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TOMM40 translocase of outer mitochondrial membrane 40 [ Homo sapiens (human) ]

Gene ID: 10452, updated on 11-Oct-2020

Summary

Official Symbol
TOMM40provided by HGNC
Official Full Name
translocase of outer mitochondrial membrane 40provided by HGNC
Primary source
HGNC:HGNC:18001
See related
Ensembl:ENSG00000130204 MIM:608061
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TOM40; PEREC1; C19orf1; PER-EC1; D19S1177E
Summary
The protein encoded by this gene is localized in the outer membrane of the mitochondria. It is the channel-forming subunit of the translocase of the mitochondrial outer membrane (TOM) complex that is essential for import of protein precursors into mitochondria. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Aug 2015]
Expression
Ubiquitous expression in colon (RPKM 13.7), esophagus (RPKM 12.2) and 25 other tissues See more
Orthologs

Genomic context

See TOMM40 in Genome Data Viewer
Location:
19q13.32
Exon count:
11
Annotation release Status Assembly Chr Location
109.20200815 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (44891226..44903689)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (45394477..45406946)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene basal cell adhesion molecule (Lutheran blood group) Neighboring gene nectin cell adhesion molecule 2 Neighboring gene APOC1 promoter region Neighboring gene apolipoprotein E Neighboring gene apolipoprotein C1

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 Functions

What's a GeneRIF?

Phenotypes

Associated conditions

Description Tests
A genome wide association study identifies common variants associated with lipid levels in the Chinese population.
GeneReviews: Not available
A genome-wide association study for late-onset Alzheimer's disease using DNA pooling.
GeneReviews: Not available
A genome-wide association study implicates the APOE locus in nonpathological cognitive ageing.
GeneReviews: Not available
A genome-wide scan for common variants affecting the rate of age-related cognitive decline.
GeneReviews: Not available
ABCC9 gene polymorphism is associated with hippocampal sclerosis of aging pathology.
GeneReviews: Not available
APOE and BCHE as modulators of cerebral amyloid deposition: a florbetapir PET genome-wide association study.
GeneReviews: Not available
Are C-reactive protein associated genetic variants associated with serum levels and retinal markers of microvascular pathology in Asian populations from Singapore?
GeneReviews: Not available
Dementia revealed: novel chromosome 6 locus for late-onset Alzheimer disease provides genetic evidence for folate-pathway abnormalities.
GeneReviews: Not available
Examination of the current top candidate genes for AD in a genome-wide association study.
GeneReviews: Not available
Genetic susceptibility to accelerated cognitive decline in the US Health and Retirement Study.
GeneReviews: Not available
Genetic variants in LPL, OASL and TOMM40/APOE-C1-C2-C4 genes are associated with multiple cardiovascular-related traits.
GeneReviews: Not available
Genome-wide analysis of genetic loci associated with Alzheimer disease.
GeneReviews: Not available
Genome-wide association analysis of age-at-onset in Alzheimer's disease.
GeneReviews: Not available
Genome-wide association analysis of metabolic traits in a birth cohort from a founder population.
GeneReviews: Not available
Genome-wide association and population genetic analysis of C-reactive protein in African American and Hispanic American women.
GeneReviews: Not available
Genome-wide association reveals genetic effects on human Aβ42 and τ protein levels in cerebrospinal fluids: a case control study.
GeneReviews: Not available
Genome-wide association studies in an isolated founder population from the Pacific Island of Kosrae.
GeneReviews: Not available
Genome-wide association study identifies a single major locus contributing to survival into old age; the APOE locus revisited.
GeneReviews: Not available
Genome-wide association study identifies variants at CLU and CR1 associated with Alzheimer's disease.
GeneReviews: Not available
Genome-wide association study identifies variants at CLU and PICALM associated with Alzheimer's disease.
GeneReviews: Not available
Genome-wide association study of age-related macular degeneration identifies associated variants in the TNXB-FKBPL-NOTCH4 region of chromosome 6p21.3.
GeneReviews: Not available
Genome-wide association study of Alzheimer's disease with psychotic symptoms.
GeneReviews: Not available
Genome-wide association study of Alzheimer's disease.
GeneReviews: Not available
Genome-wide association study of CSF biomarkers Abeta1-42, t-tau, and p-tau181p in the ADNI cohort.
GeneReviews: Not available
Genome-wide characterization of shared and distinct genetic components that influence blood lipid levels in ethnically diverse human populations.
GeneReviews: Not available
Genome-wide scan of copy number variation in late-onset Alzheimer's disease.
GeneReviews: Not available
Genome-wide screen for metabolic syndrome susceptibility Loci reveals strong lipid gene contribution but no evidence for common genetic basis for clustering of metabolic syndrome traits.
GeneReviews: Not available
GWAS of cerebrospinal fluid tau levels identifies risk variants for Alzheimer's disease.
GeneReviews: Not available
Insights into the genetic architecture of early stage age-related macular degeneration: a genome-wide association study meta-analysis.
GeneReviews: Not available
Large-scale genome-wide association studies in East Asians identify new genetic loci influencing metabolic traits.
GeneReviews: Not available
Loci influencing lipid levels and coronary heart disease risk in 16 European population cohorts.
GeneReviews: Not available
Overrepresentation of glutamate signaling in Alzheimer's disease: network-based pathway enrichment using meta-analysis of genome-wide association studies.
GeneReviews: Not available
Polymorphisms of the HNF1A gene encoding hepatocyte nuclear factor-1 alpha are associated with C-reactive protein.
GeneReviews: Not available
SORL1 is genetically associated with late-onset Alzheimer's disease in Japanese, Koreans and Caucasians.
GeneReviews: Not available
The membrane-spanning 4-domains, subfamily A (MS4A) gene cluster contains a common variant associated with Alzheimer's disease.
GeneReviews: Not available

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 encephalitis infection upregulates TOM20 and TOM40 protein levels in post-mortem brain samples PubMed

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Env (gp120) upregulates TOM20 and TOM40 protein levels in transgenic mouse neurons PubMed
Envelope transmembrane glycoprotein gp41 env HIV-1 gp41 is identified to have a physical interaction with translocase of outer mitochondrial membrane 40 homolog (TOMM40) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
porin activity IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein transmembrane transporter activity ISS
Inferred from Sequence or Structural Similarity
more info
 
protein transmembrane transporter activity TAS
Traceable Author Statement
more info
PubMed 
Process Evidence Code Pubs
ion transport IEA
Inferred from Electronic Annotation
more info
 
macroautophagy TAS
Traceable Author Statement
more info
 
protein import into mitochondrial matrix IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein targeting to mitochondrion IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein targeting to mitochondrion ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
 
integral component of membrane IDA
Inferred from Direct Assay
more info
PubMed 
integral component of mitochondrial outer membrane ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
mitochondrial inner membrane IDA
Inferred from Direct Assay
more info
PubMed 
mitochondrial outer membrane TAS
Traceable Author Statement
more info
 
mitochondrial outer membrane translocase complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
mitochondrial outer membrane translocase complex IDA
Inferred from Direct Assay
more info
PubMed 
mitochondrion IDA
Inferred from Direct Assay
more info
 
NOT mitochondrion IMP
Inferred from Mutant Phenotype
more info
PubMed 
pore complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
mitochondrial import receptor subunit TOM40 homolog
Names
mitochondrial outer membrane protein
p38.5
protein Haymaker
translocase of outer membrane 40 kDa subunit homolog
translocase of outer mitochondrial membrane 40 homolog

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.

Genomic

  1. NG_042854.1 RefSeqGene

    Range
    5035..17470
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001128916.2NP_001122388.1  mitochondrial import receptor subunit TOM40 homolog

    See identical proteins and their annotated locations for NP_001122388.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1-3 encode the same protein.
    Source sequence(s)
    BC012134, BC017224, BP265648
    Consensus CDS
    CCDS12646.1
    UniProtKB/Swiss-Prot
    O96008
    Related
    ENSP00000385184.2, ENST00000405636.6
    Conserved Domains (1) summary
    cd07305
    Location:77361
    Porin3_Tom40; Translocase of outer mitochondrial membrane 40 (Tom40)
  2. NM_001128917.2NP_001122389.1  mitochondrial import receptor subunit TOM40 homolog

    See identical proteins and their annotated locations for NP_001122389.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Variants 1-3 encode the same protein.
    Source sequence(s)
    BC001779, BC017224, BP265648
    Consensus CDS
    CCDS12646.1
    UniProtKB/Swiss-Prot
    O96008
    Related
    ENSP00000410339.1, ENST00000426677.7
    Conserved Domains (1) summary
    cd07305
    Location:77361
    Porin3_Tom40; Translocase of outer mitochondrial membrane 40 (Tom40)
  3. NM_006114.3NP_006105.1  mitochondrial import receptor subunit TOM40 homolog

    See identical proteins and their annotated locations for NP_006105.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1-3 encode the same protein.
    Source sequence(s)
    AF043250, BC017224
    Consensus CDS
    CCDS12646.1
    UniProtKB/Swiss-Prot
    O96008
    Related
    ENSP00000252487.4, ENST00000252487.9
    Conserved Domains (1) summary
    cd07305
    Location:77361
    Porin3_Tom40; Translocase of outer mitochondrial membrane 40 (Tom40)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20200815

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    44891226..44903689
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005258411.4XP_005258468.1  mitochondrial import receptor subunit TOM40 homolog isoform X1

    Conserved Domains (1) summary
    cd07305
    Location:77316
    Porin3_Tom40; Translocase of outer mitochondrial membrane 40 (Tom40)
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