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Aliases for PMEL Gene

Aliases for PMEL Gene

  • Premelanosome Protein 2 3 4 5
  • Melanocytes Lineage-Specific Antigen GP100 3 4
  • Melanoma-Associated ME20 Antigen 3 4
  • Silver Locus Protein Homolog 3 4
  • Melanocyte Protein Pmel 17 3 4
  • D12S53E 3 4
  • ME20-M 3 4
  • PMEL17 3 4
  • ME20M 3 4
  • P100 3 4
  • SILV 3 4
  • P1 3 4
  • Melanosomal Matrix Protein17 3
  • Silver (Mouse Homolog) Like 2
  • Melanocyte Protein Mel 17 3
  • Silver, Mouse, Homolog Of 3
  • Melanocyte Protein PMEL 3
  • Silver Homolog (Mouse) 2
  • Gp100 3
  • ME20 3
  • SIL 3
  • SI 3

External Ids for PMEL Gene

Previous HGNC Symbols for PMEL Gene

  • SIL
  • SILV

Previous GeneCards Identifiers for PMEL Gene

  • GC12M056350
  • GC12M056352

Summaries for PMEL Gene

Entrez Gene Summary for PMEL Gene

  • This gene encodes a melanocyte-specific type I transmembrane glycoprotein. The encoded protein is enriched in melanosomes, which are the melanin-producing organelles in melanocytes, and plays an essential role in the structural organization of premelanosomes. This protein is involved in generating internal matrix fibers that define the transition from Stage I to Stage II melanosomes. This protein undergoes a complex pattern of prosttranslational processing and modification that is essential to the proper functioning of the protein. A secreted form of this protein that is released by proteolytic ectodomain shedding may be used as a melanoma-specific serum marker. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Jan 2011]

GeneCards Summary for PMEL Gene

PMEL (Premelanosome Protein) is a Protein Coding gene. Diseases associated with PMEL include Gallbladder Melanoma and Melanotic Neurilemmoma. An important paralog of this gene is GPNMB.

UniProtKB/Swiss-Prot for PMEL Gene

  • Plays a central role in the biogenesis of melanosomes. Involved in the maturation of melanosomes from stage I to II. The transition from stage I melanosomes to stage II melanosomes involves an elongation of the vesicle, and the appearance within of distinct fibrillar structures. Release of the soluble form, ME20-S, could protect tumor cells from antibody mediated immunity.

Gene Wiki entry for PMEL Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PMEL Gene

Genomics for PMEL Gene

Regulatory Elements for PMEL Gene

Enhancers for PMEL 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
GH12G056009 1.2 ENCODE dbSUPER 21.8 -37.4 -37440 3.2 FOXA2 ARID4B TCF12 ZNF766 GATA2 ELK1 SP5 PPARG MIER3 ATF4 RAB5B PMEL RPS26 CDK2 PA2G4 ORMDL2 SARNP IKZF4 LOC105369781
GH12G055965 1.1 ENCODE 22.5 +6.4 6413 3.4 HDGF PKNOX1 CREB3L1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 BAZ2A PMEL RN7SL809P STAT2 ENSG00000258317 RNU6-343P CDK2 RBMS2 ZC3H10 ENSG00000257303
GH12G056028 1.3 Ensembl ENCODE dbSUPER 18.8 -56.1 -56097 1.7 CTCF PKNOX1 SAP130 ARID4B DNMT3B ZBTB40 RAD21 ZNF121 CTBP1 GATA3 RAB5B PMEL IKZF4 SUOX CDK2 PA2G4 ORMDL2 SARNP LOC105369781 LOC105369780
GH12G056040 1.7 FANTOM5 ENCODE dbSUPER 12.7 -68.7 -68683 3.3 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF143 ZNF548 ZNF263 BAZ2A RN7SL809P ENSG00000258199 STAT2 SUOX RAB5B ENSG00000257740 GDF11 RBMS2 PHC1P1
GH12G056045 1.4 Ensembl ENCODE dbSUPER 12.7 -73.2 -73185 2.8 HDGF ATF1 ARID4B ZNF2 GTF3C2 ZNF143 KLF13 ZNF263 REST SMARCA4 PA2G4 RPL41 ZC3H10 BAZ2A PMEL RN7SL809P GDF11 ERBB3 CDK2 IKZF4
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around PMEL on UCSC Golden Path with GeneCards custom track

Promoters for PMEL Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000052464 -683 2001 MLX CREB3L1 AGO1 DMAP1 YY1 SLC30A9 ZNF143 ZNF263 SP3 NFYC

Genomic Location for PMEL Gene

Chromosome:
12
Start:
55,954,105 bp from pter
End:
55,973,317 bp from pter
Size:
19,213 bases
Orientation:
Minus strand

Genomic View for PMEL Gene

Genes around PMEL on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for PMEL Gene

Proteins for PMEL Gene

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

    Protein Symbol:
    P40967-PMEL_HUMAN
    Recommended name:
    Melanocyte protein PMEL
    Protein Accession:
    P40967
    Secondary Accessions:
    • B3KS57
    • B7Z6D7
    • Q12763
    • Q14448
    • Q14817
    • Q16565

    Protein attributes for PMEL Gene

    Size:
    661 amino acids
    Molecular mass:
    70255 Da
    Quaternary structure:
    • Heterooligomer; disulfide-linked heterooligomers of M-alpha and M-beta. Interacts with MLANA. Interacts (via luminal domain) with CD63; this is important for normal sorting of the luminal domain after proteolytic processing.
    SequenceCaution:
    • Sequence=AAA35930.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAA35930.1; Type=Frameshift; Positions=642; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for PMEL Gene

    Alternative splice isoforms for PMEL Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PMEL Gene

Post-translational modifications for PMEL Gene

  • A small amount of P1/P100 (major form) undergoes glycosylation to yield P2/P120 (minor form). P2 is cleaved by a furin-like proprotein convertase (PC) in a pH-dependent manner in a post-Golgi, prelysosomal compartment into two disulfide-linked subunits: a large lumenal subunit, M-alpha/ME20-S, and an integral membrane subunit, M-beta. Despite cleavage, only a small fraction of M-alpha is secreted, whereas most M-alpha and M-beta remain associated with each other intracellularly. M-alpha is further processed to M-alpha N and M-alpha C. M-alpha C further undergoes processing to yield M-alpha C1 and M-alpha C3 (M-alpha C2 in the case of PMEL17-is or PMEL17-ls). Formation of intralumenal fibrils in the melanosomes requires the formation of M-alpha that becomes incorporated into the fibrils. Stage II melanosomes harbor only Golgi-modified Pmel17 fragments that are derived from M-alpha and that bear sialylated O-linked oligosaccharides.
  • N-glycosylated. O-glycosylated; contains sialic acid.
  • Glycosylation at posLast=8181, posLast=106106, Asn111, Asn321, and Asn568
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for PMEL Gene

Domains & Families for PMEL Gene

Protein Domains for PMEL Gene

Suggested Antigen Peptide Sequences for PMEL Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P40967

UniProtKB/Swiss-Prot:

PMEL_HUMAN :
  • The RPT domain is essential for the generation of the fibrillar matrix of melanosomes.
  • Belongs to the PMEL/NMB family.
Domain:
  • The RPT domain is essential for the generation of the fibrillar matrix of melanosomes.
  • The lumenal domain is necessary for correct processing and trafficking to melanosomes.
Family:
  • Belongs to the PMEL/NMB family.
genes like me logo Genes that share domains with PMEL: view

No data available for Gene Families for PMEL Gene

Function for PMEL Gene

Molecular function for PMEL Gene

UniProtKB/Swiss-Prot Function:
Plays a central role in the biogenesis of melanosomes. Involved in the maturation of melanosomes from stage I to II. The transition from stage I melanosomes to stage II melanosomes involves an elongation of the vesicle, and the appearance within of distinct fibrillar structures. Release of the soluble form, ME20-S, could protect tumor cells from antibody mediated immunity.

Gene Ontology (GO) - Molecular Function for PMEL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 15695812
genes like me logo Genes that share ontologies with PMEL: view
genes like me logo Genes that share phenotypes with PMEL: view

Animal Models for PMEL Gene

MGI Knock Outs for PMEL:

Animal Model Products

miRNA for PMEL Gene

miRTarBase miRNAs that target PMEL

Inhibitory RNA Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PMEL Gene

Localization for PMEL Gene

Subcellular locations from UniProtKB/Swiss-Prot for PMEL Gene

Endoplasmic reticulum membrane; Single-pass type I membrane protein. Golgi apparatus. Melanosome. Endosome, multivesicular body. Note=Identified by mass spectrometry in melanosome fractions from stage I to stage IV. Localizes predominantly to intralumenal vesicles (ILVs) within multivesicular bodies. Associates with ILVs found within the lumen of premelanosomes and melanosomes and particularly in compartments that serve as precursors to the striated stage II premelanosomes.
M-alpha: Secreted.

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 PMEL gene
Compartment Confidence
plasma membrane 5
extracellular 5
endoplasmic reticulum 5
golgi apparatus 5
endosome 5
lysosome 2
cytoskeleton 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for PMEL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005768 endosome IEA --
GO:0005771 multivesicular body IEA --
GO:0005783 endoplasmic reticulum IEA --
GO:0005789 endoplasmic reticulum membrane IEA,IDA 15695812
genes like me logo Genes that share ontologies with PMEL: view

Pathways & Interactions for PMEL Gene

No Data Available

Interacting Proteins for PMEL Gene

STRING Interaction Network Preview (showing 2 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000402758%0d%0a9606.ENSP00000378786%0d%0a9606.ENSP00000353099%0d%0a
Selected Interacting proteins: P40967-PMEL_HUMAN ENSP00000402758 for PMEL Gene via IID STRING

Gene Ontology (GO) - Biological Process for PMEL Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0032438 melanosome organization IDA 11694580
GO:0042438 melanin biosynthetic process IEA --
GO:0048066 developmental pigmentation IBA --
genes like me logo Genes that share ontologies with PMEL: view

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

Drugs & Compounds for PMEL Gene

(3) Additional Compounds for PMEL Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with PMEL: view

Transcripts for PMEL Gene

Unigene Clusters for PMEL Gene

Premelanosome protein:
Representative Sequences:

Inhibitory RNA Products

Clone Products

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

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b ^ 6a · 6b · 6c · 6d ^ 7a · 7b · 7c ^ 8a · 8b ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12a · 12b · 12c ^ 13a ·
SP1: - - - -
SP2: - - -
SP3: - - -
SP4: -
SP5: - - - - - - - - - - - - - - - -
SP6: - - - - - -
SP7: -
SP8: - - -
SP9: - - - - -
SP10: - - - - - - -
SP11: - - -
SP12: -
SP13: -
SP14: - - - - -
SP15: - - - -
SP16:
SP17:

ExUns: 13b ^ 14 ^ 15a · 15b · 15c ^ 16
SP1: -
SP2: -
SP3:
SP4: -
SP5: -
SP6:
SP7:
SP8:
SP9:
SP10:
SP11:
SP12:
SP13:
SP14:
SP15:
SP16:
SP17:

Relevant External Links for PMEL Gene

GeneLoc Exon Structure for
PMEL
ECgene alternative splicing isoforms for
PMEL

Expression for PMEL Gene

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

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

This gene is overexpressed in Cervix - Ectocervix (x22.0), Skin - Not Sun Exposed (Suprapubic) (x9.2), and Skin - Sun Exposed (Lower leg) (x6.6).

Protein differential expression in normal tissues from HIPED for PMEL Gene

This gene is overexpressed in Hair follicle (69.0).

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



Protein tissue co-expression partners for PMEL Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PMEL Gene:

PMEL

SOURCE GeneReport for Unigene cluster for PMEL Gene:

Hs.95972

mRNA Expression by UniProt/SwissProt for PMEL Gene:

P40967-PMEL_HUMAN
Tissue specificity: Preferentially expressed in melanomas. Some expression was found in dysplastic nevi. Not found in normal tissues nor in carcinomas. Normally expressed at low levels in quiescent adult melanocytes but overexpressed by proliferating neonatal melanocytes and during tumor growth.

Evidence on tissue expression from TISSUES for PMEL Gene

  • Skin(5)
  • Spleen(4.5)
  • Eye(4)
  • Lymph node(2.8)
  • Blood(2.5)
  • Nervous system(2.5)
genes like me logo Genes that share expression patterns with PMEL: view

Primer Products

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for PMEL Gene

Orthologs for PMEL Gene

This gene was present in the common ancestor of chordates.

Orthologs for PMEL Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia PMEL 34 35
  • 99.55 (n)
dog
(Canis familiaris)
Mammalia PMEL 34
  • 86.04 (n)
PMEL17 35
  • 73 (a)
OneToOne
cow
(Bos Taurus)
Mammalia PMEL 34
  • 85.68 (n)
PMEL17 35
  • 80 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pmel 34 16 35
  • 83.81 (n)
rat
(Rattus norvegicus)
Mammalia Pmel 34
  • 83.69 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia PMEL 35
  • 53 (a)
OneToOne
chicken
(Gallus gallus)
Aves PMEL 34 35
  • 54.76 (n)
lizard
(Anolis carolinensis)
Reptilia PMEL 35
  • 35 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pmel 34
  • 53.75 (n)
zebrafish
(Danio rerio)
Actinopterygii pmela 34 35
  • 52.91 (n)
pmelb 35
  • 32 (a)
OneToMany
Species where no ortholog for PMEL 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)
  • 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)
  • oppossum (Monodelphis domestica)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for PMEL Gene

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

Paralogs for PMEL Gene

Paralogs for PMEL Gene

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

Variants for PMEL Gene

Sequence variations from dbSNP and Humsavar for PMEL Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1000242782 -- 55,954,069(+) AATGA(C/T)GTAGA downstream-variant-500B
rs1000476732 -- 55,964,729(+) CAAGC(A/G)ATTCT intron-variant
rs1000506207 -- 55,967,895(+) AGAGA(C/T)CTCTC intron-variant, upstream-variant-2KB, reference, missense
rs1000861877 -- 55,959,003(+) TTGAA(C/T)TCCTG intron-variant
rs1000922339 -- 55,958,296(+) AGAAA(G/T)AATTA intron-variant

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

Variant ID Type Subtype PubMed ID
nsv1051961 CNV gain 25217958
nsv819836 CNV loss 19587683
nsv832424 CNV loss 17160897

Variation tolerance for PMEL Gene

Residual Variation Intolerance Score: 51.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.85; 67.28% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PMEL Gene

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

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

Disorders for PMEL Gene

MalaCards: The human disease database

(16) MalaCards diseases for PMEL Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
gallbladder melanoma
  • malignant melanoma of gallbladder
melanotic neurilemmoma
  • melanotic schwannoma
vitiligo-associated multiple autoimmune disease susceptibility 1
  • vitiligo
diffuse meningeal melanocytosis
  • diffuse melanocytosis
halo nevi
  • leukoderma acquisitum centrifugum of sutton
- elite association - COSMIC cancer census association via MalaCards
Search PMEL in MalaCards View complete list of genes associated with diseases

Relevant External Links for PMEL

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

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

Publications for PMEL Gene

  1. Premelanosome amyloid-like fibrils are composed of only Golgi- processed forms of Pmel17 that have been proteolytically processed in endosomes. (PMID: 17991747) Harper D.C. … Marks M.S. (J. Biol. Chem. 2008) 3 4 22 64
  2. MART-1 is required for the function of the melanosomal matrix protein PMEL17/GP100 and the maturation of melanosomes. (PMID: 15695812) Hoashi T. … Hearing V.J. (J. Biol. Chem. 2005) 3 4 22 64
  3. Epitope mapping of the melanosomal matrix protein gp100 (PMEL17): rapid processing in the endoplasmic reticulum and glycosylation in the early Golgi compartment. (PMID: 15096515) Yasumoto K.-I. … Hearing V.J. (J. Biol. Chem. 2004) 3 4 22 64
  4. Proprotein convertase cleavage liberates a fibrillogenic fragment of a resident glycoprotein to initiate melanosome biogenesis. (PMID: 12732614) Berson J.F. … Marks M.S. (J. Cell Biol. 2003) 3 4 22 64
  5. A novel splice variant of Pmel17 expressed by human melanocytes and melanoma cells lacking some of the internal repeats. (PMID: 14632201) Nichols S.E. … Marks M.S. (J. Invest. Dermatol. 2003) 3 4 22 64

Products for PMEL Gene

Sources for PMEL Gene

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