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Aliases for LIN54 Gene

Aliases for LIN54 Gene

  • Lin-54 DREAM MuvB Core Complex Component 2 3 5
  • CXC Domain-Containing Protein 1 3 4
  • CXCDC1 3 4
  • Lin-54 Homolog (C. Elegans) 2
  • CXC Domain Containing 1 2
  • Lin-54 Homolog 3
  • KIAA2037 4
  • MIP120 3
  • JC8.6 3
  • TCX1 3

External Ids for LIN54 Gene

Previous GeneCards Identifiers for LIN54 Gene

  • GC04M084066
  • GC04M083845
  • GC04M079586

Summaries for LIN54 Gene

Entrez Gene Summary for LIN54 Gene

  • LIN54 is a component of the LIN, or DREAM, complex, an essential regulator of cell cycle genes (Schmit et al., 2009 [PubMed 19725879]).[supplied by OMIM, Dec 2010]

GeneCards Summary for LIN54 Gene

LIN54 (Lin-54 DREAM MuvB Core Complex Component) is a Protein Coding gene. Among its related pathways are Cell Cycle, Mitotic and Regulation of PLK1 Activity at G2/M Transition. An important paralog of this gene is TESMIN.

UniProtKB/Swiss-Prot for LIN54 Gene

  • Component of the DREAM complex, a multiprotein complex that can both act as a transcription activator or repressor depending on the context. In G0 phase, the complex binds to more than 800 promoters and is required for repression of E2F target genes. In S phase, the complex selectively binds to the promoters of G2/M genes whose products are required for mitosis and participates in their cell cycle dependent activation. In the complex, acts as a DNA-binding protein that binds the promoter of CDK1 in a sequence-specific manner.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LIN54 Gene

Genomics for LIN54 Gene

Regulatory Elements for LIN54 Gene

Promoters for LIN54 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around LIN54 on UCSC Golden Path with GeneCards custom track

Genomic Location for LIN54 Gene

Chromosome:
4
Start:
82,909,973 bp from pter
End:
83,012,941 bp from pter
Size:
102,969 bases
Orientation:
Minus strand

Genomic View for LIN54 Gene

Genes around LIN54 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LIN54 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LIN54 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LIN54 Gene

Proteins for LIN54 Gene

  • Protein details for LIN54 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6MZP7-LIN54_HUMAN
    Recommended name:
    Protein lin-54 homolog
    Protein Accession:
    Q6MZP7
    Secondary Accessions:
    • Q32M68
    • Q32M69
    • Q6N071
    • Q76B60

    Protein attributes for LIN54 Gene

    Size:
    749 amino acids
    Molecular mass:
    79494 Da
    Quaternary structure:
    • Component of the DREAM complex (also named LINC complex) at least composed of E2F4, E2F5, LIN9, LIN37, LIN52, LIN54, MYBL1, MYBL2, RBL1, RBL2, RBBP4, TFDP1 and TFDP2. The complex exists in quiescent cells where it represses cell cycle-dependent genes. It dissociates in S phase when LIN9, LIN37, LIN52 and LIN54 form a subcomplex that binds to MYBL2.
    SequenceCaution:
    • Sequence=BAC98377.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for LIN54 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LIN54 Gene

Proteomics data for LIN54 Gene at MOPED

Post-translational modifications for LIN54 Gene

  • Ubiquitination at Lys 357
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for LIN54 Gene

Domains & Families for LIN54 Gene

Protein Domains for LIN54 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LIN54 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q6MZP7

UniProtKB/Swiss-Prot:

LIN54_HUMAN :
  • The CXC domains mediate DNA-binding.
  • Belongs to the lin-54 family.
Domain:
  • The CXC domains mediate DNA-binding.
  • Contains 1 CRC domain.
Family:
  • Belongs to the lin-54 family.
genes like me logo Genes that share domains with LIN54: view

No data available for Gene Families for LIN54 Gene

Function for LIN54 Gene

Molecular function for LIN54 Gene

UniProtKB/Swiss-Prot Function:
Component of the DREAM complex, a multiprotein complex that can both act as a transcription activator or repressor depending on the context. In G0 phase, the complex binds to more than 800 promoters and is required for repression of E2F target genes. In S phase, the complex selectively binds to the promoters of G2/M genes whose products are required for mitosis and participates in their cell cycle dependent activation. In the complex, acts as a DNA-binding protein that binds the promoter of CDK1 in a sequence-specific manner.
genes like me logo Genes that share phenotypes with LIN54: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LIN54 Gene

Localization for LIN54 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LIN54 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for LIN54 Gene COMPARTMENTS Subcellular localization image for LIN54 gene
Compartment Confidence
nucleus 5
cytosol 3
peroxisome 1

No data available for Gene Ontology (GO) - Cellular Components for LIN54 Gene

Pathways & Interactions for LIN54 Gene

genes like me logo Genes that share pathways with LIN54: view

Pathways by source for LIN54 Gene

Gene Ontology (GO) - Biological Process for LIN54 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000278 mitotic cell cycle TAS --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with LIN54: view

No data available for SIGNOR curated interactions for LIN54 Gene

Drugs & Compounds for LIN54 Gene

No Compound Related Data Available

Transcripts for LIN54 Gene

Unigene Clusters for LIN54 Gene

Lin-54 homolog (C. elegans):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for LIN54 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b ^ 10a · 10b ^ 11 ^ 12 ^ 13 ^ 14 ^ 15
SP1: - - -
SP2: - - - -
SP3:
SP4:
SP5:
SP6: -

Relevant External Links for LIN54 Gene

GeneLoc Exon Structure for
LIN54
ECgene alternative splicing isoforms for
LIN54

Expression for LIN54 Gene

mRNA expression in normal human tissues for LIN54 Gene

Protein differential expression in normal tissues from HIPED for LIN54 Gene

This gene is overexpressed in Heart (27.2), CD8 Tcells (22.4), and Peripheral blood mononuclear cells (13.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for LIN54 Gene



SOURCE GeneReport for Unigene cluster for LIN54 Gene Hs.96952

genes like me logo Genes that share expression patterns with LIN54: view

Protein tissue co-expression partners for LIN54 Gene

Primer Products

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for LIN54 Gene

Orthologs for LIN54 Gene

This gene was present in the common ancestor of animals.

Orthologs for LIN54 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LIN54 35
  • 99.82 (n)
  • 100 (a)
LIN54 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LIN54 36
  • 98 (a)
OneToOne
LIN54 35
  • 95.19 (n)
  • 98.4 (a)
dog
(Canis familiaris)
Mammalia LIN54 35
  • 96.53 (n)
  • 99.07 (a)
LIN54 36
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lin54 16
Lin54 35
  • 92.52 (n)
  • 96.66 (a)
Lin54 36
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LIN54 36
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 60 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 83 (a)
OneToMany
-- 36
  • 92 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Lin54 35
  • 90.25 (n)
  • 95.59 (a)
chicken
(Gallus gallus)
Aves LIN54 35
  • 81.32 (n)
  • 88.44 (a)
LIN54 36
  • 82 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LIN54 36
  • 79 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia lin54 35
  • 71.35 (n)
  • 73.94 (a)
Str.16976 35
zebrafish
(Danio rerio)
Actinopterygii lin54 36
  • 59 (a)
OneToOne
lin54 35
  • 62.36 (n)
  • 66.01 (a)
fruit fly
(Drosophila melanogaster)
Insecta mip120 36
  • 15 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea lin-54 36
  • 29 (a)
OneToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.8963 35
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 49 (a)
OneToOne
Species with no ortholog for LIN54:
  • 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)
  • 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 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 LIN54 Gene

ENSEMBL:
Gene Tree for LIN54 (if available)
TreeFam:
Gene Tree for LIN54 (if available)

Paralogs for LIN54 Gene

Paralogs for LIN54 Gene

(2) SIMAP similar genes for LIN54 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with LIN54: view

Variants for LIN54 Gene

Sequence variations from dbSNP and Humsavar for LIN54 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type
rs921992 -- 82,939,374(-) TGTAC(C/T)TTTAG intron-variant
rs1020750 -- 82,982,696(-) ACTTA(C/T)CTATG intron-variant
rs1020751 -- 82,958,570(+) TTTGC(A/G)TTTAA intron-variant
rs1020752 -- 82,958,697(+) tattt(A/T)ttatt intron-variant
rs1020753 -- 82,937,997(-) atgcc(A/C)ccatg intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LIN54 Gene

Variant ID Type Subtype PubMed ID
esv2668069 CNV Deletion 23128226
esv2663118 CNV Deletion 23128226

Variation tolerance for LIN54 Gene

Residual Variation Intolerance Score: 13.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.38; 27.20% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LIN54 Gene

HapMap Linkage Disequilibrium report
LIN54

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LIN54 Gene

Disorders for LIN54 Gene

Relevant External Links for LIN54

Genetic Association Database (GAD)
LIN54
Human Genome Epidemiology (HuGE) Navigator
LIN54
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LIN54

No disorders were found for LIN54 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LIN54 Gene

Publications for LIN54 Gene

  1. DYRK1A protein kinase promotes quiescence and senescence through DREAM complex assembly. (PMID: 21498570) Litovchick L. … DeCaprio J.A. (Genes Dev. 2011) 2 3 67
  2. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin E.L. … Gygi S.P. (Cell 2015) 3
  3. LIN54 harboring a mutation in CHC domain is localized to the cytoplasm and inhibits cell cycle progression. (PMID: 22895175) Matsuo T. … Takahashi T. (Cell Cycle 2012) 3
  4. Systematic analysis of human protein complexes identifies chromosome segregation proteins. (PMID: 20360068) Hutchins J.R. … Peters J.M. (Science 2010) 3
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3

Products for LIN54 Gene

Sources for LIN54 Gene

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