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Q7ZVA6

- IF4A3_DANRE

UniProt

Q7ZVA6 - IF4A3_DANRE

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Protein

Eukaryotic initiation factor 4A-III

Gene
eif4a3, ddx48
Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at transcript leveli

Functioni

ATP-dependent RNA helicase. 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.

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi77 – 848ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. ATP-dependent helicase activity Source: InterPro
  3. RNA binding Source: UniProtKB-KW

GO - Biological processi

  1. mRNA processing Source: UniProtKB-KW
  2. mRNA transport Source: UniProtKB-KW
  3. nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Source: UniProtKB-KW
  4. regulation of alternative mRNA splicing, via spliceosome Source: UniProtKB
  5. regulation of translation Source: UniProtKB-KW
  6. RNA splicing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

mRNA processing, mRNA splicing, mRNA transport, Nonsense-mediated mRNA decay, Translation regulation, Transport

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Eukaryotic initiation factor 4A-III (EC:3.6.4.13)
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
ProteomesiUP000000437: Unplaced

Organism-specific databases

ZFINiZDB-GENE-040426-915. eif4a3.

Subcellular locationi

Nucleus By similarity. Nucleus speckle By similarity. Cytoplasm By similarity
Note: Nucleocytoplasmic shuttling protein. Travels to the cytoplasm as part of the exon junction complex (EJC) bound to mRNA By similarity.

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
  2. nuclear speck Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

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.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 406406Eukaryotic initiation factor 4A-IIIPRO_0000379480Add
BLAST

Proteomic databases

PRIDEiQ7ZVA6.

Interactioni

Subunit structurei

Part of the EJC core complex that contains casc3, eif4a3, magoh and rbm8a By similarity.

Protein-protein interaction databases

IntActiQ7ZVA6. 1 interaction.
MINTiMINT-8283544.
STRINGi7955.ENSDARP00000027276.

Structurei

3D structure databases

ProteinModelPortaliQ7ZVA6.
SMRiQ7ZVA6. Positions 33-406.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini64 – 234171Helicase ATP-bindingAdd
BLAST
Domaini245 – 406162Helicase C-terminalAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi33 – 6129Q motifAdd
BLAST
Motifi182 – 1854DEAD box

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0513.
HOGENOMiHOG000268797.
InParanoidiQ7ZVA6.
KOiK13025.
PhylomeDBiQ7ZVA6.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. DNA/RNA_helicase_DEAD/DEAH_N.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view]
PfamiPF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view]
SMARTiSM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view]
SUPFAMiSSF52540. SSF52540. 1 hit.
PROSITEiPS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q7ZVA6-1 [UniParc]FASTAAdd to Basket

« Hide

MATAVVPVRK RILKEEDMTK IEFETSEEVD VTPTFDTMGL REDLLRGIYA    50
YGFEKPSAIQ QRAIKQIIKG RDVIAQSQSG TGKTATFCVS VLQCLDIQVR 100
ETQALILAPT RELAGQIQKV LLALGDYMNV QCHACIGGTN VGEDIRKLDY 150
GQHVVAGTPG RVFDMIRRRS LRTRAIKMLV LDEADEMLNK GFKEQIYDVY 200
RYLPPATQVC LISATLPHEI LEMTNKFMTD PIRILVKRDE LTLEGIKQFF 250
VAVEREEWKF DTLCDLYDTL TITQAVIFCN TKRKVDWLTE KMREANFTVS 300
SMHGDMPQKE RESIMKEFRS GASRVLISTD VWARGLDVSQ VSLIINYDLP 350
NNRELYIHRI GRSGRYGRKG VAINFVKNDD IRILRDIEQY YSTQIDEMPM 400
NVADLI 406
Length:406
Mass (Da):46,468
Last modified:June 1, 2003 - v1
Checksum:i765707C2F2E60695
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BC045939 mRNA. Translation: AAH45939.1.
RefSeqiNP_957372.1. NM_201078.1.
UniGeneiDr.78203.

Genome annotation databases

GeneIDi394053.
KEGGidre:394053.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BC045939 mRNA. Translation: AAH45939.1 .
RefSeqi NP_957372.1. NM_201078.1.
UniGenei Dr.78203.

3D structure databases

ProteinModelPortali Q7ZVA6.
SMRi Q7ZVA6. Positions 33-406.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi Q7ZVA6. 1 interaction.
MINTi MINT-8283544.
STRINGi 7955.ENSDARP00000027276.

Proteomic databases

PRIDEi Q7ZVA6.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 394053.
KEGGi dre:394053.

Organism-specific databases

CTDi 9775.
ZFINi ZDB-GENE-040426-915. eif4a3.

Phylogenomic databases

eggNOGi COG0513.
HOGENOMi HOG000268797.
InParanoidi Q7ZVA6.
KOi K13025.
PhylomeDBi Q7ZVA6.

Miscellaneous databases

NextBioi 20815014.
PROi Q7ZVA6.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi IPR011545. DNA/RNA_helicase_DEAD/DEAH_N.
IPR014001. Helicase_ATP-bd.
IPR001650. Helicase_C.
IPR027417. P-loop_NTPase.
IPR000629. RNA-helicase_DEAD-box_CS.
IPR014014. RNA_helicase_DEAD_Q_motif.
[Graphical view ]
Pfami PF00270. DEAD. 1 hit.
PF00271. Helicase_C. 1 hit.
[Graphical view ]
SMARTi SM00487. DEXDc. 1 hit.
SM00490. HELICc. 1 hit.
[Graphical view ]
SUPFAMi SSF52540. SSF52540. 1 hit.
PROSITEi PS00039. DEAD_ATP_HELICASE. 1 hit.
PS51192. HELICASE_ATP_BIND_1. 1 hit.
PS51194. HELICASE_CTER. 1 hit.
PS51195. Q_MOTIF. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (JAN-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  2. Cited for: FUNCTION, DISRUPTION PHENOTYPE.

Entry informationi

Entry nameiIF4A3_DANRE
AccessioniPrimary (citable) accession number: Q7ZVA6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 7, 2009
Last sequence update: June 1, 2003
Last modified: September 3, 2014
This is version 80 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Translation initiation factors
    List of translation initiation factor entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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