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Protein

RNA-binding protein 8A

Gene

Rbm8a

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

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). The MAGOH-RBM8A heterodimer inhibits the ATPase activity of EIF4A3, thereby trapping the ATP-bound EJC core onto spliced mRNA in a stable conformation. The MAGOH-RBM8A heterodimer interacts with the EJC key regulator WIBG/PYM leading to EJC disassembly in the cytoplasm and translation enhancement of EJC-bearing spliced mRNAs by recruiting them to the ribosomal 48S preinitiation complex. Its removal from cytoplasmic mRNAs requires translation initiation from EJC-bearing spliced mRNAs. Associates preferentially with mRNAs produced by splicing. Does not interact with pre-mRNAs, introns, or mRNAs produced from intronless cDNAs. Associates with both nuclear mRNAs and newly exported cytoplasmic mRNAs. The MAGOH-RBM8A heterodimer is a component of the nonsense mediated decay (NMD) pathway. 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).By similarity

GO - Molecular functioni

  1. nucleotide binding Source: InterPro
  2. poly(A) RNA binding Source: Ensembl

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 - Biological processi

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

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiREACT_291960. Transport of Mature mRNA derived from an Intron-Containing Transcript.
REACT_320469. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
REACT_353271. mRNA Splicing - Major Pathway.
REACT_353746. mRNA 3'-end processing.
REACT_354493. Cleavage of Growing Transcript in the Termination Region.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA-binding protein 8A
Alternative name(s):
RNA-binding motif protein 8A
Ribonucleoprotein RBM8A
Gene namesi
Name:Rbm8a
Synonyms:Rbm8
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494 Componenti: Chromosome 2

Organism-specific databases

RGDi1310099. Rbm8a.

Subcellular locationi

  1. Nucleus By similarity
  2. Nucleus speckle By similarity
  3. Cytoplasm By similarity

  4. Note: Nucleocytoplasmic shuttling protein. Travels to the cytoplasm as part of the exon junction complex (EJC) bound to mRNA. Colocalizes with the core EJC, ALYREF/THOC4, NXF1 and UAP56 in the nucleus and nuclear speckles (By similarity).By similarity

GO - Cellular componenti

  1. catalytic step 2 spliceosome Source: Ensembl
  2. cytoplasm Source: UniProtKB-SubCell
  3. exon-exon junction complex Source: Ensembl
  4. nuclear speck Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 174173RNA-binding protein 8APRO_0000378563Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineBy similarity
Modified residuei24 – 241PhosphoserineBy similarity
Modified residuei42 – 421PhosphoserineBy similarity
Modified residuei56 – 561PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ27W01.
PRIDEiQ27W01.

PTM databases

PhosphoSiteiQ27W01.

Expressioni

Gene expression databases

GenevestigatoriQ27W01.

Interactioni

Subunit structurei

Heterodimer with RBM8A. Part of the mRNA splicing-dependent exon junction complex (EJC) complex; the core complex contains CASC3, EIF4A3, MAGOH and RBM8A. Interacts with WIBG/PYM; the interaction is direct and dissociates the EJC from spliced mRNAs. Found in a post-splicing complex with NXF1, RBM8A, UPF1, UPF2, UPF3A, UPF3B and RNPS1. Interacts with BAT1, MAGOH, OVCA1, UPF3B, RNPS1, SRRM1 and ALYREF/THOC4. Interacts with IPO13; the interaction mediates the nuclear import of the MAGOH-RBM8A heterodimer. Identified in the spliceosome C complex. Associates with polysomes (By similarity).By similarity

Protein-protein interaction databases

BioGridi254951. 1 interaction.
STRINGi10116.ENSRNOP00000028807.

Structurei

3D structure databases

ProteinModelPortaliQ27W01.
SMRiQ27W01. Positions 12-155.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini73 – 15179RRMPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi171 – 1744Poly-Arg

Sequence similaritiesi

Belongs to the RBM8A family.Curated
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0724.
GeneTreeiENSGT00730000111185.
HOGENOMiHOG000183826.
InParanoidiQ27W01.
KOiK12876.
OMAiYDTVEQD.
OrthoDBiEOG7C5MB6.
PhylomeDBiQ27W01.
TreeFamiTF314933.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR008111. RNA-bd_8.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
PRINTSiPR01738. RNABINDINGM8.
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q27W01-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADVLDLHEA GGEDFAMDED GDESIHKLKE KAKKRKGRGF GSEEGSRARM
60 70 80 90 100
REDYDSVEQD GDEPGPQRSV EGWILFVTGV HEEATEEDIH DKFAEYGEIK
110 120 130 140 150
NIHLNLDRRT GYLKGYTLVE YETYKEAQAA MEGLNGQDLM GQPISVDWCF
160 170
VRGPPKGKRR GGRRRSRSPD RRRR
Length:174
Mass (Da):19,889
Last modified:April 4, 2006 - v1
Checksum:i70BBD03CDDFEECFE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ359102 mRNA. Translation: ABD46661.1.
RefSeqiNP_001258067.1. NM_001271138.1.
UniGeneiRn.37716.

Genome annotation databases

EnsembliENSRNOT00000028807; ENSRNOP00000028807; ENSRNOG00000021215.
GeneIDi295284.
KEGGirno:295284.
UCSCiRGD:1310099. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
DQ359102 mRNA. Translation: ABD46661.1.
RefSeqiNP_001258067.1. NM_001271138.1.
UniGeneiRn.37716.

3D structure databases

ProteinModelPortaliQ27W01.
SMRiQ27W01. Positions 12-155.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi254951. 1 interaction.
STRINGi10116.ENSRNOP00000028807.

PTM databases

PhosphoSiteiQ27W01.

Proteomic databases

PaxDbiQ27W01.
PRIDEiQ27W01.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000028807; ENSRNOP00000028807; ENSRNOG00000021215.
GeneIDi295284.
KEGGirno:295284.
UCSCiRGD:1310099. rat.

Organism-specific databases

CTDi9939.
RGDi1310099. Rbm8a.

Phylogenomic databases

eggNOGiCOG0724.
GeneTreeiENSGT00730000111185.
HOGENOMiHOG000183826.
InParanoidiQ27W01.
KOiK12876.
OMAiYDTVEQD.
OrthoDBiEOG7C5MB6.
PhylomeDBiQ27W01.
TreeFamiTF314933.

Enzyme and pathway databases

ReactomeiREACT_291960. Transport of Mature mRNA derived from an Intron-Containing Transcript.
REACT_320469. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).
REACT_353271. mRNA Splicing - Major Pathway.
REACT_353746. mRNA 3'-end processing.
REACT_354493. Cleavage of Growing Transcript in the Termination Region.

Miscellaneous databases

NextBioi639304.
PROiQ27W01.

Gene expression databases

GenevestigatoriQ27W01.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR012677. Nucleotide-bd_a/b_plait.
IPR008111. RNA-bd_8.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
PRINTSiPR01738. RNABINDINGM8.
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: Sprague-Dawley.
    Tissue: Hippocampus.

Entry informationi

Entry nameiRBM8A_RAT
AccessioniPrimary (citable) accession number: Q27W01
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 7, 2009
Last sequence update: April 4, 2006
Last modified: April 1, 2015
This is version 70 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. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.