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Q7ZVA6

- IF4A3_DANRE

UniProt

Q7ZVA6 - IF4A3_DANRE

Protein

Eukaryotic initiation factor 4A-III

Gene

eif4a3

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 81 (01 Oct 2014)
      Sequence version 1 (01 Jun 2003)
      Previous versions | rss
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    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.By similarity1 Publication

    Catalytic activityi

    ATP + H2O = ADP + phosphate.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi77 – 848ATPPROSITE-ProRule annotation

    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

    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.By similarity

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell
    2. nuclear speck Source: UniProtKB-SubCell

    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.1 Publication

    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.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini64 – 234171Helicase ATP-bindingPROSITE-ProRule annotationAdd
    BLAST
    Domaini245 – 406162Helicase C-terminalPROSITE-ProRule annotationAdd
    BLAST

    Motif

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

    Sequence similaritiesi

    Contains 1 helicase ATP-binding domain.PROSITE-ProRule annotation
    Contains 1 helicase C-terminal domain.PROSITE-ProRule annotation

    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

    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: October 1, 2014
    This is version 81 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