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EIF2D eukaryotic translation initiation factor 2D [ Homo sapiens (human) ]

Gene ID: 1939, updated on 2-Mar-2021

Summary

Official Symbol
EIF2Dprovided by HGNC
Official Full Name
eukaryotic translation initiation factor 2Dprovided by HGNC
Primary source
HGNC:HGNC:6583
See related
Ensembl:ENSG00000143486 MIM:613709
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
LGTN; HCA56
Summary
This gene encodes a translation initiation factor involved in the recruitment and delivery of aminoacyl-tRNAs to the P-site of the eukaryotic ribosome in a GTP-independent manner. This gene was previously referred to as ligatin, but is now known to localize to the cytoplasm and localize and function with translation factors. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2011]
Annotation information
Note: The name of this locus was changed from ligatin to eukaryotic translation initiation factor 2D based on the gene characterization reported in PMID:20566627. [18 Aug 2011]
Expression
Ubiquitous expression in ovary (RPKM 12.2), thyroid (RPKM 9.1) and 25 other tissues See more
Orthologs
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Genomic context

See EIF2D in Genome Data Viewer
Location:
1q32.1
Exon count:
18
Annotation release Status Assembly Chr Location
109.20210226 current GRCh38.p13 (GCF_000001405.39) 1 NC_000001.11 (206572484..206612466, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (206764974..206785818, complement)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene microRNA 6769b Neighboring gene inhibitor of nuclear factor kappa B kinase subunit epsilon Neighboring gene Ras association domain family member 5 Neighboring gene ribosomal protein L7a pseudogene 20 Neighboring gene DYRK3 antisense RNA 1 Neighboring gene dual specificity tyrosine phosphorylation regulated kinase 3 Neighboring gene MAPK activated protein kinase 2 Neighboring gene ribosomal protein S14 pseudogene 1

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
signaling receptor activity TAS
Traceable Author Statement
more info
 
translation initiation factor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
translation initiation factor activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
IRES-dependent viral translational initiation IDA
Inferred from Direct Assay
more info
PubMed 
formation of translation preinitiation complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
formation of translation preinitiation complex IDA
Inferred from Direct Assay
more info
PubMed 
intracellular protein transport TAS
Traceable Author Statement
more info
 
ribosome disassembly IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol IDA
Inferred from Direct Assay
more info
 
colocalizes_with cytosolic small ribosomal subunit IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
colocalizes_with cytosolic small ribosomal subunit IDA
Inferred from Direct Assay
more info
PubMed 
nuclear body IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
eukaryotic translation initiation factor 2D
Names
hepatocellular carcinoma-associated antigen 56
ligatin

NCBI Reference Sequences (RefSeq)

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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_001201478.2NP_001188407.1  eukaryotic translation initiation factor 2D isoform 2

    See identical proteins and their annotated locations for NP_001188407.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks two in-frame exons in the coding region. The resulting protein (isoform 2) is shorter, compared to isoform 1.
    Source sequence(s)
    AF262403, BC001585, DC399556
    Consensus CDS
    CCDS55680.1
    UniProtKB/Swiss-Prot
    P41214
    Related
    ENSP00000356081.3, ENST00000367114.7
    Conserved Domains (4) summary
    cd11608
    Location:366450
    eIF2D_C; C-terminal domain of eIF2D and related proteins
    cd11610
    Location:681
    eIF2D_N; N-terminal domain of eIF2D and related proteins
    COG2016
    Location:7170
    Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
    cl00607
    Location:68174
    PUA; PUA domain
  2. NM_006893.3NP_008824.2  eukaryotic translation initiation factor 2D isoform 1

    See identical proteins and their annotated locations for NP_008824.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    BC058905, BI465059
    Consensus CDS
    CCDS1465.1
    UniProtKB/Swiss-Prot
    P41214
    Related
    ENSP00000271764.2, ENST00000271764.7
    Conserved Domains (3) summary
    cd11608
    Location:490574
    eIF2D_C; C-terminal domain of eIF2D and related proteins
    cd11610
    Location:681
    eIF2D_N; N-terminal domain of eIF2D and related proteins
    cl25957
    Location:7178
    Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210226

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    206572484..206612466 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011509257.2XP_011507559.1  eukaryotic translation initiation factor 2D isoform X1

    Conserved Domains (4) summary
    cd11608
    Location:490562
    eIF2D_C; C-terminal domain of eIF2D and related proteins
    cd11610
    Location:681
    eIF2D_N; N-terminal domain of eIF2D and related proteins
    COG2016
    Location:7178
    Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
    cl00607
    Location:68174
    PUA; PUA domain
  2. XM_017000532.2XP_016856021.1  eukaryotic translation initiation factor 2D isoform X6

  3. XM_017000531.2XP_016856020.1  eukaryotic translation initiation factor 2D isoform X5

  4. XM_006711196.3XP_006711259.1  eukaryotic translation initiation factor 2D isoform X3

    Conserved Domains (1) summary
    cd11608
    Location:340424
    eIF2D_C; C-terminal domain of eIF2D and related proteins
  5. XM_017000530.1XP_016856019.1  eukaryotic translation initiation factor 2D isoform X4

  6. XM_005277509.3XP_005277566.1  eukaryotic translation initiation factor 2D isoform X2

    Conserved Domains (4) summary
    cd11608
    Location:440524
    eIF2D_C; C-terminal domain of eIF2D and related proteins
    cd11610
    Location:681
    eIF2D_N; N-terminal domain of eIF2D and related proteins
    COG2016
    Location:7178
    Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
    cl00607
    Location:68174
    PUA; PUA domain
  7. XM_011509258.2XP_011507560.1  eukaryotic translation initiation factor 2D isoform X7

    Related
    ENSP00000394685.1, ENST00000437518.1
    Conserved Domains (3) summary
    cd11610
    Location:681
    eIF2D_N; N-terminal domain of eIF2D and related proteins
    COG2016
    Location:7178
    Tma20; Predicted ribosome-associated RNA-binding protein Tma20, contains PUA domain [Translation, ribosomal structure and biogenesis]
    cl00607
    Location:68174
    PUA; PUA domain

RNA

  1. XR_001737023.2 RNA Sequence

  2. XR_921751.2 RNA Sequence

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