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LETM2 leucine zipper and EF-hand containing transmembrane protein 2 [ Homo sapiens (human) ]

Gene ID: 137994, updated on 9-Jun-2024

Summary

Official Symbol
LETM2provided by HGNC
Official Full Name
leucine zipper and EF-hand containing transmembrane protein 2provided by HGNC
Primary source
HGNC:HGNC:14648
See related
Ensembl:ENSG00000165046 MIM:620380; AllianceGenome:HGNC:14648
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
SLC55A2
Summary
Predicted to enable ribosome binding activity. Predicted to be involved in cellular metal ion homeostasis. Predicted to be located in mitochondrial inner membrane. Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in testis (RPKM 3.0), brain (RPKM 0.6) and 14 other tissues See more
Orthologs
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Genomic context

See LETM2 in Genome Data Viewer
Location:
8p11.23
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (38382431..38409527)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (38659474..38686498)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (38243994..38267045)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene DDHD domain containing 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19119 Neighboring gene phospholipid phosphatase 5 Neighboring gene nuclear receptor binding SET domain protein 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19120 Neighboring gene NUP98-NSD3 recombination region Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27247 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38235530-38236031 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38238312-38238846 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:38239137-38239927 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19122 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19123 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:38242638-38243268 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr8:38243269-38243898 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38244052-38244553 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19125 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38247000-38247501 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38248280-38248781 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38257600-38258101 Neighboring gene uncharacterized LOC102723716 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38261681-38262180 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38262831-38263332 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19126 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38269931-38270603 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38270604-38271277 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38272896-38273666 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr8:38274107-38274772 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38275681-38276444 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38277305-38277806 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38277908-38278453 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38278454-38278998 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38278999-38279544 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38279545-38280088 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr8:38280202-38280702 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr8:38280703-38281203 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38282951-38283642 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38285189-38286186 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38287183-38288180 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38289284-38289961 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38289962-38290638 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr8:38292133-38292640 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr8:38292641-38293146 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr8:38293147-38293653 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38294553-38295054 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38296366-38297156 Neighboring gene fibroblast growth factor receptor 1 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38297948-38298737 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38298738-38299528 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38299529-38300319 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38300320-38301110 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:38301111-38301900 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38303357-38303904 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38303905-38304451 Neighboring gene ribosomal protein S20 pseudogene 22 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38308051-38308774 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38308775-38309498 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38310223-38310946 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38312456-38313158 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38314169-38314670 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38315184-38316172 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38322798-38323299 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19127 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27250 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19128 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19129 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38325893-38326879 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38329497-38330290 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38330291-38331084 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38331715-38332697 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38335294-38335795 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38337885-38338386 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:38342043-38342691 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38342692-38343339 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38343723-38344224 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38345990-38346491 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38347499-38348000 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38348154-38348655 Neighboring gene Sharpr-MPRA regulatory region 7766 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:38353597-38354164 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:38354165-38354733 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38359246-38360101 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38360102-38360956 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38360976-38361766 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:38361767-38362556 Neighboring gene OCT4-H3K27ac hESC enhancer GRCh37_chr8:38368263-38369061 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr8:38369732-38370310 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr8:38370311-38370888 Neighboring gene OCT4 hESC enhancer GRCh37_chr8:38376955-38377456 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:38379090-38380048 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:38385147-38386346 Neighboring gene long intergenic non-protein coding RNA 3042

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ25409

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ribosome binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in intracellular monoatomic cation homeostasis IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in mitochondrial inner membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
LETM1 domain-containing protein LETM2, mitochondrial
Names
LETM1 and EF-hand domain-containing protein 2
leucine zipper-EF-hand containing transmembrane protein 1-like protein
leucine zipper-EF-hand containing transmembrane protein 2

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001199659.3NP_001186588.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 1

    See identical proteins and their annotated locations for NP_001186588.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform (1).
    Source sequence(s)
    AC087623, AY173945, BC069830
    Consensus CDS
    CCDS56534.1
    UniProtKB/TrEMBL
    B4DY93
    Related
    ENSP00000428765.2, ENST00000523983.6
    Conserved Domains (1) summary
    pfam07766
    Location:77331
    LETM1; LETM1-like protein
  2. NM_001199660.3NP_001186589.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 3

    See identical proteins and their annotated locations for NP_001186589.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus compared to isoform 1. Variants 3 and 4 enocode the same isoform (3).
    Source sequence(s)
    AC087623, BC024250, BC069830
    Conserved Domains (1) summary
    pfam07766
    Location:1182
    LETM1; LETM1-like protein
  3. NM_001286787.2NP_001273716.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 3

    See identical proteins and their annotated locations for NP_001273716.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses two alternate splice sites in the 5' UTR which results in the use of a downstream start codon compared to variant 1. The encoded isoform (3) has a shorter N-terminus compared to isoform 1. Variants 3 and 4 enocode the same isoform (3).
    Source sequence(s)
    AC087623, BC069830
    Conserved Domains (1) summary
    pfam07766
    Location:1182
    LETM1; LETM1-like protein
  4. NM_001286819.2NP_001273748.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 4

    See identical proteins and their annotated locations for NP_001273748.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) uses two alternate splice sites in the coding region which results in the use of an upstream AUG, compared to variant 1. The encoded isoform (4) has a longer N-terminus compared to isoform 1.
    Source sequence(s)
    AC087623
    Consensus CDS
    CCDS69466.1
    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
    Related
    ENSP00000369291.4, ENST00000379957.9
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  5. NM_001286821.2NP_001273750.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 5

    See identical proteins and their annotated locations for NP_001273750.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in both UTR's and the coding region and uses an alternate start codon, compared to variant 1. This results in an isoform (5) that is shorter and has distinct N- and C-termini, compared to isoform 1.
    Source sequence(s)
    AC087623, AK289944, AL832241
    Consensus CDS
    CCDS75731.1
    UniProtKB/TrEMBL
    A8K1M9, E5RIY3, E5RK40
    Related
    ENSP00000429269.2, ENST00000519476.6
    Conserved Domains (1) summary
    pfam07766
    Location:124167
    LETM1; LETM1-like protein
  6. NM_001330515.2NP_001317444.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC087623, BC069830, BJ989830, CB242043, CV024670
    Consensus CDS
    CCDS83282.1
    UniProtKB/TrEMBL
    B4DY93, E9PMA4
    Related
    ENSP00000431211.1, ENST00000524874.5
  7. NM_001363204.1NP_001350133.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 7 precursor

    Status: VALIDATED

    Source sequence(s)
    AC087623, BC069830
    Conserved Domains (1) summary
    pfam07766
    Location:2204
    LETM1; LETM1-like protein
  8. NM_001363205.1NP_001350134.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC087623, BC069830, BP198673
    Conserved Domains (1) summary
    pfam07766
    Location:1182
    LETM1; LETM1-like protein
  9. NM_144652.4NP_653253.1  LETM1 domain-containing protein LETM2, mitochondrial isoform 2

    See identical proteins and their annotated locations for NP_653253.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon compared to variant 1. The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AC087623, AK058138, BC069830
    Consensus CDS
    CCDS6106.1
    UniProtKB/TrEMBL
    B4DY93
    Related
    ENSP00000297720.5, ENST00000297720.9
    Conserved Domains (1) summary
    pfam07766
    Location:77283
    LETM1; LETM1-like protein

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    38382431..38409527
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017013056.2XP_016868545.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  2. XM_017013053.2XP_016868542.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  3. XM_047421383.1XP_047277339.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X2

    UniProtKB/TrEMBL
    B4DY93
  4. XM_011544408.3XP_011542710.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X3

    UniProtKB/TrEMBL
    B4DY93
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  5. XM_017013051.2XP_016868540.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  6. XM_017013055.2XP_016868544.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  7. XM_017013052.2XP_016868541.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  8. XM_017013054.2XP_016868543.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
    Conserved Domains (1) summary
    pfam07766
    Location:124378
    LETM1; LETM1-like protein
  9. XM_011544410.3XP_011542712.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X4

    See identical proteins and their annotated locations for XP_011542712.1

    UniProtKB/Swiss-Prot
    Q2VYF4
    Related
    ENSP00000434867.1, ENST00000527710.5
    Conserved Domains (1) summary
    pfam07766
    Location:2164
    LETM1; LETM1-like protein

RNA

  1. XR_007060702.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    38659474..38686498
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054359786.1XP_054215761.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
  2. XM_054359781.1XP_054215756.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
  3. XM_054359787.1XP_054215762.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X2

    UniProtKB/TrEMBL
    B4DY93
  4. XM_054359788.1XP_054215763.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X3

    UniProtKB/TrEMBL
    B4DY93
  5. XM_054359785.1XP_054215760.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
  6. XM_054359784.1XP_054215759.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
  7. XM_054359783.1XP_054215758.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
  8. XM_054359782.1XP_054215757.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    A6NMG3, Q2VYF4, Q8NCR2, Q96LL1
    UniProtKB/TrEMBL
    B4DY93
  9. XM_054359789.1XP_054215764.1  LETM1 domain-containing protein LETM2, mitochondrial isoform X4

RNA

  1. XR_008487809.1 RNA Sequence