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Protein

RNA-binding protein 8A

Gene

rbm8a

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 3 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) (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

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

ReactomeiR-DRE-159236. Transport of Mature mRNA derived from an Intron-Containing Transcript.
R-DRE-72163. mRNA Splicing - Major Pathway.
R-DRE-72187. mRNA 3'-end processing.
R-DRE-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

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
ORF Names:zgc:110525
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 16

Organism-specific databases

ZFINiZDB-GENE-050306-51. rbm8a.

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

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 174174RNA-binding protein 8APRO_0000378564Add
BLAST

Proteomic databases

PaxDbiQ5D018.
PRIDEiQ5D018.

Expressioni

Gene expression databases

BgeeiQ5D018.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi7955.ENSDARP00000026575.

Structurei

3D structure databases

ProteinModelPortaliQ5D018.
SMRiQ5D018. Positions 12-155.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

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

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiKOG0130. Eukaryota.
ENOG4111IHM. LUCA.
GeneTreeiENSGT00730000111185.
HOGENOMiHOG000183826.
InParanoidiQ5D018.
KOiK12876.
OMAiISVDWGF.
OrthoDBiEOG7C5MB6.
PhylomeDBiQ5D018.
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]
PANTHERiPTHR23139:SF72. PTHR23139:SF72. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
PRINTSiPR01738. RNABINDINGM8.
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q5D018-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADVLDLHEA GGEDFPMDED GDESIHKLKE KAKKRKGRGF GSEEGARSRV
60 70 80 90 100
REDYDTVEQD GDEPGPQRSV EGWILFVTGV HEEATEEDVH DKFAEFGEIK
110 120 130 140 150
NLHLNLDRRT GYLKGYALVE YETYKEAQAA MEGLNGQELM GQPISVDWCF
160 170
VRGPPKSKRR GGRRRSRSPD RRRR
Length:174
Mass (Da):19,881
Last modified:March 29, 2005 - v1
Checksum:iA6FD972B472D25A7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC090261 mRNA. Translation: AAH90261.1.
RefSeqiNP_001013363.1. NM_001013345.1.
UniGeneiDr.76821.

Genome annotation databases

EnsembliENSDART00000018253; ENSDARP00000026575; ENSDARG00000016516.
GeneIDi503767.
KEGGidre:503767.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC090261 mRNA. Translation: AAH90261.1.
RefSeqiNP_001013363.1. NM_001013345.1.
UniGeneiDr.76821.

3D structure databases

ProteinModelPortaliQ5D018.
SMRiQ5D018. Positions 12-155.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000026575.

Proteomic databases

PaxDbiQ5D018.
PRIDEiQ5D018.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000018253; ENSDARP00000026575; ENSDARG00000016516.
GeneIDi503767.
KEGGidre:503767.

Organism-specific databases

CTDi9939.
ZFINiZDB-GENE-050306-51. rbm8a.

Phylogenomic databases

eggNOGiKOG0130. Eukaryota.
ENOG4111IHM. LUCA.
GeneTreeiENSGT00730000111185.
HOGENOMiHOG000183826.
InParanoidiQ5D018.
KOiK12876.
OMAiISVDWGF.
OrthoDBiEOG7C5MB6.
PhylomeDBiQ5D018.
TreeFamiTF314933.

Enzyme and pathway databases

ReactomeiR-DRE-159236. Transport of Mature mRNA derived from an Intron-Containing Transcript.
R-DRE-72163. mRNA Splicing - Major Pathway.
R-DRE-72187. mRNA 3'-end processing.
R-DRE-975957. Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC).

Miscellaneous databases

PROiQ5D018.

Gene expression databases

BgeeiQ5D018.

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]
PANTHERiPTHR23139:SF72. PTHR23139:SF72. 1 hit.
PfamiPF00076. RRM_1. 1 hit.
[Graphical view]
PRINTSiPR01738. RNABINDINGM8.
SMARTiSM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (FEB-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Embryo.

Entry informationi

Entry nameiRBM8A_DANRE
AccessioniPrimary (citable) accession number: Q5D018
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 7, 2009
Last sequence update: March 29, 2005
Last modified: June 8, 2016
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. SIMILARITY comments
    Index of protein domains and families

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 one 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.