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Protein

Eukaryotic translation initiation factor 2D

Gene

EIF2D

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Translation initiation factor that is able to deliver tRNA to the P-site of the eukaryotic ribosome in a GTP-independent manner. The binding of Met-tRNA(I) occurs after the AUG codon finds its position in the P-site of 40S ribosomes, the situation that takes place during initiation complex formation on some specific RNAs. Its activity in tRNA binding with 40S subunits does not require the presence of the aminoacyl moiety. Possesses the unique ability to deliver non-Met (elongator) tRNAs into the P-site of the 40S subunit. In addition to its role in initiation, can promote release of deacylated tRNA and mRNA from recycled 40S subunits following ABCE1-mediated dissociation of post-termination ribosomal complexes into subunits.2 Publications

Caution

Was previously erroneously called ligatin, a trafficking receptor for phosphoglycoproteins, while ligatin is actually a distinct 10 kDa filamentous membrane protein encoded by a still unidentified gene.1 Publication

GO - Molecular functioni

  • signaling receptor activity Source: ProtInc
  • translation initiation factor activity Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionInitiation factor
Biological processProtein biosynthesis

Names & Taxonomyi

Protein namesi
Recommended name:
Eukaryotic translation initiation factor 2D
Short name:
eIF2d
Alternative name(s):
Hepatocellular carcinoma-associated antigen 56
Ligatin
Gene namesi
Name:EIF2D
Synonyms:HCA56, LGTN
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000143486.15
HGNCiHGNC:6583 EIF2D
MIMi613709 gene
neXtProtiNX_P41214

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000143486
PharmGKBiPA30355

Polymorphism and mutation databases

BioMutaiEIF2D
DMDMi158957575

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001306111 – 584Eukaryotic translation initiation factor 2DAdd BLAST584

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineCombined sources1
Modified residuei237PhosphoserineCombined sources1
Modified residuei254PhosphoserineBy similarity1
Modified residuei361PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP41214
MaxQBiP41214
PaxDbiP41214
PeptideAtlasiP41214
PRIDEiP41214
ProteomicsDBi55417
55418 [P41214-2]

PTM databases

iPTMnetiP41214
PhosphoSitePlusiP41214

Expressioni

Developmental stagei

Found during embryonic development and in early differentiated states.

Gene expression databases

BgeeiENSG00000143486 Expressed in 219 organ(s), highest expression level in ectocervix
ExpressionAtlasiP41214 baseline and differential
GenevisibleiP41214 HS

Organism-specific databases

HPAiHPA028220

Interactioni

Protein-protein interaction databases

BioGridi108259, 24 interactors
IntActiP41214, 1 interactor
MINTiP41214
STRINGi9606.ENSP00000271764

Structurei

Secondary structure

1584
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliP41214
SMRiP41214
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini93 – 173PUAPROSITE-ProRule annotationAdd BLAST81
Domaini491 – 564SUI1PROSITE-ProRule annotationAdd BLAST74

Sequence similaritiesi

Belongs to the eIF2D family.Curated

Phylogenomic databases

eggNOGiKOG2522 Eukaryota
ENOG410XSAV LUCA
GeneTreeiENSGT00550000074865
HOVERGENiHBG006268
InParanoidiP41214
KOiK15027
OMAiMFLKPYR
OrthoDBiEOG091G0DTH
PhylomeDBiP41214
TreeFamiTF105830

Family and domain databases

CDDicd11608 eIF2D_C, 1 hit
Gene3Di2.30.130.10, 1 hit
InterProiView protein in InterPro
IPR039757 EIF2D
IPR039759 eIF2D_SUI1
IPR002478 PUA
IPR015947 PUA-like_sf
IPR036974 PUA_sf
IPR001950 SUI1
IPR036877 SUI1_dom_sf
IPR036885 SWIB_MDM2_dom_sf
PANTHERiPTHR12217 PTHR12217, 1 hit
PfamiView protein in Pfam
PF01253 SUI1, 1 hit
SMARTiView protein in SMART
SM00359 PUA, 1 hit
SUPFAMiSSF47592 SSF47592, 1 hit
SSF55159 SSF55159, 1 hit
SSF88697 SSF88697, 1 hit
PROSITEiView protein in PROSITE
PS50890 PUA, 1 hit
PS50296 SUI1, 1 hit

Sequences (2+)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 2 described isoforms and 4 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P41214-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MFAKAFRVKS NTAIKGSDRR KLRADVTTAF PTLGTDQVSE LVPGKEELNI
60 70 80 90 100
VKLYAHKGDA VTVYVSGGNP ILFELEKNLY PTVYTLWSYP DLLPTFTTWP
110 120 130 140 150
LVLEKLVGGA DLMLPGLVMP PAGLPQVQKG DLCAISLVGN RAPVAIGVAA
160 170 180 190 200
MSTAEMLTSG LKGRGFSVLH TYQDHLWRSG NKSSPPSIAP LALDSADLSE
210 220 230 240 250
EKGSVQMDST LQGDMRHMTL EGEEENGEVH QAREDKSLSE APEDTSTRGL
260 270 280 290 300
NQDSTDSKTL QEQMDELLQQ CFLHALKCRV KKADLPLLTS TFLGSHMFSC
310 320 330 340 350
CPEGRQLDIK KSSYKKLSKF LQQMQQEQII QVKELSKGVE SIVAVDWKHP
360 370 380 390 400
RITSFVIPEP SPTSQTIQEG SREQPYHPPD IKPLYCVPAS MTLLFQESGH
410 420 430 440 450
KKGSFLEGSE VRTIVINYAK KNDLVDADNK NLVRLDPILC DCILEKNEQH
460 470 480 490 500
TVMKLPWDSL LTRCLEKLQP AYQVTLPGQE PIVKKGRICP IDITLAQRAS
510 520 530 540 550
NKKVTVVRNL EAYGLDPYSV AAILQQRCQA STTVNPAPGA KDSLQVQIQG
560 570 580
NQVHHLGWLL LEEYQLPRKH IQGLEKALKP GKKK
Length:584
Mass (Da):64,706
Last modified:August 21, 2007 - v3
Checksum:iC302B63268231154
GO
Isoform 2 (identifier: P41214-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     177-300: Missing.

Show »
Length:460
Mass (Da):51,013
Checksum:i6ED8D2011C9ECB29
GO

Computationally mapped potential isoform sequencesi

There are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
Q5SY38Q5SY38_HUMAN
Eukaryotic translation initiation f...
EIF2D
270Annotation score:
A0A087WVB6A0A087WVB6_HUMAN
Eukaryotic translation initiation f...
EIF2D
66Annotation score:
A0A087X1L6A0A087X1L6_HUMAN
Eukaryotic translation initiation f...
EIF2D
62Annotation score:
A0A087X202A0A087X202_HUMAN
Eukaryotic translation initiation f...
EIF2D
73Annotation score:

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti11N → D in BAA91942 (PubMed:14702039).Curated1
Sequence conflicti66S → N in AAF34185 (PubMed:12097419).Curated1
Sequence conflicti66S → N in AAF74205 (PubMed:12097419).Curated1
Sequence conflicti210T → N in AAF34185 (PubMed:12097419).Curated1
Sequence conflicti304 – 308GRQLD → DDNWT in AAD41909 (PubMed:2482295).Curated5

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_052507210T → I. Corresponds to variant dbSNP:rs35252702Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_006300177 – 300Missing in isoform 2. 1 PublicationAdd BLAST124

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF220417 mRNA Translation: AAF34185.2
AF262403 mRNA Translation: AAF74205.1
AK001852 mRNA Translation: BAA91942.1
AL591846 Genomic DNA No translation available.
CH471100 Genomic DNA Translation: EAW93536.1
CH471100 Genomic DNA Translation: EAW93540.1
BC001585 mRNA Translation: AAH01585.1
BC039134 mRNA Translation: AAH39134.2
BC058905 mRNA Translation: AAH58905.1
AL162001 mRNA Translation: CAB82330.1
AF159586 mRNA Translation: AAD41909.1
CCDSiCCDS1465.1 [P41214-1]
CCDS55680.1 [P41214-2]
PIRiA60697
T47178
RefSeqiNP_001188407.1, NM_001201478.1 [P41214-2]
NP_008824.2, NM_006893.2 [P41214-1]
UniGeneiHs.497581

Genome annotation databases

EnsembliENST00000271764; ENSP00000271764; ENSG00000143486 [P41214-1]
ENST00000367114; ENSP00000356081; ENSG00000143486 [P41214-2]
GeneIDi1939
KEGGihsa:1939
UCSCiuc001heh.4 human [P41214-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF220417 mRNA Translation: AAF34185.2
AF262403 mRNA Translation: AAF74205.1
AK001852 mRNA Translation: BAA91942.1
AL591846 Genomic DNA No translation available.
CH471100 Genomic DNA Translation: EAW93536.1
CH471100 Genomic DNA Translation: EAW93540.1
BC001585 mRNA Translation: AAH01585.1
BC039134 mRNA Translation: AAH39134.2
BC058905 mRNA Translation: AAH58905.1
AL162001 mRNA Translation: CAB82330.1
AF159586 mRNA Translation: AAD41909.1
CCDSiCCDS1465.1 [P41214-1]
CCDS55680.1 [P41214-2]
PIRiA60697
T47178
RefSeqiNP_001188407.1, NM_001201478.1 [P41214-2]
NP_008824.2, NM_006893.2 [P41214-1]
UniGeneiHs.497581

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5OA3electron microscopy4.3001-584[»]
5OA9X-ray1.80A380-584[»]
5W2FX-ray1.40A380-584[»]
ProteinModelPortaliP41214
SMRiP41214
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi108259, 24 interactors
IntActiP41214, 1 interactor
MINTiP41214
STRINGi9606.ENSP00000271764

PTM databases

iPTMnetiP41214
PhosphoSitePlusiP41214

Polymorphism and mutation databases

BioMutaiEIF2D
DMDMi158957575

Proteomic databases

EPDiP41214
MaxQBiP41214
PaxDbiP41214
PeptideAtlasiP41214
PRIDEiP41214
ProteomicsDBi55417
55418 [P41214-2]

Protocols and materials databases

DNASUi1939
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000271764; ENSP00000271764; ENSG00000143486 [P41214-1]
ENST00000367114; ENSP00000356081; ENSG00000143486 [P41214-2]
GeneIDi1939
KEGGihsa:1939
UCSCiuc001heh.4 human [P41214-1]

Organism-specific databases

CTDi1939
EuPathDBiHostDB:ENSG00000143486.15
GeneCardsiEIF2D
HGNCiHGNC:6583 EIF2D
HPAiHPA028220
MIMi613709 gene
neXtProtiNX_P41214
OpenTargetsiENSG00000143486
PharmGKBiPA30355
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG2522 Eukaryota
ENOG410XSAV LUCA
GeneTreeiENSGT00550000074865
HOVERGENiHBG006268
InParanoidiP41214
KOiK15027
OMAiMFLKPYR
OrthoDBiEOG091G0DTH
PhylomeDBiP41214
TreeFamiTF105830

Miscellaneous databases

ChiTaRSiEIF2D human
GeneWikiiLGTN
GenomeRNAii1939
PROiPR:P41214
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000143486 Expressed in 219 organ(s), highest expression level in ectocervix
ExpressionAtlasiP41214 baseline and differential
GenevisibleiP41214 HS

Family and domain databases

CDDicd11608 eIF2D_C, 1 hit
Gene3Di2.30.130.10, 1 hit
InterProiView protein in InterPro
IPR039757 EIF2D
IPR039759 eIF2D_SUI1
IPR002478 PUA
IPR015947 PUA-like_sf
IPR036974 PUA_sf
IPR001950 SUI1
IPR036877 SUI1_dom_sf
IPR036885 SWIB_MDM2_dom_sf
PANTHERiPTHR12217 PTHR12217, 1 hit
PfamiView protein in Pfam
PF01253 SUI1, 1 hit
SMARTiView protein in SMART
SM00359 PUA, 1 hit
SUPFAMiSSF47592 SSF47592, 1 hit
SSF55159 SSF55159, 1 hit
SSF88697 SSF88697, 1 hit
PROSITEiView protein in PROSITE
PS50890 PUA, 1 hit
PS50296 SUI1, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiEIF2D_HUMAN
AccessioniPrimary (citable) accession number: P41214
Secondary accession number(s): Q5SY40
, Q8IXV3, Q96DG3, Q96TG7, Q9NR27, Q9NSN0, Q9NV18, Q9NZ21
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: August 21, 2007
Last modified: November 7, 2018
This is version 167 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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