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Protein

Eukaryotic initiation factor 4A-III

Gene

eif4a3

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

ATP-dependent RNA helicase. Involved in pre-mRNA splicing as component of the spliceosome. Core component of the splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junctions on mRNAs. The EJC is a dynamic structure consisting of core proteins and several peripheral nuclear and cytoplasmic associated factors that join the complex only transiently either during EJC assembly or during subsequent mRNA metabolism. The EJC marks the position of the exon-exon junction in the mature mRNA for the gene expression machinery and the core components remain bound to spliced mRNAs throughout all stages of mRNA metabolism thereby influencing downstream processes including nuclear mRNA export, subcellular mRNA localization, translation efficiency and nonsense-mediated mRNA decay (NMD). Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions (By similarity). Involved in craniofacial development (PubMed:24360810).By similarity1 Publication

Catalytic activityi

ATP + H2O = ADP + phosphate.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei55ATP; via carbonyl oxygenBy similarity1
Binding sitei60ATPBy similarity1
Binding sitei337ATPBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi77 – 84ATPPROSITE-ProRule annotation8
Nucleotide bindingi80 – 85ATPBy similarity6
Nucleotide bindingi362 – 366ATPBy similarity5

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionHelicase, Hydrolase, RNA-binding
Biological processmRNA processing, mRNA splicing, mRNA transport, Nonsense-mediated mRNA decay, Translation regulation, Transport
LigandATP-binding, Nucleotide-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Eukaryotic initiation factor 4A-III (EC:3.6.4.13By similarity)
Short name:
eIF-4A-III
Short name:
eIF4A-III
Alternative name(s):
ATP-dependent RNA helicase DDX48
ATP-dependent RNA helicase eIF4A-3
DEAD box protein 48
Eukaryotic translation initiation factor 4A isoform 3
Gene namesi
Name:eif4a3
Synonyms:ddx48
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Unplaced

Organism-specific databases

ZFINiZDB-GENE-040426-915 eif4a3

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, Nucleus, Spliceosome

Pathology & Biotechi

Disruption phenotypei

Morpholino EIF4A3 knockdown results in multiple defects in craniofacial structures. Fish morphants staged at 24 hpf show eyes reduced in size, and dark and opaque zones in all brain structures. In addition, the otic vesicle and the midbrain/hindbrain border regions are barely detectable. Cartilage and bone staining reveals underdevelopment of craniofacial cartilage, bone alterations, and clefting of the lower jaw. The third through sixth pharyngeal arches are underdeveloped in morphants.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003794801 – 406Eukaryotic initiation factor 4A-IIIAdd BLAST406

Proteomic databases

PaxDbiQ7ZVA6
PRIDEiQ7ZVA6

Interactioni

Subunit structurei

Identified in the spliceosome C complex. Part of the mRNA splicing-dependent exon junction complex (EJC) complex; the core complex contains casc3, eif4a3, magoh and rbm8a.By similarity

Protein-protein interaction databases

IntActiQ7ZVA6, 1 interactor
MINTiQ7ZVA6
STRINGi7955.ENSDARP00000027276

Structurei

3D structure databases

ProteinModelPortaliQ7ZVA6
SMRiQ7ZVA6
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini64 – 234Helicase ATP-bindingPROSITE-ProRule annotationAdd BLAST171
Domaini245 – 406Helicase C-terminalPROSITE-ProRule annotationAdd BLAST162

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi33 – 61Q motifAdd BLAST29
Motifi182 – 185DEAD boxCurated4

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG0327 Eukaryota
COG0513 LUCA
HOGENOMiHOG000268797
InParanoidiQ7ZVA6
KOiK13025
PhylomeDBiQ7ZVA6

Family and domain databases

CDDicd00079 HELICc, 1 hit
InterProiView protein in InterPro
IPR011545 DEAD/DEAH_box_helicase_dom
IPR014001 Helicase_ATP-bd
IPR001650 Helicase_C
IPR027417 P-loop_NTPase
IPR000629 RNA-helicase_DEAD-box_CS
IPR014014 RNA_helicase_DEAD_Q_motif
PfamiView protein in Pfam
PF00270 DEAD, 1 hit
PF00271 Helicase_C, 1 hit
SMARTiView protein in SMART
SM00487 DEXDc, 1 hit
SM00490 HELICc, 1 hit
SUPFAMiSSF52540 SSF52540, 1 hit
PROSITEiView protein in PROSITE
PS00039 DEAD_ATP_HELICASE, 1 hit
PS51192 HELICASE_ATP_BIND_1, 1 hit
PS51194 HELICASE_CTER, 1 hit
PS51195 Q_MOTIF, 1 hit

Sequencei

Sequence statusi: Complete.

Q7ZVA6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATAVVPVRK RILKEEDMTK IEFETSEEVD VTPTFDTMGL REDLLRGIYA
60 70 80 90 100
YGFEKPSAIQ QRAIKQIIKG RDVIAQSQSG TGKTATFCVS VLQCLDIQVR
110 120 130 140 150
ETQALILAPT RELAGQIQKV LLALGDYMNV QCHACIGGTN VGEDIRKLDY
160 170 180 190 200
GQHVVAGTPG RVFDMIRRRS LRTRAIKMLV LDEADEMLNK GFKEQIYDVY
210 220 230 240 250
RYLPPATQVC LISATLPHEI LEMTNKFMTD PIRILVKRDE LTLEGIKQFF
260 270 280 290 300
VAVEREEWKF DTLCDLYDTL TITQAVIFCN TKRKVDWLTE KMREANFTVS
310 320 330 340 350
SMHGDMPQKE RESIMKEFRS GASRVLISTD VWARGLDVSQ VSLIINYDLP
360 370 380 390 400
NNRELYIHRI GRSGRYGRKG VAINFVKNDD IRILRDIEQY YSTQIDEMPM

NVADLI
Length:406
Mass (Da):46,468
Last modified:June 1, 2003 - v1
Checksum:i765707C2F2E60695
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC045939 mRNA Translation: AAH45939.1
RefSeqiNP_957372.1, NM_201078.1
UniGeneiDr.78203

Genome annotation databases

GeneIDi394053
KEGGidre:394053

Similar proteinsi

Entry informationi

Entry nameiIF4A3_DANRE
AccessioniPrimary (citable) accession number: Q7ZVA6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 7, 2009
Last sequence update: June 1, 2003
Last modified: March 28, 2018
This is version 100 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health