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VCPKMT Gene(Protein Coding)

Valosin Containing Protein Lysine Methyltransferase

GCID:
GC14M050106
GIFtS:
39
Genes Participants
UDN Logo

Aliases for VCPKMT Gene

Aliases for VCPKMT Gene

  • Valosin Containing Protein Lysine Methyltransferase 2 3
  • Valosin Containing Protein Lysine (K) Methyltransferase 2 3 5
  • Valosin-Containing Protein Lysine Methyltransferase 3 4
  • Methyltransferase-Like Protein 21D 3 4
  • VCP Lysine Methyltransferase 3 4
  • Methyltransferase Like 21D 2 3
  • C14orf138 3 4
  • METTL21D 3 4
  • VCP-KMT 3 4
  • Chromosome 14 Open Reading Frame 138 2
  • EC 2.1.1.- 4

External Ids for VCPKMT Gene

Previous HGNC Symbols for VCPKMT Gene

  • C14orf138
  • METTL21D

Previous GeneCards Identifiers for VCPKMT Gene

  • GC14M050577

Summaries for VCPKMT Gene

GeneCards Summary for VCPKMT Gene

VCPKMT (Valosin Containing Protein Lysine Methyltransferase) is a Protein Coding gene. GO annotations related to this gene include protein-lysine N-methyltransferase activity. An important paralog of this gene is METTL21C.

UniProtKB/Swiss-Prot for VCPKMT Gene

  • Protein-lysine N-methyltransferase that specifically trimethylates Lys-315 of VCP/p97; this modification may decrease VCP ATPase activity.

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

Genomics for VCPKMT Gene

Products:

  1. Regulatory Element

Regulatory Elements for VCPKMT Gene

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

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

ENSRs around VCPKMT on UCSC Golden Path with GeneCards custom track

Genomic Location for VCPKMT Gene

Chromosome:
14
Start:
50,108,632 bp from pter
End:
50,116,600 bp from pter
Size:
7,969 bases
Orientation:
Minus strand

Genomic View for VCPKMT Gene

Genes around VCPKMT on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for VCPKMT Gene

Proteins for VCPKMT Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

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

    Protein Symbol:
    Q9H867-MT21D_HUMAN
    Recommended name:
    Protein-lysine methyltransferase METTL21D
    Protein Accession:
    Q9H867
    Secondary Accessions:
    • B7ZLA3
    • B7ZLA4
    • Q2M2X3
    • Q86T12

    Protein attributes for VCPKMT Gene

    Size:
    229 amino acids
    Molecular mass:
    25807 Da
    Quaternary structure:
    • Interacts with ALKBH6. Interacts with ASPSCR1 and UBXN6; interaction with ASPSCR1, but not with UBXN6, enhances VCP methylation.
    SequenceCaution:
    • Sequence=CAD62329.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for VCPKMT Gene

    Alternative splice isoforms for VCPKMT Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VCPKMT Gene

Proteomics data for VCPKMT Gene at MOPED

Protein Expression for VCPKMT Gene

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

Post-translational modifications for VCPKMT Gene

  • Ubiquitination at Lys 122
  • Modification sites at PhosphoSitePlus

Other Protein References for VCPKMT Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for VCPKMT Gene

Domains & Families for VCPKMT Gene

Gene Families for VCPKMT Gene

HGNC:

Protein Domains for VCPKMT Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for VCPKMT Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9H867

UniProtKB/Swiss-Prot:

MT21D_HUMAN :
  • Belongs to the methyltransferase superfamily. METTL21 family.
Family:
  • Belongs to the methyltransferase superfamily. METTL21 family.
genes like me logo Genes that share domains with VCPKMT: view

Function for VCPKMT Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line
  7. Flow Cytometry

Molecular function for VCPKMT Gene

UniProtKB/Swiss-Prot Function:
Protein-lysine N-methyltransferase that specifically trimethylates Lys-315 of VCP/p97; this modification may decrease VCP ATPase activity.

Enzyme Numbers (IUBMB) for VCPKMT Gene

Phenotypes for VCPKMT Gene

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

Animal Model Products

miRNA for VCPKMT Gene

miRTarBase miRNAs that target VCPKMT

Inhibitory RNA Products

Flow Cytometry Products

No data available for Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for VCPKMT Gene

Localization for VCPKMT Gene

Subcellular locations from UniProtKB/Swiss-Prot for VCPKMT Gene

Cytoplasm.

No data available for Subcellular locations from COMPARTMENTS and Gene Ontology (GO) - Cellular Components for VCPKMT Gene

Pathways & Interactions for VCPKMT Gene

SuperPathways for VCPKMT Gene

PathCards logoMore details on SuperPathways for VCPKMT
No Data Available

Interacting Proteins for VCPKMT Gene

STRING Interaction Network Preview (showing 5 interactants - click image to see 14)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000379201%0d%0a9606.ENSP00000302176%0d%0a9606.ENSP00000451560%0d%0a9606.ENSP00000304697%0d%0a9606.ENSP00000385481%0d%0a9606.ENSP00000336927%0d%0a
Selected Interacting proteins: ENSP00000379201 for VCPKMT Gene via STRING

SIGNOR curated interactions for VCPKMT Gene

Is activated by:

Gene Ontology (GO) - Biological Process for VCPKMT Gene

None

No data available for Pathways by source for VCPKMT Gene

Drugs & Compounds for VCPKMT Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for VCPKMT Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone
  5. Flow Cytometry

mRNA/cDNA for VCPKMT Gene

(5) REFSEQ mRNAs :
(289) Selected AceView cDNA sequences:
(5) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Inhibitory RNA Products

Flow Cytometry Products

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

ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c · 9d
SP1: - - - - - -
SP2: - - - - -
SP3: - - - - -
SP4: - - - - - -
SP5: - - - -
SP6: - -
SP7: -
SP8:

Relevant External Links for VCPKMT Gene

GeneLoc Exon Structure for
VCPKMT
ECgene alternative splicing isoforms for
VCPKMT

Expression for VCPKMT Gene

Products:

  1. Primer

mRNA expression in normal human tissues for VCPKMT Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for VCPKMT Gene

This gene is overexpressed in Oral epithelium (44.3), Lymph node (15.3), and Fetal ovary (8.3).

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



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

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for VCPKMT Gene

Orthologs for VCPKMT Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VCPKMT Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
 Mammalia METTL21D 35
  • 91.8 (n)
  • 94.26 (a)
VCPKMT 36
  • 94 (a)
 OneToOne
dog
(Canis familiaris)
 Mammalia METTL21D 35
  • 91.85 (n)
  • 94.32 (a)
VCPKMT 36
  • 95 (a)
 OneToOne
mouse
(Mus musculus)
 Mammalia Vcpkmt 35
  • 87.43 (n)
  • 89.91 (a)
Vcpkmt 16
Mettl21d 36
  • 90 (a)
 OneToOne
chimpanzee
(Pan troglodytes)
 Mammalia METTL21D 35
  • 100 (n)
  • 100 (a)
VCPKMT 36
  • 100 (a)
 OneToOne
rat
(Rattus norvegicus)
 Mammalia LOC102548559 35
  • 86.55 (n)
  • 87.28 (a)
oppossum
(Monodelphis domestica)
 Mammalia VCPKMT 36
  • 65 (a)
 OneToOne
platypus
(Ornithorhynchus anatinus)
 Mammalia VCPKMT 36
  • 78 (a)
 OneToOne
chicken
(Gallus gallus)
 Aves METTL21D 35
  • 66.67 (n)
  • 67.44 (a)
VCPKMT 36
  • 64 (a)
 OneToOne
lizard
(Anolis carolinensis)
 Reptilia VCPKMT 36
  • 76 (a)
 OneToOne
tropical clawed frog
(Silurana tropicalis)
 Amphibia Str.15857 35
vcpkmt 35
  • 66.98 (n)
  • 66.05 (a)
zebrafish
(Danio rerio)
 Actinopterygii vcpkmt 35
  • 61.05 (n)
  • 61.8 (a)
vcpkmt 36
  • 61 (a)
 OneToOne
worm
(Caenorhabditis elegans)
 Secernentea C42C1.13 35
  • 47.37 (n)
  • 36.84 (a)
C42C1.13 36
  • 32 (a)
 OneToMany
baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes -- 36
  • 28 (a)
 OneToMany
thale cress
(Arabidopsis thaliana)
 eudicotyledons AT1G73320 35
  • 48.82 (n)
  • 38.8 (a)
rice
(Oryza sativa)
 Liliopsida Os06g0101100 35
  • 47.62 (n)
  • 36.51 (a)
Species with no ortholog for VCPKMT:
  • 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)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • 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)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VCPKMT Gene

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

Paralogs for VCPKMT Gene

Paralogs for VCPKMT Gene

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

Pseudogenes.org Pseudogenes for VCPKMT Gene

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

Variants for VCPKMT Gene

Sequence variations from dbSNP and Humsavar for VCPKMT Gene

SNP ID Clin Chr 14 pos Sequence Context AA Info Type
rs11157729 - 50,116,365(+) CGTGG(A/G/T)CCCCG nc-transcript-variant, reference, missense
rs10844 -- 50,109,090(-) TACAT(A/G)TCTAT nc-transcript-variant, utr-variant-3-prime
rs13950 -- 50,109,103(+) GTGGA(A/G)GAAAA nc-transcript-variant, utr-variant-3-prime
rs1474884 -- 50,116,203(+) TGAGG(C/T)GTAGG intron-variant, nc-transcript-variant
rs2883739 -- 50,113,417(+) TCCTT(C/T)CAGCA intron-variant, nc-transcript-variant, utr-variant-3-prime

Variation tolerance for VCPKMT Gene

Residual Variation Intolerance Score: 55% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 8.13; 84.61% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot , Structural Variations from Database of Genomic Variants (DGV) and Relevant External Links for VCPKMT Gene

Disorders for VCPKMT Gene

Relevant External Links for VCPKMT

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VCPKMT

No disorders were found for VCPKMT Gene.

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

Publications for VCPKMT Gene

  1. Lysine methylation of VCP by a member of a novel human protein methyltransferase family. (PMID: 22948820) Kernstock S. … Falnes P.O. (Nat. Commun. 2012) 2 3 4 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. A newly uncovered group of distantly related lysine methyltransferases preferentially interact with molecular chaperones to regulate their activity. (PMID: 23349634) Cloutier P. … Coulombe B. (PLoS Genet. 2013) 3
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3

Products for VCPKMT Gene

Sources for VCPKMT Gene

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