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Aliases for LETMD1 Gene

Aliases for LETMD1 Gene

  • LETM1 Domain Containing 1 2 3 5
  • Cervical Cancer 1 Proto-Oncogene Protein P40 3 4
  • Cervical Cancer Proto-Oncogene 2 Protein 3 4
  • HCCR-1 3 4
  • HCRR-2 3 4
  • LETM1 Domain-Containing Protein 1 3
  • Cervical Cancer 1 Protooncogene 2
  • Regulator Of TP53 3
  • 1110019O13Rik 3
  • HCCR-2 3
  • HCCR1 3
  • HCCR2 3
  • HCCR 3

External Ids for LETMD1 Gene

Previous GeneCards Identifiers for LETMD1 Gene

  • GC12P049729
  • GC12P051442
  • GC12P048474

Summaries for LETMD1 Gene

Entrez Gene Summary for LETMD1 Gene

  • This gene encodes a mitochondrial outer membrane protein. It has a potential role in tumorigenesis, which may result from negative regulation of the p53 tumor suppressor gene. Alternatively spliced transcript variants have been noted for this gene. [provided by RefSeq, Aug 2011]

GeneCards Summary for LETMD1 Gene

LETMD1 (LETM1 Domain Containing 1) is a Protein Coding gene.

UniProtKB/Swiss-Prot for LETMD1 Gene

  • Involved in tumorigenesis and may function as a negative regulator of the p53/TP53.

Gene Wiki entry for LETMD1 Gene

Additional gene information for LETMD1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LETMD1 Gene

Genomics for LETMD1 Gene

Regulatory Elements for LETMD1 Gene

Enhancers for LETMD1 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
GH12H051019 1.7 Ensembl ENCODE dbSUPER 41.3 -23.4 -23398 11 MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC ZFP41 ZNF610 SMARCD1 HNRNPA3P10 ATF1 LIMA1 LETMD1 SLC11A2 TFCP2 CSRNP2 ENSG00000257298 FAM186A
GH12H050921 1.6 FANTOM5 ENCODE dbSUPER 16.3 -122.5 -122470 6 MLX ARNT ARID4B FEZF1 DMAP1 ZNF2 YY1 SP3 SP5 NFYC SMARCD1 SLC11A2 HNRNPA3P10 LIMA1 ATF1 LETMD1 TFCP2 ENSG00000257298 RNU6-1273P FAM186A
GH12H050783 1.8 FANTOM5 Ensembl ENCODE dbSUPER 12.1 -260.7 -260712 6 PKNOX1 FOXA2 ZNF133 SIN3A BRCA1 ZNF207 ATF7 FOS JUNB ZNF592 ATF1 SLC11A2 SMARCD1 LETMD1 BCDIN3D RNU6-1273P HNRNPA3P10 CERS5 DIP2B LIMA1
GH12H050984 1.1 Ensembl ENCODE 19.5 -61.8 -61775 3 FOXA2 ARID4B ZSCAN9 RAD21 YY1 ZNF143 FOS MIXL1 THAP11 KLF11 SLC11A2 LETMD1 CSRNP2 RNU6-1273P RNU7-39P ENSG00000274797
GH12H050612 1.8 FANTOM5 Ensembl ENCODE dbSUPER 11.1 -430.2 -430161 10 PKNOX1 ATF1 ZNF133 FEZF1 FOS ATF7 RUNX3 YY2 JUNB ZNF592 LIMA1 ATF1 SMARCD1 BCDIN3D LETMD1 TFCP2 ENSG00000257298 DIP2B LARP4 FAM186A
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around LETMD1 on UCSC Golden Path with GeneCards custom track

Promoters for LETMD1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000051842 438 2001 HDGF PKNOX1 ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF766

Genomic Location for LETMD1 Gene

Chromosome:
12
Start:
51,047,962 bp from pter
End:
51,067,369 bp from pter
Size:
19,408 bases
Orientation:
Plus strand

Genomic View for LETMD1 Gene

Genes around LETMD1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LETMD1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LETMD1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LETMD1 Gene

Proteins for LETMD1 Gene

  • Protein details for LETMD1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6P1Q0-LTMD1_HUMAN
    Recommended name:
    LETM1 domain-containing protein 1
    Protein Accession:
    Q6P1Q0
    Secondary Accessions:
    • A6NER7
    • B3KXK7
    • Q6X2E4
    • Q6X2E5
    • Q7L2G9
    • Q7L690
    • Q8WXW6
    • Q96PK7
    • Q9BY59
    • Q9Y3X3

    Protein attributes for LETMD1 Gene

    Size:
    360 amino acids
    Molecular mass:
    41790 Da
    Quaternary structure:
    • Interacts with BRI3BP.

    Alternative splice isoforms for LETMD1 Gene

neXtProt entry for LETMD1 Gene

Post-translational modifications for LETMD1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Antibody Products

  • Abcam antibodies for LETMD1

No data available for DME Specific Peptides for LETMD1 Gene

Domains & Families for LETMD1 Gene

Gene Families for LETMD1 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted membrane proteins

Protein Domains for LETMD1 Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LETMD1: view

No data available for UniProtKB/Swiss-Prot for LETMD1 Gene

Function for LETMD1 Gene

Molecular function for LETMD1 Gene

UniProtKB/Swiss-Prot Function:
Involved in tumorigenesis and may function as a negative regulator of the p53/TP53.

Gene Ontology (GO) - Molecular Function for LETMD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 16762630
GO:0043022 ribosome binding IEA --
genes like me logo Genes that share ontologies with LETMD1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LETMD1 Gene

Localization for LETMD1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for LETMD1 Gene

Mitochondrion outer membrane; Single-pass membrane protein.

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 LETMD1 gene
Compartment Confidence
mitochondrion 5
nucleus 5
cytosol 2
plasma membrane 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Mitochondria (3)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for LETMD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005739 mitochondrion IDA,IEA --
GO:0005741 mitochondrial outer membrane IEA --
GO:0005743 mitochondrial inner membrane IBA --
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with LETMD1: view

Pathways & Interactions for LETMD1 Gene

SuperPathways for LETMD1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for LETMD1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006875 cellular metal ion homeostasis IBA --
genes like me logo Genes that share ontologies with LETMD1: view

No data available for Pathways by source and SIGNOR curated interactions for LETMD1 Gene

Drugs & Compounds for LETMD1 Gene

No Compound Related Data Available

Transcripts for LETMD1 Gene

Unigene Clusters for LETMD1 Gene

LETM1 domain containing 1:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for LETMD1 Gene

ExUns: 1 ^ 2a · 2b · 2c ^ 3 ^ 4a · 4b · 4c · 4d · 4e ^ 5a · 5b · 5c ^ 6a · 6b ^ 7a · 7b · 7c · 7d · 7e · 7f ^ 8a · 8b · 8c · 8d · 8e ^
SP1: - - - - - - - -
SP2: - - - - - - -
SP3: - - - - - - - - -
SP4: - - - - - - - - - - -
SP5: - - - - - - - - - - - -
SP6: - - - - - - - - - -
SP7: - - - - - - - - - - -
SP8: - - - - - - - - - - - -
SP9: - - - - - - - - - - - - - - - - - -
SP10: - - - - - - - - - - -
SP11: - - - - - - - - - -
SP12: - - - - - - - - - - - - - - - - - -
SP13: - - - - - - - -
SP14: - - - - - - - -
SP15: - - - - - - - - - - - -
SP16: - - - - - -
SP17: - - - - - - - - - -
SP18: - - - - - - - - - - - - - - - - - - - -
SP19: - - - - - - - - - - - - - - - - - - - -
SP20: - - - - - - - - - - - - - - - - - - -
SP21: - - - - - - - - - - - - - - - - -
SP22: - - - - -
SP23: - - - - - - - - - - - - - - - - - - - - -
SP24: - - - - - - - - - - - - - - - - - - - - -
SP25: - - - - - - - - - - - - - - - - - - - -
SP26: - - - - - - - - - - - - - - - - - - -
SP27: - - - - - - - - - - - - - - - - - - - -
SP28: - - - - - - - - - - - - - - - - -
SP29:
SP30: - - - -
SP31:
SP32:
SP33:
SP34: - - -
SP35: -
SP36: - - - - - - -

ExUns: 9a · 9b · 9c · 9d · 9e ^ 10a · 10b · 10c ^ 11a · 11b · 11c ^ 12 ^ 13a · 13b · 13c · 13d · 13e · 13f · 13g · 13h · 13i · 13j · 13k · 13l · 13m · 13n ·
SP1: - - - -
SP2: - - - -
SP3: - - - -
SP4: - - - -
SP5:
SP6:
SP7:
SP8: - - - -
SP9: - - - -
SP10:
SP11:
SP12: - - -
SP13:
SP14:
SP15:
SP16:
SP17:
SP18: - -
SP19: - - - -
SP20: - - -
SP21: - - -
SP22: - - - -
SP23: - - - -
SP24: - - -
SP25: - - - - - - - -
SP26: - - -
SP27: - - - - - - - -
SP28: - - - -
SP29: - - - - - - - -
SP30:
SP31:
SP32: - - -
SP33: - - - -
SP34:
SP35:
SP36:

Relevant External Links for LETMD1 Gene

GeneLoc Exon Structure for
LETMD1
ECgene alternative splicing isoforms for
LETMD1

Expression for LETMD1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LETMD1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for LETMD1 Gene

This gene is overexpressed in Bone (22.0) and Stomach (6.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LETMD1 Gene



Protein tissue co-expression partners for LETMD1 Gene

NURSA nuclear receptor signaling pathways regulating expression of LETMD1 Gene:

LETMD1

SOURCE GeneReport for Unigene cluster for LETMD1 Gene:

Hs.655272

mRNA Expression by UniProt/SwissProt for LETMD1 Gene:

Q6P1Q0-LTMD1_HUMAN
Tissue specificity: Kidney, liver, skeletal muscle, heart and brain. Overexpressed in various tumors including leukemia, lymphoma, and carcinomas of the breast, kidney, ovary, stomach, colon and uterine cervix.

Evidence on tissue expression from TISSUES for LETMD1 Gene

  • Nervous system(4.9)
  • Lung(4.4)
  • Kidney(2.2)
genes like me logo Genes that share expression patterns with LETMD1: view

Primer Products

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for LETMD1 Gene

Orthologs for LETMD1 Gene

This gene was present in the common ancestor of animals.

Orthologs for LETMD1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LETMD1 33 34
  • 99.72 (n)
dog
(Canis familiaris)
Mammalia LETMD1 33 34
  • 91.3 (n)
cow
(Bos Taurus)
Mammalia LETMD1 33 34
  • 90.65 (n)
mouse
(Mus musculus)
Mammalia Letmd1 33 16 34
  • 84.07 (n)
rat
(Rattus norvegicus)
Mammalia Letmd1 33
  • 83.43 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LETMD1 34
  • 50 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia LETMD1 34
  • 48 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia letmd1 33
  • 59.21 (n)
Str.2051 33
African clawed frog
(Xenopus laevis)
Amphibia Xl.12988 33
zebrafish
(Danio rerio)
Actinopterygii zgc:194455 33
  • 51.85 (n)
LETMD1 34
  • 41 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.9816 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP005736 33
  • 43.18 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG5989 33 34
  • 39.71 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.3603 34
  • 21 (a)
OneToOne
Species where no ortholog for LETMD1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • chicken (Gallus gallus)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • 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)
  • worm (Caenorhabditis elegans)

Evolution for LETMD1 Gene

ENSEMBL:
Gene Tree for LETMD1 (if available)
TreeFam:
Gene Tree for LETMD1 (if available)

Paralogs for LETMD1 Gene

No data available for Paralogs for LETMD1 Gene

Variants for LETMD1 Gene

Sequence variations from dbSNP and Humsavar for LETMD1 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type
rs1000024743 -- 51,054,239(+) ATGAC(A/G)TTTCT intron-variant
rs1000027599 -- 51,050,803(+) GAGGT(C/G)GGGCG intron-variant
rs1000087982 -- 51,052,851(+) CTATA(A/G)TCTCA intron-variant
rs1000150513 -- 51,048,169(+) CTGTG(C/T)CCAAT upstream-variant-2KB
rs1000178264 -- 51,055,110(+) AAAAA(A/C)AACAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for LETMD1 Gene

Variant ID Type Subtype PubMed ID
esv34039 CNV loss 18971310
esv3629498 CNV gain 21293372

Variation tolerance for LETMD1 Gene

Residual Variation Intolerance Score: 41.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.67; 31.87% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for LETMD1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LETMD1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LETMD1 Gene

Disorders for LETMD1 Gene

Relevant External Links for LETMD1

Genetic Association Database (GAD)
LETMD1
Human Genome Epidemiology (HuGE) Navigator
LETMD1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LETMD1

No disorders were found for LETMD1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LETMD1 Gene

Publications for LETMD1 Gene

  1. HCCR-1, a novel oncogene, encodes a mitochondrial outer membrane protein and suppresses the UVC-induced apoptosis. (PMID: 18045496) Cho GW … Kim JW (BMC cell biology 2007) 3 4 22 60
  2. Identification and differential expression of novel human cervical cancer oncogene HCCR-2 in human cancers and its involvement in p53 stabilization. (PMID: 12879013) Ko J … Kim JW (Oncogene 2003) 2 3 4 60
  3. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 45 60
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  5. Isolation of novel differentially expressed genes related to human glioma using cDNA microarray and characterizations of two novel full-length genes. (PMID: 12061725) Qi ZY … Xie Y (Journal of neuro-oncology 2002) 2 3 60

Products for LETMD1 Gene

Sources for LETMD1 Gene

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