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Aliases for PDXDC1 Gene

Aliases for PDXDC1 Gene

  • Pyridoxal-Dependent Decarboxylase Domain Containing 1 2 3 5
  • EC 63
  • EC 4.1.1.- 4
  • KIAA0251 4
  • EC 4.1.1 63
  • LP8165 3

External Ids for PDXDC1 Gene

Previous GeneCards Identifiers for PDXDC1 Gene

  • GC16P014978
  • GC16P015068
  • GC16P014770

Summaries for PDXDC1 Gene

GeneCards Summary for PDXDC1 Gene

PDXDC1 (Pyridoxal-Dependent Decarboxylase Domain Containing 1) is a Protein Coding gene. GO annotations related to this gene include pyridoxal phosphate binding and carboxy-lyase activity.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PDXDC1 Gene

Genomics for PDXDC1 Gene

Regulatory Elements for PDXDC1 Gene

Enhancers for PDXDC1 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around PDXDC1 on UCSC Golden Path with GeneCards custom track

Promoters for PDXDC1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around PDXDC1 on UCSC Golden Path with GeneCards custom track

Genomic Location for PDXDC1 Gene

14,974,591 bp from pter
15,139,349 bp from pter
164,759 bases
Plus strand

Genomic View for PDXDC1 Gene

Genes around PDXDC1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PDXDC1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PDXDC1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PDXDC1 Gene

Proteins for PDXDC1 Gene

  • Protein details for PDXDC1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Pyridoxal-dependent decarboxylase domain-containing protein 1
    Protein Accession:
    Secondary Accessions:
    • B4DR55
    • B4DSL3
    • E7EMH5
    • E7EPL4
    • H3BNZ1
    • O00236
    • Q4F6X7
    • Q6PID7
    • Q86YF1
    • Q8N4Q9
    • Q8TBS5

    Protein attributes for PDXDC1 Gene

    788 amino acids
    Molecular mass:
    86707 Da
    Name=pyridoxal 5-phosphate; Xref=ChEBI:CHEBI:597326;
    Quaternary structure:
    No Data Available
    • Sequence=AAH33748.1; Type=Frameshift; Positions=369; Evidence={ECO:0000305}; Sequence=AAZ14099.1; Type=Frameshift; Positions=369; Evidence={ECO:0000305}; Sequence=BAA19780.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for PDXDC1 Gene


neXtProt entry for PDXDC1 Gene

Proteomics data for PDXDC1 Gene at MOPED

Selected DME Specific Peptides for PDXDC1 Gene

Post-translational modifications for PDXDC1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Domains & Families for PDXDC1 Gene

Suggested Antigen Peptide Sequences for PDXDC1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the group II decarboxylase family.
  • Belongs to the group II decarboxylase family.
genes like me logo Genes that share domains with PDXDC1: view

No data available for Gene Families for PDXDC1 Gene

Function for PDXDC1 Gene

Enzyme Numbers (IUBMB) for PDXDC1 Gene

Gene Ontology (GO) - Molecular Function for PDXDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016831 carboxy-lyase activity IEA --
genes like me logo Genes that share ontologies with PDXDC1: view

Phenotypes for PDXDC1 Gene

genes like me logo Genes that share phenotypes with PDXDC1: view

Animal Model Products

CRISPR Products

miRNA for PDXDC1 Gene

miRTarBase miRNAs that target PDXDC1

No data available for Molecular function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for PDXDC1 Gene

Localization for PDXDC1 Gene

Subcellular locations from

Jensen Localization Image for PDXDC1 Gene COMPARTMENTS Subcellular localization image for PDXDC1 gene
Compartment Confidence
golgi apparatus 5
cytosol 2
nucleus 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for PDXDC1 Gene

Pathways & Interactions for PDXDC1 Gene

SuperPathways for PDXDC1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for PDXDC1 Gene


No data available for Pathways by source and SIGNOR curated interactions for PDXDC1 Gene

Drugs & Compounds for PDXDC1 Gene

(1) Drugs for PDXDC1 Gene - From: DrugBank and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Pyridoxal Phosphate Nutra Target, cofactor 14
genes like me logo Genes that share compounds with PDXDC1: view

Transcripts for PDXDC1 Gene

Unigene Clusters for PDXDC1 Gene

Pyridoxal-dependent decarboxylase domain containing 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PDXDC1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14 ^ 15a · 15b ^ 16 ^ 17a · 17b
SP2: - -

Relevant External Links for PDXDC1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PDXDC1 Gene

mRNA expression in normal human tissues for PDXDC1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for PDXDC1 Gene

This gene is overexpressed in Bone (26.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for PDXDC1 Gene

SOURCE GeneReport for Unigene cluster for PDXDC1 Gene Hs.370781

genes like me logo Genes that share expression patterns with PDXDC1: view

Protein tissue co-expression partners for PDXDC1 Gene

- Elite partner

Primer Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for PDXDC1 Gene

Orthologs for PDXDC1 Gene

This gene was present in the common ancestor of animals.

Orthologs for PDXDC1 Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia PDXDC1 35
  • 86.3 (n)
  • 89.06 (a)
  • 88 (a)
(Canis familiaris)
Mammalia PDXDC1 35
  • 87.35 (n)
  • 90.99 (a)
  • 91 (a)
(Mus musculus)
Mammalia Pdxdc1 35
  • 85.56 (n)
  • 88.56 (a)
Pdxdc1 16
Pdxdc1 36
  • 90 (a)
(Pan troglodytes)
Mammalia PDXDC1 35
  • 98.97 (n)
  • 98.45 (a)
  • 98 (a)
(Rattus norvegicus)
Mammalia Pdxdc1 35
  • 84.84 (n)
  • 87.24 (a)
(Monodelphis domestica)
Mammalia PDXDC1 36
  • 68 (a)
(Ornithorhynchus anatinus)
Mammalia PDXDC1 36
  • 70 (a)
(Gallus gallus)
Aves PDXDC1 35
  • 71.1 (n)
  • 71.71 (a)
  • 69 (a)
(Anolis carolinensis)
Reptilia PDXDC1 36
  • 68 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia pdxdc1 35
  • 67.5 (n)
  • 69.71 (a)
(Danio rerio)
Actinopterygii pdxdc1 35
  • 64.68 (n)
  • 65.06 (a)
pdxdc1 36
  • 60 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000861 35
  • 43.98 (n)
  • 33.95 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG1486 35
  • 43.96 (n)
  • 34.06 (a)
CG1486 36
  • 25 (a)
(Caenorhabditis elegans)
Secernentea C14H10.3 35
  • 44.01 (n)
  • 27.91 (a)
C14H10.3 36
  • 23 (a)
Species with no ortholog for PDXDC1:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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)
  • 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)

Evolution for PDXDC1 Gene

Gene Tree for PDXDC1 (if available)
Gene Tree for PDXDC1 (if available)

Paralogs for PDXDC1 Gene

genes like me logo Genes that share paralogs with PDXDC1: view

No data available for Paralogs for PDXDC1 Gene

Variants for PDXDC1 Gene

Sequence variations from dbSNP and Humsavar for PDXDC1 Gene

SNP ID Clin Chr 16 pos Sequence Context AA Info Type
rs4985162 - 15,017,361(-) GCCAC(A/C/G/T)GGCCA reference, missense
rs4074872 -- 15,023,442(+) TTTGA(A/G)TGTAT intron-variant
rs8062077 -- 14,999,449(+) cacac(C/T)tgtag intron-variant
rs4262938 -- 15,016,220(-) CCGCC(A/G)GCTTA intron-variant
rs4354925 -- 14,976,374(-) AACTC(C/T)CCAGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PDXDC1 Gene

Variant ID Type Subtype PubMed ID
dgv811e1 CNV Complex 17122850
nsv905356 CNV Gain 21882294
dgv812e1 CNV Complex 17122850
nsv511045 OTHER Complex 20534489
nsv7277 OTHER Inversion 18451855
dgv813e1 CNV Complex 17122850
esv32598 CNV Gain 17666407
dgv2604n71 CNV Gain 21882294
nsv905361 CNV Gain 21882294
nsv905362 CNV Loss 21882294
dgv814e1 CNV Complex 17122850
essv12354 CNV CNV 17122850
nsv442710 CNV CNV 18776908
dgv2n1 OTHER Inversion 15895083
dgv2605n71 CNV Gain 21882294
nsv819280 CNV Loss 19587683
nsv499138 OTHER Inversion 21111241
nsv905369 CNV Loss 21882294
esv2631582 CNV Gain 19546169
nsv905370 CNV Gain 21882294
dgv2606n71 CNV Loss 21882294
dgv2607n71 CNV Gain 21882294
nsv905374 CNV Gain 21882294
nsv9357 CNV Loss 18304495
dgv462n67 CNV Gain 20364138
nsv821043 CNV Duplication 20802225
esv1004883 CNV Gain 20482838
esv29939 CNV Gain 18421352
esv23670 CNV Loss 19812545
dgv11n31 CNV Duplication 19718026
nsv482191 CNV Gain 20164927
dgv2608n71 CNV Loss 21882294
nsv514793 CNV Complex 21397061
nsv905377 CNV Gain 21882294
nsv905380 CNV Gain 21882294
nsv514794 CNV Complex 21397061
nsv509598 CNV Insertion 20534489
dgv344n27 CNV Loss 19166990
nsv457426 CNV Gain 19166990

Variation tolerance for PDXDC1 Gene

Residual Variation Intolerance Score: 81.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.02; 68.55% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PDXDC1 Gene

Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PDXDC1 Gene

Disorders for PDXDC1 Gene

Relevant External Links for PDXDC1

Genetic Association Database (GAD)
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for PDXDC1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for PDXDC1 Gene

Publications for PDXDC1 Gene

  1. Human metabolic individuality in biomedical and pharmaceutical research. (PMID: 21886157) Suhre K. … Gieger C. (Nature 2011) 3 48 67
  2. Temporal proteomics of NGF-TrkA signaling identifies an inhibitory role for the E3 ligase Cbl-b in neuroblastoma cell differentiation. (PMID: 25921289) Emdal K.B. … Olsen J.V. (Sci Signal 2015) 3
  3. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  4. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein M.Y. … Mann M. (Cell 2015) 3

Products for PDXDC1 Gene

Sources for PDXDC1 Gene