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MTDH metadherin [ Homo sapiens (human) ]

Gene ID: 92140, updated on 13-Jan-2019

Summary

Official Symbol
MTDHprovided by HGNC
Official Full Name
metadherinprovided by HGNC
Primary source
HGNC:HGNC:29608
See related
Ensembl:ENSG00000147649 MIM:610323
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
3D3; AEG1; AEG-1; LYRIC; LYRIC/3D3
Expression
Ubiquitous expression in thyroid (RPKM 24.7), bone marrow (RPKM 21.0) and 25 other tissues See more
Orthologs

Genomic context

See MTDH in Genome Data Viewer
Location:
8q22.1
Exon count:
13
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 8 NC_000008.11 (97643972..97730260)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (98656375..98742488)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105375657 Neighboring gene ribosomal protein S2 pseudogene 33 Neighboring gene lysosomal protein transmembrane 4 beta Neighboring gene transmembrane protein 69 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association study of migraine implicates a common susceptibility variant on 8q22.1.
NHGRI GWA Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env Astrocyte elevated gene (AEG)-1 expression is increased in astrocytes infected with HIV-1 or treated with HIV-1 gp120; AEG-1 inhibits excitatory amino acid transporter 2 (EAAT2) promoter activity with the potential to promote glutamate excito-toxicity PubMed
Envelope transmembrane glycoprotein gp41 env Lyric decreases HIV-1 gp41 expression compared to control cells PubMed
Pr55(Gag) gag HIV-1 Gag interacts with MTDH as demonstrated by proximity dependent biotinylation proteomics PubMed
gag Cellular biotinylated metadherin (MTDH, Lyric, AEG-1) protein is incorporated into HIV-1 Gag virus-like particles PubMed
gag Interaction of HIV-1 Gag with metadherin (MTDH, Lyric) is identified in a series of six affinity purification/mass spectrometry screens PubMed
gag HIV-1 Gag multimerization is a prerequisite for the interaction with Lyric PubMed
gag MA and NC domains of HIV-1 Gag are required for the interaction with Lyric. The Lyric region between amino acids 107 and 204 is essential for the interaction PubMed
Tat tat AEG-1 expression is upregulated in the CNS of HIV-1-infected individuals and corelates with the expression of HIV-1 Tat protein in the brain PubMed
Vpr vpr A stable-isotope labeling by amino acids in cell culture coupled with mass spectrometry-based proteomics identifies upregulation of metadherin (Lyric) expression by HIV-1 Vpr in Vpr transduced macrophages PubMed
retropepsin gag-pol Lyric is incorporated into viral particles and cleaved at its C-terminus by HIV-1 PR PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
NF-kappaB binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
NF-kappaB binding IPI
Inferred from Physical Interaction
more info
PubMed 
RNA binding HDA PubMed 
RNA polymerase II transcription factor binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
RNA polymerase II transcription factor binding IPI
Inferred from Physical Interaction
more info
PubMed 
double-stranded RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transcription coactivator activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
apical plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
bicellular tight junction ISS
Inferred from Sequence or Structural Similarity
more info
 
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
fibrillar center IDA
Inferred from Direct Assay
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
intercellular canaliculus ISS
Inferred from Sequence or Structural Similarity
more info
 
nuclear body IDA
Inferred from Direct Assay
more info
PubMed 
nuclear membrane IEA
Inferred from Electronic Annotation
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
perinuclear region of cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein LYRIC
Names
3D3/LYRIC
astrocyte elevated gene 1
astrocyte elevated gene-1 protein
lysine-rich CEACAM1 co-isolated protein
metastasis adhesion protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001363136.1NP_001350065.1  protein LYRIC isoform 2

    Status: VALIDATED

    Source sequence(s)
    AF411226, AP003357, AY082966, BC045642, DA213697, DW426198
    Conserved Domains (1) summary
    pfam15686
    Location:6400
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  2. NM_001363137.1NP_001350066.1  protein LYRIC isoform 3

    Status: VALIDATED

    Source sequence(s)
    AF411226, AP003357, AY082966, BC045642
    Conserved Domains (1) summary
    pfam15686
    Location:6452
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  3. NM_001363138.1NP_001350067.1  protein LYRIC isoform 4

    Status: VALIDATED

    Source sequence(s)
    AF411226, AK308030, AP003357, AY082966, BC045642
    Conserved Domains (1) summary
    pfam15686
    Location:6389
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  4. NM_001363139.1NP_001350068.1  protein LYRIC isoform 5

    Status: VALIDATED

    Source sequence(s)
    AF411226, AK308030, AP003357, AY082966, BC045642, DW426198
    Conserved Domains (1) summary
    pfam15686
    Location:6367
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  5. NM_178812.4NP_848927.2  protein LYRIC isoform 1

    See identical proteins and their annotated locations for NP_848927.2

    Status: VALIDATED

    Source sequence(s)
    AF411226, AP003357, AY082966, BC045642
    Consensus CDS
    CCDS6274.1
    UniProtKB/Swiss-Prot
    Q86UE4
    UniProtKB/TrEMBL
    A0A024R9D2
    Related
    ENSP00000338235.3, ENST00000336273.7
    Conserved Domains (1) summary
    pfam15686
    Location:6422
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p12 Primary Assembly

    Range
    97643972..97730260
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011517369.3XP_011515671.1  protein LYRIC isoform X3

    Conserved Domains (1) summary
    pfam15686
    Location:6452
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  2. XM_011517370.3XP_011515672.1  protein LYRIC isoform X6

    Conserved Domains (1) summary
    pfam15686
    Location:6422
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  3. XM_017013968.2XP_016869457.1  protein LYRIC isoform X8

  4. XM_011517367.2XP_011515669.1  protein LYRIC isoform X1

    Conserved Domains (1) summary
    pfam15686
    Location:6452
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  5. XM_005251099.3XP_005251156.1  protein LYRIC isoform X5

    Related
    ENSP00000428168.1, ENST00000519934.5
    Conserved Domains (1) summary
    pfam15686
    Location:6389
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  6. XM_011517368.2XP_011515670.1  protein LYRIC isoform X2

    Conserved Domains (1) summary
    pfam15686
    Location:6430
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  7. XM_017013966.1XP_016869455.1  protein LYRIC isoform X4

    Conserved Domains (1) summary
    pfam15686
    Location:6400
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
  8. XM_017013967.1XP_016869456.1  protein LYRIC isoform X7

    Conserved Domains (1) summary
    pfam15686
    Location:6367
    LYRIC; Lysine-rich CEACAM1 co-isolated protein family
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