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Aliases for PYDC1 Gene

Aliases for PYDC1 Gene

  • Pyrin Domain Containing 1 2 3
  • PYD (Pyrin Domain) Containing 1 2 3 5
  • Pyrin-Only Protein 1 3 4
  • PAAD-Only Protein 1 3 4
  • Cellular POP1 3 4
  • CPOP1 3 4
  • POP1 3 4
  • ASC2 3 4
  • PYC1 3 4
  • ASCI 4

External Ids for PYDC1 Gene

Previous GeneCards Identifiers for PYDC1 Gene

  • GC16M031135
  • GC16M028788

Summaries for PYDC1 Gene

GeneCards Summary for PYDC1 Gene

PYDC1 (Pyrin Domain Containing 1) is a Protein Coding gene. Diseases associated with PYDC1 include Black Piedra and Listeriosis. Among its related pathways are Nucleotide-binding domain, leucine rich repeat containing receptor (NLR) signaling pathways. An important paralog of this gene is PYCARD.

UniProtKB/Swiss-Prot for PYDC1 Gene

  • Associates with PYCARD/ASC and modulates its ability to collaborate with MEFV/pyrin and NLRP3/cryopyrin in NF-kappa-B and pro-caspase-1 activation. Suppresses kinase activity of NF-kappa-B inhibitor kinase (IKK) complex, expression of NF-kappa-B inducible genes and inhibits NF-kappa-B activation by cytokines and LPS.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PYDC1 Gene

Genomics for PYDC1 Gene

Regulatory Elements for PYDC1 Gene

Enhancers for PYDC1 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 PYDC1 on UCSC Golden Path with GeneCards custom track

Promoters for PYDC1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around PYDC1 on UCSC Golden Path with GeneCards custom track

Genomic Location for PYDC1 Gene

Chromosome:
16
Start:
31,215,962 bp from pter
End:
31,217,359 bp from pter
Size:
1,398 bases
Orientation:
Minus strand

Genomic View for PYDC1 Gene

Genes around PYDC1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PYDC1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PYDC1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PYDC1 Gene

Proteins for PYDC1 Gene

  • Protein details for PYDC1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8WXC3-PYDC1_HUMAN
    Recommended name:
    Pyrin domain-containing protein 1
    Protein Accession:
    Q8WXC3
    Secondary Accessions:
    • B2R8L4
    • Q8NFP8

    Protein attributes for PYDC1 Gene

    Size:
    89 amino acids
    Molecular mass:
    10107 Da
    Quaternary structure:
    • Interacts with PYCARD/ASC (via pyrin domain).

    Three dimensional structures from OCA and Proteopedia for PYDC1 Gene

neXtProt entry for PYDC1 Gene

Proteomics data for PYDC1 Gene at MOPED

Post-translational modifications for PYDC1 Gene

Other Protein References for PYDC1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PYDC1 Gene

Domains & Families for PYDC1 Gene

Gene Families for PYDC1 Gene

Protein Domains for PYDC1 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for PYDC1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8WXC3

UniProtKB/Swiss-Prot:

PYDC1_HUMAN :
  • Contains 1 pyrin domain.
Domain:
  • Contains 1 pyrin domain.
genes like me logo Genes that share domains with PYDC1: view

Function for PYDC1 Gene

Molecular function for PYDC1 Gene

UniProtKB/Swiss-Prot Function:
Associates with PYCARD/ASC and modulates its ability to collaborate with MEFV/pyrin and NLRP3/cryopyrin in NF-kappa-B and pro-caspase-1 activation. Suppresses kinase activity of NF-kappa-B inhibitor kinase (IKK) complex, expression of NF-kappa-B inducible genes and inhibits NF-kappa-B activation by cytokines and LPS.

Phenotypes for PYDC1 Gene

GenomeRNAi human phenotypes for PYDC1:
genes like me logo Genes that share phenotypes with PYDC1: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for PYDC1 Gene

Localization for PYDC1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PYDC1 Gene

Cytoplasm. Note=Recruited to specks formed by PYCARD within the cytoplasm. {ECO:0000269 PubMed:17178784}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PYDC1 Gene COMPARTMENTS Subcellular localization image for PYDC1 gene
Compartment Confidence
cytosol 5
nucleus 5
cytoskeleton 2
mitochondrion 2
extracellular 1

No data available for Gene Ontology (GO) - Cellular Components for PYDC1 Gene

Pathways & Interactions for PYDC1 Gene

genes like me logo Genes that share pathways with PYDC1: view

Pathways by source for PYDC1 Gene

1 KEGG pathway for PYDC1 Gene

Gene Ontology (GO) - Biological Process for PYDC1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002588 positive regulation of antigen processing and presentation of peptide antigen via MHC class II IEA --
GO:0006469 negative regulation of protein kinase activity IDA 12656673
GO:0006919 activation of cysteine-type endopeptidase activity involved in apoptotic process IEA --
GO:0006954 inflammatory response IEA --
GO:0009617 response to bacterium IEA --
genes like me logo Genes that share ontologies with PYDC1: view

No data available for SIGNOR curated interactions for PYDC1 Gene

Drugs & Compounds for PYDC1 Gene

No Compound Related Data Available

Transcripts for PYDC1 Gene

mRNA/cDNA for PYDC1 Gene

(1) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(11) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for PYDC1 Gene

PYD (pyrin domain) containing 1:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for PYDC1 Gene

No ASD Table

Relevant External Links for PYDC1 Gene

GeneLoc Exon Structure for
PYDC1
ECgene alternative splicing isoforms for
PYDC1

Expression for PYDC1 Gene

mRNA expression in normal human tissues for PYDC1 Gene

mRNA differential expression in normal tissues according to GTEx for PYDC1 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x7.5), Brain - Cerebellar Hemisphere (x7.3), Brain - Cerebellum (x6.4), Skin - Not Sun Exposed (Suprapubic) (x5.9), Brain - Amygdala (x5.6), and Brain - Nucleus accumbens (basal ganglia) (x5.3).

Protein differential expression in normal tissues from HIPED for PYDC1 Gene

This gene is overexpressed in Breast (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PYDC1 Gene



SOURCE GeneReport for Unigene cluster for PYDC1 Gene Hs.58314

mRNA Expression by UniProt/SwissProt for PYDC1 Gene

Q8WXC3-PYDC1_HUMAN
Tissue specificity: Predominantly expressed in monocytes, macrophages and granulocytes.
genes like me logo Genes that share expression patterns with PYDC1: view

Protein tissue co-expression partners for PYDC1 Gene

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery for PYDC1 Gene

Orthologs for PYDC1 Gene

This gene was present in the common ancestor of chordates.

Orthologs for PYDC1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PYDC1 35
  • 98.88 (n)
  • 100 (a)
PYDC1 36
  • 100 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 23 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 25 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 17 (a)
OneToMany
zebrafish
(Danio rerio)
Actinopterygii pycard 36
  • 12 (a)
OneToMany
Species with no ortholog for PYDC1:
  • 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • dog (Canis familiaris)
  • 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)
  • mouse (Mus musculus)
  • 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 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for PYDC1 Gene

ENSEMBL:
Gene Tree for PYDC1 (if available)
TreeFam:
Gene Tree for PYDC1 (if available)

Paralogs for PYDC1 Gene

Paralogs for PYDC1 Gene

(3) SIMAP similar genes for PYDC1 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with PYDC1: view

Variants for PYDC1 Gene

Structural Variations from Database of Genomic Variants (DGV) for PYDC1 Gene

Variant ID Type Subtype PubMed ID
nsv905729 CNV Loss 21882294
dgv2670n71 CNV Loss 21882294
dgv2672n71 CNV Loss 21882294
nsv905744 CNV Loss 21882294
nsv905745 CNV Loss 21882294
nsv905746 CNV Loss 21882294

Variation tolerance for PYDC1 Gene

Residual Variation Intolerance Score: 46.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.23; 5.14% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Sequence variations from dbSNP and Humsavar and Relevant External Links for PYDC1 Gene

Disorders for PYDC1 Gene

MalaCards: The human disease database

(3) MalaCards diseases for PYDC1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
black piedra
listeriosis
  • infection by listeria monocytogenes
peptic ulcer perforation
  • acute peptic ulcer with perforation
- elite association - COSMIC cancer census association via MalaCards
Search PYDC1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for PYDC1

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PYDC1
genes like me logo Genes that share disorders with PYDC1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PYDC1 Gene

Publications for PYDC1 Gene

  1. Structure and dynamics of ASC2, a pyrin domain-only protein that regulates inflammatory signaling. (PMID: 16905547) Natarajan A. … Hill J.M. (J. Biol. Chem. 2006) 2 3 4 67
  2. [Influence of M680I and M694V mutations on pyrin's domain B30.2 tertiary structure and it's complex formation ability with caspase-1]. (PMID: 26510601) Arakelov G.G. … Nazaryan K.B. (Mol. Biol. (Mosk.) 2015) 3
  3. The CLRX.1/NOD24 (NLRP2P) pseudogene codes a functional negative regulator of NF-I_B, pyrin-only protein 4. (PMID: 24871464) Porter K.A. … Harton J.A. (Genes Immun. 2014) 3
  4. Crystallization and preliminary X-ray crystallographic studies of cPOP1. (PMID: 23519807) Do K.H. … Park H.H. (Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 2013) 3
  5. Identification and characterization of a novel human PP1 phosphatase complex. (PMID: 20516061) Lee J.H. … Skalnik D.G. (J. Biol. Chem. 2010) 3

Products for PYDC1 Gene

Sources for PYDC1 Gene

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