Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.

Q3B8Q2

- IF4A3_RAT

UniProt

Q3B8Q2 - IF4A3_RAT

(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Protein

Eukaryotic initiation factor 4A-III

Gene

Eif4a3

Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein 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). Its RNA-dependent ATPase and RNA-helicase activities are induced by CASC3, but abolished in presence of the MAGOH-RBM8A heterodimer, thereby trapping the ATP-bound EJC core onto spliced mRNA in a stable conformation. The inhibition of ATPase activity by the MAGOH-RBM8A heterodimer increases the RNA-binding affinity of the EJC. Involved in translational enhancement of spliced mRNAs after formation of the 80S ribosome complex. Binds spliced mRNA in sequence-independent manner, 20-24 nucleotides upstream of mRNA exon-exon junctions. Shows higher affinity for single-stranded RNA in an ATP-bound core EJC complex than after the ATP is hydrolyzed. Involved in the splicing modulation of BCL2L1/Bcl-X (and probably other apoptotic genes); specifically inhibits formation of proapoptotic isoforms; the function is different from the established EJC assembly (By similarity). Involved in craniofacial development (By similarity).By similarity

Catalytic activityi

ATP + H2O = ADP + phosphate.

Enzyme regulationi

The ATPase activity is increased some 4-fold in the presence of RNA.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei60 – 601ATP; via carbonyl oxygenBy similarity
Binding sitei65 – 651ATPBy similarity
Binding sitei342 – 3421ATPBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi85 – 906ATPPROSITE-ProRule annotation
Nucleotide bindingi367 – 3715ATPPROSITE-ProRule annotation

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. ATP-dependent RNA helicase activity Source: Ensembl
  3. mRNA binding Source: Ensembl
  4. poly(A) binding Source: Ensembl

GO - Biological processi

  1. embryonic cranial skeleton morphogenesis Source: UniProtKB
  2. mRNA processing Source: UniProtKB-KW
  3. mRNA transport Source: UniProtKB-KW
  4. negative regulation of translation Source: Ensembl
  5. nuclear-transcribed mRNA catabolic process, nonsense-mediated decay Source: UniProtKB-KW
  6. positive regulation of translation Source: Ensembl
  7. regulation of alternative mRNA splicing, via spliceosome Source: UniProtKB
  8. RNA splicing Source: UniProtKB-KW
  9. rRNA processing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

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

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding

Enzyme and pathway databases

ReactomeiREACT_198999. ISG15 antiviral mechanism.

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
Cleaved into the following chain:
Gene namesi
Name:Eif4a3
Synonyms:Ddx48
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Chromosome 10

Organism-specific databases

RGDi1591139. Eif4a3.

Subcellular locationi

Nucleus 1 Publication. Nucleus speckle By similarity. Cytoplasm 1 Publication
Note: Nucleocytoplasmic shuttling protein. Travels to the cytoplasm as part of the exon junction complex (EJC) bound to mRNA (By similarity). Detected in dendritic layer as well as the nuclear and cytoplasmic (somatic) compartments of neurons. Colocalizes with STAU1 and FMR1 in dendrites.By similarity

GO - Cellular componenti

  1. catalytic step 2 spliceosome Source: Ensembl
  2. cytoplasm Source: UniProtKB-KW
  3. exon-exon junction complex Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 411411Eukaryotic initiation factor 4A-IIIPRO_0000378555Add
BLAST
Initiator methioninei1 – 11Removed; alternateBy similarity
Chaini2 – 411410Eukaryotic initiation factor 4A-III, N-terminally processedPRO_0000423271Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei2 – 21N-acetylalanine; in Eukaryotic initiation factor 4A-III, N-terminally processedBy similarity
Modified residuei12 – 121PhosphoserineBy similarity
Modified residuei163 – 1631PhosphothreonineBy similarity
Modified residuei296 – 2961N6-acetyllysineBy similarity
Modified residuei321 – 3211N6-acetyllysineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PRIDEiQ3B8Q2.

Expressioni

Tissue specificityi

Expressed in the CA1 field and dentate gyrus of the hippocampus (at protein level).

Gene expression databases

GenevestigatoriQ3B8Q2.

Interactioni

Subunit structurei

Part of the mRNA splicing-dependent exon junction complex (EJC) complex; the core complex contains CASC3, EIF4A3, MAGOH and RBM8A. Interacts with CASC3, MAGOH, NXF1, RBM8A and ALYREF/THOC4. Identified in the spliceosome C complex. May interact with NOM1. Interacts with POLDIP3. Interacts with CWC22 and PRPF19 in an RNA-independent manner. Direct interaction with CWC22 is mediated by the helicase C-terminal domain. Full interaction with CWC22 occurs only when EIF4A3 is not part of the EJC and prevents EIF4A3 binding to RNA (By similarity).By similarity

Structurei

3D structure databases

ProteinModelPortaliQ3B8Q2.
SMRiQ3B8Q2. Positions 21-411.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini69 – 239171Helicase ATP-bindingPROSITE-ProRule annotationAdd
BLAST
Domaini250 – 411162Helicase C-terminalPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi38 – 6629Q motifAdd
BLAST
Motifi187 – 1904DEAD box

Sequence similaritiesi

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

Phylogenomic databases

GeneTreeiENSGT00530000062880.
InParanoidiQ3B8Q2.
KOiK13025.
OMAiHANIQAH.
OrthoDBiEOG7XPZ5M.
PhylomeDBiQ3B8Q2.

Family and domain databases

Gene3Di3.40.50.300. 2 hits.
InterProiIPR011545. 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.
[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.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q3B8Q2-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAATATMATS GSARKRLLKE EDMTKVEFET SEEVDVTPTF DTMGLREDLL
60 70 80 90 100
RGIYAYGFEK PSAIQQRAIK QIIKGRDVIA QSQSGTGKTA TFSISVLQCL
110 120 130 140 150
DIQVRETQAL ILAPTRELAV QIQKGLLALG DYMNVQCHAC IGGTNVGEDI
160 170 180 190 200
RKLDYGQHVV AGTPGRVFDM IRRRSLRTRA IKMLVLDEAD EMLNKGFKEQ
210 220 230 240 250
IYDVYRYLPP ATQVVLISAT LPHEILEMTN KFMTDPIRIL VKRDELTLEG
260 270 280 290 300
IKQFFVAVER EEWKFDTLCD LYDTLTITQA VIFCNTKRKV DWLTEKMREA
310 320 330 340 350
NFTVSSMHGD MPQKERESIM KEFRSGASRV LISTDVWARG LDVPQVSLII
360 370 380 390 400
NYDLPNNREL YIHRIGRSGR YGRKGVAINF VKNDDIRILR DIEQYYSTQI
410
DEMPMNVADL I
Length:411
Mass (Da):46,841
Last modified:November 22, 2005 - v1
Checksum:i987DAF10824DEC4D
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BC105875 mRNA. Translation: AAI05876.1.
CH473948 Genomic DNA. Translation: EDM06783.1.
RefSeqiNP_001093628.1. NM_001100158.2.
UniGeneiRn.202617.

Genome annotation databases

EnsembliENSRNOT00000073140; ENSRNOP00000066302; ENSRNOG00000045791.
GeneIDi688288.
KEGGirno:688288.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BC105875 mRNA. Translation: AAI05876.1 .
CH473948 Genomic DNA. Translation: EDM06783.1 .
RefSeqi NP_001093628.1. NM_001100158.2.
UniGenei Rn.202617.

3D structure databases

ProteinModelPortali Q3B8Q2.
SMRi Q3B8Q2. Positions 21-411.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi Q3B8Q2.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSRNOT00000073140 ; ENSRNOP00000066302 ; ENSRNOG00000045791 .
GeneIDi 688288.
KEGGi rno:688288.

Organism-specific databases

CTDi 9775.
RGDi 1591139. Eif4a3.

Phylogenomic databases

GeneTreei ENSGT00530000062880.
InParanoidi Q3B8Q2.
KOi K13025.
OMAi HANIQAH.
OrthoDBi EOG7XPZ5M.
PhylomeDBi Q3B8Q2.

Enzyme and pathway databases

Reactomei REACT_198999. ISG15 antiviral mechanism.

Miscellaneous databases

NextBioi 736113.
PROi Q3B8Q2.

Gene expression databases

Genevestigatori Q3B8Q2.

Family and domain databases

Gene3Di 3.40.50.300. 2 hits.
InterProi 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.
[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. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Brown Norway.
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Kidney.
  3. "The EJC factor eIF4AIII modulates synaptic strength and neuronal protein expression."
    Giorgi C., Yeo G.W., Stone M.E., Katz D.B., Burge C., Turrigiano G., Moore M.J.
    Cell 130:179-191(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.

Entry informationi

Entry nameiIF4A3_RAT
AccessioniPrimary (citable) accession number: Q3B8Q2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 7, 2009
Last sequence update: November 22, 2005
Last modified: October 29, 2014
This is version 66 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