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Aliases for YDJC Gene

Aliases for YDJC Gene

  • YdjC Homolog (Bacterial) 2 3 5
  • EC 3.5.1.- 4

External Ids for YDJC Gene

Previous GeneCards Identifiers for YDJC Gene

  • GC22M020312
  • GC22M021982
  • GC22M004940

Summaries for YDJC Gene

GeneCards Summary for YDJC Gene

YDJC (YdjC Homolog (Bacterial)) is a Protein Coding gene. GO annotations related to this gene include magnesium ion binding and hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds.

UniProtKB/Swiss-Prot for YDJC Gene

  • Probably catalyzes the deacetylation of acetylated carbohydrates an important step in the degradation of oligosaccharides.

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

Genomics for YDJC Gene

Regulatory Elements for YDJC Gene

Enhancers for YDJC 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
GH22F021599 0.5 VISTA 12.8 +30.8 30779 0.9 SMAD2 ZNF280D GATA2 PBX2 TSC22D4 ZNF175 UBTF ZHX1 CCDC116 YDJC ABHD17AP4 PIR33609 ENSG00000275293
GH22F021580 0.2 Ensembl 12.4 +50.2 50225 0.2 BCOR BRD4 HDGF ZMYM3 RELA CTBP1 POLR2A ADNP HLF NRF1 CCDC116 YDJC SDF2L1 MIR130B MIR301B PPIL2 ENSG00000275293 PIR33609
GH22F021577 0.5 ENCODE 12.4 +52.0 51963 1.2 ZFP64 ZNF138 ZNF680 ZNF654 CEBPB REST ZNF518A ZNF623 ZNF781 IKZF1 CCDC116 IGLV5-52 THAP7 THAP7-AS1 ENSG00000234630 ENSG00000272779 YDJC ABHD17AP4 TUBA3FP ENSG00000273342
GH22F021582 0.4 Ensembl 12.4 +47.4 47425 0.2 ZNF263 ZNF687 NR4A1 CEBPB IRF9 ZFHX2 KLF13 EGR2 CCDC116 YDJC SDF2L1 MIR130B MIR301B PPIL2 ENSG00000275293 PIR33609
GH22F021650 0.2 ENCODE 11.9 -22.0 -22007 2.8 PKNOX1 ARID4B SIN3A DMAP1 ZNF2 YY1 GLIS2 KLF7 FOS KLF13 PPIL2 THAP7 IGLV5-52 THAP7-AS1 CCDC116 YDJC ABHD17AP4 ENSG00000234630 ENSG00000272779 GC22P021882
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around YDJC on UCSC Golden Path with GeneCards custom track

Promoters for YDJC Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001531362 725 1601 HDGF MLX ARID4B SIN3A DMAP1 ZNF2 SLC30A9 ZNF143 ZNF263 SP3

Genomic Location for YDJC Gene

Chromosome:
22
Start:
21,628,089 bp from pter
End:
21,630,325 bp from pter
Size:
2,237 bases
Orientation:
Minus strand

Genomic View for YDJC Gene

Genes around YDJC on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for YDJC Gene

Proteins for YDJC Gene

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

    Protein Symbol:
    A8MPS7-YDJC_HUMAN
    Recommended name:
    Carbohydrate deacetylase
    Protein Accession:
    A8MPS7
    Secondary Accessions:
    • Q2YDT4
    • Q4V9R7

    Protein attributes for YDJC Gene

    Size:
    323 amino acids
    Molecular mass:
    34466 Da
    Cofactor:
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for YDJC Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for YDJC Gene

Post-translational modifications for YDJC Gene

  • Ubiquitination at Lys 92
  • Modification sites at PhosphoSitePlus

Other Protein References for YDJC Gene

No data available for DME Specific Peptides for YDJC Gene

Domains & Families for YDJC Gene

Protein Domains for YDJC Gene

Suggested Antigen Peptide Sequences for YDJC Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

A8MPS7

UniProtKB/Swiss-Prot:

YDJC_HUMAN :
  • Belongs to the YdjC deacetylase family.
Family:
  • Belongs to the YdjC deacetylase family.
genes like me logo Genes that share domains with YDJC: view

No data available for Gene Families for YDJC Gene

Function for YDJC Gene

Molecular function for YDJC Gene

UniProtKB/Swiss-Prot Function:
Probably catalyzes the deacetylation of acetylated carbohydrates an important step in the degradation of oligosaccharides.

Enzyme Numbers (IUBMB) for YDJC Gene

Gene Ontology (GO) - Molecular Function for YDJC Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000287 magnesium ion binding ISS --
GO:0003824 catalytic activity IEA --
GO:0016787 hydrolase activity IEA --
GO:0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with YDJC: view
genes like me logo Genes that share phenotypes with YDJC: view

Animal Models for YDJC Gene

MGI Knock Outs for YDJC:
  • Ydjc tm1.1(KOMP)Vlcg
  • Ydjc tm1(KOMP)Wtsi

Animal Model Products

  • Taconic Biosciences Mouse Models for YDJC

Inhibitory RNA Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for YDJC Gene

Localization for YDJC Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for YDJC Gene COMPARTMENTS Subcellular localization image for YDJC gene
Compartment Confidence
nucleus 3
cytosol 1
extracellular 1
mitochondrion 1
peroxisome 1
plasma membrane 1

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

Pathways & Interactions for YDJC Gene

SuperPathways for YDJC Gene

No Data Available

Interacting Proteins for YDJC Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000292778%0d%0a9606.ENSP00000344818%0d%0a
Selected Interacting proteins: ENSP00000292778 A8MPS7-YDJC_HUMAN for YDJC Gene via STRING IID

Gene Ontology (GO) - Biological Process for YDJC Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005975 carbohydrate metabolic process IEA --
genes like me logo Genes that share ontologies with YDJC: view

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

Transcripts for YDJC Gene

Unigene Clusters for YDJC Gene

YdjC homolog (bacterial):
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c · 4d ^ 5a · 5b · 5c · 5d · 5e · 5f
SP1:
SP2: -
SP3: - - - - -
SP4: - -
SP5: - - - -
SP6:
SP7: - - - -
SP8:
SP9: -
SP10: - - - -
SP11:

Relevant External Links for YDJC Gene

GeneLoc Exon Structure for
YDJC
ECgene alternative splicing isoforms for
YDJC

Expression for YDJC Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for YDJC Gene

This gene is overexpressed in Retina (26.4), Blymphocyte (19.0), CD8 Tcells (7.0), Testis (6.8), and Pancreas (6.7).

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



Protein tissue co-expression partners for YDJC Gene

NURSA nuclear receptor signaling pathways regulating expression of YDJC Gene:

YDJC

SOURCE GeneReport for Unigene cluster for YDJC Gene:

Hs.355952
genes like me logo Genes that share expression patterns with YDJC: view

Primer Products

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

Orthologs for YDJC Gene

This gene was present in the common ancestor of chordates.

Orthologs for YDJC Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia YDJC 34 35
  • 99.69 (n)
mouse
(Mus musculus)
Mammalia Ydjc 34 16 35
  • 84.03 (n)
rat
(Rattus norvegicus)
Mammalia Ydjc 34
  • 83.82 (n)
dog
(Canis familiaris)
Mammalia YDJC 34 35
  • 83.59 (n)
cow
(Bos Taurus)
Mammalia YDJC 35
  • 83 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia YDJC 35
  • 64 (a)
OneToOne
chicken
(Gallus gallus)
Aves YDJC 34 35
  • 58.36 (n)
lizard
(Anolis carolinensis)
Reptilia YDJC 35
  • 50 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ydjc 34
  • 54.05 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.33494 34
zebrafish
(Danio rerio)
Actinopterygii ydjc 34 35
  • 55.82 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 37 (a)
OneToOne
Species where no ortholog for YDJC 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for YDJC Gene

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

Paralogs for YDJC Gene

No data available for Paralogs for YDJC Gene

Variants for YDJC Gene

Sequence variations from dbSNP and Humsavar for YDJC Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs1046843 -- 21,628,143(-) TCACC(A/C)CTGGG nc-transcript-variant, utr-variant-3-prime
rs111386671 -- 21,632,072(+) TGGGC(A/G)ACTGA upstream-variant-2KB
rs112002902 -- 21,628,816(+) GTGGG(A/C)CCAGG intron-variant
rs112356446 -- 21,631,788(+) GGAGA(A/G)GAGGT upstream-variant-2KB
rs11552121 -- 21,629,702(-) TCCGG(C/T)CCGCC nc-transcript-variant, reference, missense

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

Variant ID Type Subtype PubMed ID
nsv1160730 CNV deletion 26073780
nsv516806 CNV loss 19592680
nsv7350 OTHER inversion 18451855

Variation tolerance for YDJC Gene

Gene Damage Index Score: 9.42; 88.58% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for YDJC Gene

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

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

Disorders for YDJC Gene

Relevant External Links for YDJC

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

No disorders were found for YDJC Gene.

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

Publications for YDJC Gene

  1. Meta-analysis of genome-wide association studies in celiac disease and rheumatoid arthritis identifies fourteen non-HLA shared loci. (PMID: 21383967) Zhernakova A. … Plenge R.M. (PLoS Genet. 2011) 3 46 64
  2. Multiple common variants for celiac disease influencing immune gene expression. (PMID: 20190752) Dubois P.C. … van Heel D.A. (Nat. Genet. 2010) 3 46 64
  3. Crystal structure of the YdjC-family protein TTHB029 from Thermus thermophilus HB8: structural relationship with peptidoglycan N-acetylglucosamine deacetylase. (PMID: 18177738) Imagawa T. … Tsuge H. (Biochem. Biophys. Res. Commun. 2008) 2 3 64
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3 64
  5. Genetics of rheumatoid arthritis contributes to biology and drug discovery. (PMID: 24390342) Okada Y. … Plenge R.M. (Nature 2013) 3 64

Products for YDJC Gene

Sources for YDJC Gene

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