gene information for PGAM4 Gene

No data available for CIViC summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PGAM4 Gene

Genomics for PGAM4 Gene

Regulatory Elements for PGAM4 Gene

Enhancers for PGAM4 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XH077970 0.3 FANTOM5 0.7 -1.1 -1143 0 PGAM4 GC0XP078007
GH0XH077975 0.5 ENCODE 0.4 -6.4 -6382 0 JUN STAT3 CEBPB EP300 TCF7L2 PGAM4 GC0XP078007
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PGAM4 on UCSC Golden Path with GeneCards custom track

Genomic Location for PGAM4 Gene

Chromosome:
X
Start:
77,967,961 bp from pter
End:
77,969,638 bp from pter
Size:
1,678 bases
Orientation:
Minus strand

Genomic View for PGAM4 Gene

Genes around PGAM4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PGAM4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PGAM4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PGAM4 Gene

Proteins for PGAM4 Gene

  • Protein details for PGAM4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N0Y7-PGAM4_HUMAN
    Recommended name:
    Probable phosphoglycerate mutase 4
    Protein Accession:
    Q8N0Y7
    Secondary Accessions:
    • Q5JPN2
    • Q8NI24
    • Q8NI25
    • Q8NI26

    Protein attributes for PGAM4 Gene

    Size:
    254 amino acids
    Molecular mass:
    28777 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • This is the product of a processed gene created by retroposition from mRNA of an expressed gene. This gene seems to be expressed.

neXtProt entry for PGAM4 Gene

Selected DME Specific Peptides for PGAM4 Gene

Q8N0Y7:
  • IWRRSYD
  • GLNKAETA
  • LVLIRHG
  • WRRSYDV
  • VLIAAHGNS
  • LNERHYG

Post-translational modifications for PGAM4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for PGAM4 Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for PGAM4 Gene

Gene Families for PGAM4 Gene

Suggested Antigen Peptide Sequences for PGAM4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8N0Y7

UniProtKB/Swiss-Prot:

PGAM4_HUMAN :
  • Belongs to the phosphoglycerate mutase family. BPG-dependent PGAM subfamily.
Family:
  • Belongs to the phosphoglycerate mutase family. BPG-dependent PGAM subfamily.
genes like me logo Genes that share domains with PGAM4: view

Function for PGAM4 Gene

Molecular function for PGAM4 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
2-phospho-D-glycerate = 3-phospho-D-glycerate.
UniProtKB/Swiss-Prot CatalyticActivity:
3-phospho-D-glyceroyl phosphate = 2,3-bisphospho-D-glycerate.

Enzyme Numbers (IUBMB) for PGAM4 Gene

Gene Ontology (GO) - Molecular Function for PGAM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004082 bisphosphoglycerate mutase activity IEA --
GO:0004619 phosphoglycerate mutase activity NAS 11961099
GO:0016787 hydrolase activity IEA --
GO:0016853 isomerase activity IEA --
GO:0016868 intramolecular transferase activity, phosphotransferases IEA --
genes like me logo Genes that share ontologies with PGAM4: view

Phenotypes for PGAM4 Gene

genes like me logo Genes that share phenotypes with PGAM4: view

Animal Model Products

CRISPR Products

miRNA for PGAM4 Gene

miRTarBase miRNAs that target PGAM4

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for PGAM4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PGAM4 Gene

Localization for PGAM4 Gene

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 PGAM4 gene
Compartment Confidence
extracellular 5
cytosol 4
plasma membrane 2
nucleus 2
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for PGAM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol IBA --
GO:0070062 extracellular exosome IDA 23533145
GO:0097228 sperm principal piece IDA 22590500
genes like me logo Genes that share ontologies with PGAM4: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for PGAM4 Gene

Pathways & Interactions for PGAM4 Gene

genes like me logo Genes that share pathways with PGAM4: view

Gene Ontology (GO) - Biological Process for PGAM4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006094 gluconeogenesis IBA --
GO:0006096 glycolytic process NAS 11961099
GO:0008152 metabolic process IEA --
GO:0043456 regulation of pentose-phosphate shunt IBA --
GO:1902093 positive regulation of flagellated sperm motility NAS 22590500
genes like me logo Genes that share ontologies with PGAM4: view

No data available for SIGNOR curated interactions for PGAM4 Gene

Drugs & Compounds for PGAM4 Gene

(4) Drugs for PGAM4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
2-phospho-D-glyceric acid Experimental Pharma 0
3-Phosphoglyceric acid Experimental Pharma 0

(3) Additional Compounds for PGAM4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
2,3-Diphosphoglyceric acid
  • (2R)-2,3-bis(phosphonooxy)-Propanoate
  • (2R)-2,3-bis(phosphonooxy)-Propanoic acid
  • (R)-2,3-bis(phosphonooxy)-Propanoate
  • (R)-2,3-bis(phosphonooxy)-Propanoic acid
  • 2,3-Bis(phosphonooxy)-Propanoate
138-81-8
2-Phosphoglyceric acid
  • 2-(Dihydrogen phosphate)Glycerate
  • 2-(Dihydrogen phosphate)Glyceric acid
  • 2-P-D-Glycerate
  • 2-P-D-Glyceric acid
  • 2-P-Glycerate
2553-59-5
Glyceric acid 1,3-biphosphate
  • 1,3-Biphosphoglycerate
  • 1,3-Biphosphoglyceric acid
  • 1,3-Bis-phosphoglycerate
  • 1,3-Bisphosphoglycerate
  • 1,3-Diphosphateglycerate
1981-49-3
genes like me logo Genes that share compounds with PGAM4: view

Transcripts for PGAM4 Gene

mRNA/cDNA for PGAM4 Gene

(1) REFSEQ mRNAs :
(0) Additional mRNA sequences :
-
(24) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PGAM4 Gene

Phosphoglycerate mutase family member 4:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for PGAM4
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for PGAM4 Gene

No ASD Table

Relevant External Links for PGAM4 Gene

GeneLoc Exon Structure for
PGAM4
ECgene alternative splicing isoforms for
PGAM4

Expression for PGAM4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for PGAM4 Gene

Protein differential expression in normal tissues from HIPED for PGAM4 Gene

This gene is overexpressed in Lung (34.4), Lavage (12.2), and Brain (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for PGAM4 Gene



Protein tissue co-expression partners for PGAM4 Gene

NURSA nuclear receptor signaling pathways regulating expression of PGAM4 Gene:

PGAM4

SOURCE GeneReport for Unigene cluster for PGAM4 Gene:

Hs.632822

Evidence on tissue expression from TISSUES for PGAM4 Gene

  • Nervous system(2.5)
  • Eye(2)
genes like me logo Genes that share expression patterns with PGAM4: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for PGAM4 Gene

Orthologs for PGAM4 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for PGAM4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PGAM4 33
  • 99.34 (n)
cow
(Bos Taurus)
Mammalia PGAM1 34
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PGAM4 34
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pgam1 34
  • 95 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 93 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 75 (a)
ManyToMany
chicken
(Gallus gallus)
Aves PGAM1 34
  • 90 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 34
  • 88 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii pgam1a 34
  • 87 (a)
ManyToMany
pgam1b 34
  • 87 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta Pglym78 34
  • 65 (a)
ManyToMany
Pglym87 34
  • 52 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes GPM1 34
  • 49 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4977 34
  • 60 (a)
OneToMany
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes gpm1 33
  • 55.09 (n)
Species where no ortholog for PGAM4 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)
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PGAM4 Gene

ENSEMBL:
Gene Tree for PGAM4 (if available)
TreeFam:
Gene Tree for PGAM4 (if available)

Paralogs for PGAM4 Gene

Paralogs for PGAM4 Gene

(3) SIMAP similar genes for PGAM4 Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for PGAM4 Gene

genes like me logo Genes that share paralogs with PGAM4: view

Variants for PGAM4 Gene

Sequence variations from dbSNP and Humsavar for PGAM4 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs376654190 Benign 77,968,990(+) ATAGA(A/C/T)GATGG intron-variant, reference, missense
rs1005227953 -- 77,967,940(+) TGATG(C/T)TGTAA intron-variant, downstream-variant-500B
rs1009079114 -- 77,970,376(+) ATTAG(A/G)AACAA intron-variant, upstream-variant-2KB
rs1011025794 -- 77,970,825(+) CCACA(A/G)GAAGG intron-variant, upstream-variant-2KB
rs1012246572 -- 77,971,433(+) CTAAG(C/G)TGATA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for PGAM4 Gene

Variant ID Type Subtype PubMed ID
esv2758874 CNV loss 17122850

Variation tolerance for PGAM4 Gene

Residual Variation Intolerance Score: 85.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.14; 61.49% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PGAM4 Gene

Human Gene Mutation Database (HGMD)
PGAM4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PGAM4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PGAM4 Gene

Disorders for PGAM4 Gene

Relevant External Links for PGAM4

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PGAM4

No disorders were found for PGAM4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PGAM4 Gene

Publications for PGAM4 Gene

  1. Evolution of the phosphoglycerate mutase processed gene in human and chimpanzee revealing the origin of a new primate gene. (PMID: 11961099) Betrán E … Long M (Molecular biology and evolution 2002) 2 3 4 22 60
  2. Emergence of young human genes after a burst of retroposition in primates. (PMID: 16201836) Marques AC … Kaessmann H (PLoS biology 2005) 3 4 60
  3. A phosphoglycerate mutase brain isoform (PGAM 1) pseudogene is localized within the human Menkes disease gene (ATP7 A). (PMID: 9370262) Dierick HA … Glover TW (Gene 1997) 2 3 60
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  5. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 60

Products for PGAM4 Gene

Sources for PGAM4 Gene

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