P38919 · IF4A3_HUMAN
- ProteinEukaryotic initiation factor 4A-III
- GeneEIF4A3
- StatusUniProtKB reviewed (Swiss-Prot)
- Organism
- Amino acids411 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score5/5
Function
function
ATP-dependent RNA helicase (PubMed:16170325).
Involved in pre-mRNA splicing as component of the spliceosome (PubMed:11991638, PubMed:22961380, PubMed:28076346, PubMed:28502770, PubMed:29301961).
Core component of the splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junctions on mRNAs (PubMed:16170325, PubMed:16209946, PubMed:16314458, PubMed:16923391, PubMed:16931718, PubMed:19033377, PubMed:20479275).
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 such as Bcl-X(S); the function is different from the established EJC assembly (PubMed:22203037).
Involved in craniofacial development (PubMed:24360810).
Involved in pre-mRNA splicing as component of the spliceosome (PubMed:11991638, PubMed:22961380, PubMed:28076346, PubMed:28502770, PubMed:29301961).
Core component of the splicing-dependent multiprotein exon junction complex (EJC) deposited at splice junctions on mRNAs (PubMed:16170325, PubMed:16209946, PubMed:16314458, PubMed:16923391, PubMed:16931718, PubMed:19033377, PubMed:20479275).
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 such as Bcl-X(S); the function is different from the established EJC assembly (PubMed:22203037).
Involved in craniofacial development (PubMed:24360810).
Catalytic activity
- ATP + H2O = ADP + H+ + phosphate
Activity regulation
The ATPase activity is increased some 4-fold in the presence of RNA.
Features
Showing features for binding site.
GO annotations
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Protein family/group databases
Regulation of rRNA processing. Regulation of the translational output.
Names & Taxonomy
Protein names
- Recommended nameEukaryotic initiation factor 4A-III
- EC number
- Short nameseIF-4A-III; eIF4A-III
- Alternative names
- Cleaved into 1 chains
Gene names
Organism names
- Organism
- Taxonomic lineageEukaryota > Metazoa > Chordata > Craniata > Vertebrata > Euteleostomi > Mammalia > Eutheria > Euarchontoglires > Primates > Haplorrhini > Catarrhini > Hominidae > Homo
Accessions
- Primary accessionP38919
- Secondary accessions
Proteomes
Organism-specific databases
Subcellular Location
UniProt Annotation
GO Annotation
Note: Nucleocytoplasmic shuttling protein. Travels to the cytoplasm as part of the exon junction complex (EJC) bound to mRNA. Detected in dendritic layer as well as the nuclear and cytoplasmic (somatic) compartments of neurons. Colocalizes with STAU1 and FMR1 in dendrites (By similarity).
Keywords
- Cellular component
Disease & Variants
Involvement in disease
Richieri-Costa-Pereira syndrome (RCPS)
- Note
- DescriptionA syndrome characterized by a unique pattern of anomalies consisting of microstomia, micrognathia, abnormal fusion of mandible, cleft palate/Robin sequence, absence of central lower incisors, minor ears anomalies, hypoplastic first ray, abnormal tibiae, hypoplastic halluces, and clubfeet. Learning disability is also a common finding.
- See alsoMIM:268305
Natural variants in RCPS
Variant ID | Position(s) | Change | Description | |
---|---|---|---|---|
VAR_071090 | 270 | D>G | in RCPS; dbSNP:rs587777204 |
Features
Showing features for mutagenesis, natural variant.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Mutagenesis | 88 | ATPase activity is not increased by the presence of CASC3. Does not prevent EJC formation. Prevents the EJC disassembly. | ||||
Sequence: K → A | ||||||
Mutagenesis | 99 | No effect on interaction with CWC22. | ||||
Sequence: C → Q | ||||||
Natural variant | VAR_071090 | 270 | in RCPS; dbSNP:rs587777204 | |||
Sequence: D → G | ||||||
Mutagenesis | 270 | Loss of CWC22-binding and loss of incorporation into EJCs; when associated with K-273. | ||||
Sequence: D → K | ||||||
Mutagenesis | 273 | Loss of CWC22-binding and loss of incorporation into EJCs; when associated with K-270. | ||||
Sequence: D → K | ||||||
Mutagenesis | 276-277 | Loss of CWC22-binding and loss of incorporation into EJCs. | ||||
Sequence: TI → GD | ||||||
Mutagenesis | 300-301 | Decreased interaction with CWC22. | ||||
Sequence: AN → RD | ||||||
Mutagenesis | 301-303 | Loss of CWC22-binding and loss of incorporation into EJCs. | ||||
Sequence: NFT → LAG | ||||||
Mutagenesis | 334 | Reduced incorporation into EJCs. | ||||
Sequence: T → V | ||||||
Mutagenesis | 401 | Loss of incorporation into EJCs; when associated with R-402. | ||||
Sequence: D → K | ||||||
Mutagenesis | 402 | Loss of incorporation into EJCs; when associated with K-401. | ||||
Sequence: E → R |
Variants
We now provide the "Disease & Variants" viewer in its own tab.
The viewer provides 217 variants from UniProt as well as other sources including ClinVar and dbSNP.
Keywords
- Disease
Organism-specific databases
Miscellaneous
Chemistry
Genetic variation databases
PTM/Processing
Features
Showing features for initiator methionine, modified residue, chain, modified residue (large scale data), cross-link.
Type | ID | Position(s) | Source | Description | |||
---|---|---|---|---|---|---|---|
Initiator methionine | 1 | UniProt | Removed; alternate | ||||
Sequence: M | |||||||
Modified residue | 1 | UniProt | N-acetylmethionine | ||||
Sequence: M | |||||||
Chain | PRO_0000423267 | 1-411 | UniProt | Eukaryotic initiation factor 4A-III | |||
Sequence: MATTATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI | |||||||
Modified residue | 2 | UniProt | N-acetylalanine; in Eukaryotic initiation factor 4A-III, N-terminally processed | ||||
Sequence: A | |||||||
Chain | PRO_0000054942 | 2-411 | UniProt | Eukaryotic initiation factor 4A-III, N-terminally processed | |||
Sequence: ATTATMATSGSARKRLLKEEDMTKVEFETSEEVDVTPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI | |||||||
Modified residue (large scale data) | 9 | PRIDE | Phosphothreonine | ||||
Sequence: T | |||||||
Modified residue | 10 | UniProt | Phosphoserine | ||||
Sequence: S | |||||||
Modified residue (large scale data) | 10 | PRIDE | Phosphoserine | ||||
Sequence: S | |||||||
Modified residue | 12 | UniProt | Phosphoserine | ||||
Sequence: S | |||||||
Modified residue (large scale data) | 12 | PRIDE | Phosphoserine | ||||
Sequence: S | |||||||
Cross-link | 19 | UniProt | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) | ||||
Sequence: K | |||||||
Modified residue (large scale data) | 54 | PRIDE | Phosphotyrosine | ||||
Sequence: Y | |||||||
Modified residue (large scale data) | 56 | PRIDE | Phosphotyrosine | ||||
Sequence: Y | |||||||
Modified residue (large scale data) | 62 | PRIDE | Phosphoserine | ||||
Sequence: S | |||||||
Modified residue (large scale data) | 84 | PRIDE | Phosphoserine | ||||
Sequence: S | |||||||
Modified residue | 124 | UniProt | N6-acetyllysine | ||||
Sequence: K | |||||||
Cross-link | 152 | UniProt | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) | ||||
Sequence: K | |||||||
Modified residue | 163 | UniProt | Phosphothreonine | ||||
Sequence: T | |||||||
Modified residue (large scale data) | 163 | PRIDE | Phosphothreonine | ||||
Sequence: T | |||||||
Modified residue | 198 | UniProt | N6-acetyllysine | ||||
Sequence: K | |||||||
Modified residue (large scale data) | 202 | PRIDE | Phosphotyrosine | ||||
Sequence: Y | |||||||
Modified residue | 296 | UniProt | N6-acetyllysine | ||||
Sequence: K | |||||||
Cross-link | 314 | UniProt | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) | ||||
Sequence: K | |||||||
Modified residue | 321 | UniProt | N6-acetyllysine | ||||
Sequence: K | |||||||
Cross-link | 374 | UniProt | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) | ||||
Sequence: K | |||||||
Cross-link | 382 | UniProt | Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2) | ||||
Sequence: K |
Keywords
- PTM
Proteomic databases
2D gel databases
PTM databases
Expression
Tissue specificity
Ubiquitously expressed.
Gene expression databases
Organism-specific databases
Interaction
Subunit
Identified in the spliceosome C complex (PubMed:11991638, PubMed:22961380, PubMed:28076346, PubMed:28502770, PubMed:29301961).
Core component of the mRNA splicing-dependent exon junction complex (EJC); the core complex contains CASC3, EIF4A3, MAGOH or MAGOHB, and RBM8A (PubMed:14730019, PubMed:15034551, PubMed:16170325, PubMed:16314458, PubMed:16923391, PubMed:16931718, PubMed:19033377, PubMed:20479275, PubMed:23917022).
Interacts with CASC3, MAGOH, NXF1, RBM8A and ALYREF/THOC4 (PubMed:14730019, PubMed:16170325, PubMed:16495234, PubMed:22961380).
Component of the ALYREF/THOC4-EJC-RNA complex; in the complex interacts with MAGOH, RBM8A and THOC4 (via the WXHD motif); these interactions are likely specific to RNA-bound EJC (PubMed:14730019, PubMed:16314458, PubMed:37020021).
May interact with NOM1. Interacts with POLDIP3 (PubMed:18423201).
Interacts with CWC22 and PRPF19 in an RNA-independent manner (PubMed:22959432, PubMed:22961380, PubMed:23236153, PubMed:24218557).
Direct interaction with CWC22 is mediated by the helicase C-terminal domain (PubMed:22959432, PubMed:24218557).
Full interaction with CWC22 occurs only when EIF4A3 is not part of the EJC and prevents EIF4A3 binding to RNA. Identified in a complex composed of the EJC core, UPF3B and UPF2. The EJC core can also interact with UPF3A (in vitro) (PubMed:20479275).
Interacts with NCBP3 (PubMed:26382858).
Interacts with NRDE2 (PubMed:30538148).
Interacts with DHX34; the interaction is RNA-independent (PubMed:25220460).
Core component of the mRNA splicing-dependent exon junction complex (EJC); the core complex contains CASC3, EIF4A3, MAGOH or MAGOHB, and RBM8A (PubMed:14730019, PubMed:15034551, PubMed:16170325, PubMed:16314458, PubMed:16923391, PubMed:16931718, PubMed:19033377, PubMed:20479275, PubMed:23917022).
Interacts with CASC3, MAGOH, NXF1, RBM8A and ALYREF/THOC4 (PubMed:14730019, PubMed:16170325, PubMed:16495234, PubMed:22961380).
Component of the ALYREF/THOC4-EJC-RNA complex; in the complex interacts with MAGOH, RBM8A and THOC4 (via the WXHD motif); these interactions are likely specific to RNA-bound EJC (PubMed:14730019, PubMed:16314458, PubMed:37020021).
May interact with NOM1. Interacts with POLDIP3 (PubMed:18423201).
Interacts with CWC22 and PRPF19 in an RNA-independent manner (PubMed:22959432, PubMed:22961380, PubMed:23236153, PubMed:24218557).
Direct interaction with CWC22 is mediated by the helicase C-terminal domain (PubMed:22959432, PubMed:24218557).
Full interaction with CWC22 occurs only when EIF4A3 is not part of the EJC and prevents EIF4A3 binding to RNA. Identified in a complex composed of the EJC core, UPF3B and UPF2. The EJC core can also interact with UPF3A (in vitro) (PubMed:20479275).
Interacts with NCBP3 (PubMed:26382858).
Interacts with NRDE2 (PubMed:30538148).
Interacts with DHX34; the interaction is RNA-independent (PubMed:25220460).
Binary interactions
Protein-protein interaction databases
Chemistry
Miscellaneous
Structure
Family & Domains
Features
Showing features for motif, domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Motif | 38-66 | Q motif | ||||
Sequence: PTFDTMGLREDLLRGIYAYGFEKPSAIQQ | ||||||
Domain | 69-239 | Helicase ATP-binding | ||||
Sequence: IKQIIKGRDVIAQSQSGTGKTATFSISVLQCLDIQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKLDYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLISATLPHEILEMTNKFMTDPIRI | ||||||
Motif | 187-190 | DEAD box | ||||
Sequence: DEAD | ||||||
Domain | 250-411 | Helicase C-terminal | ||||
Sequence: GIKQFFVAVEREEWKFDTLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDIEQYYSTQIDEMPMNVADLI |
Sequence similarities
Belongs to the DEAD box helicase family. eIF4A subfamily.
Phylogenomic databases
Family and domain databases
Sequence
- Sequence statusComplete
- Length411
- Mass (Da)46,871
- Last updated2007-01-23 v4
- Checksum3A21888CA96CA5EA
Computationally mapped potential isoform sequences
There is 1 potential isoform mapped to this entry
Entry | Entry name | Gene name | Length | ||
---|---|---|---|---|---|
I3L3H2 | I3L3H2_HUMAN | EIF4A3 | 390 |
Sequence caution
Features
Showing features for sequence conflict.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Sequence conflict | 210 | in Ref. 1; CAA56074 | ||||
Sequence: P → S | ||||||
Sequence conflict | 370 | in Ref. 1; CAA56074 | ||||
Sequence: R → Q |
Keywords
- Technical term
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
X79538 EMBL· GenBank· DDBJ | CAA56074.1 EMBL· GenBank· DDBJ | mRNA | ||
D21853 EMBL· GenBank· DDBJ | BAA04879.2 EMBL· GenBank· DDBJ | mRNA | Different initiation | |
AK290608 EMBL· GenBank· DDBJ | BAF83297.1 EMBL· GenBank· DDBJ | mRNA | ||
CR456750 EMBL· GenBank· DDBJ | CAG33031.1 EMBL· GenBank· DDBJ | mRNA | ||
AC087741 EMBL· GenBank· DDBJ | - | Genomic DNA | No translation available. | |
CH471099 EMBL· GenBank· DDBJ | EAW89584.1 EMBL· GenBank· DDBJ | Genomic DNA | ||
BC003662 EMBL· GenBank· DDBJ | AAH03662.1 EMBL· GenBank· DDBJ | mRNA | ||
BC004386 EMBL· GenBank· DDBJ | AAH04386.1 EMBL· GenBank· DDBJ | mRNA | ||
BC011151 EMBL· GenBank· DDBJ | AAH11151.1 EMBL· GenBank· DDBJ | mRNA |