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Protein

Aly/REF export factor 2

Gene

Alyref2

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Export adapter involved in spliced and unspliced mRNA nuclear export. Binds mRNA which is transferred to the NXF1-NXT1 heterodimer for export (TAP/NFX1 pathway); enhances NXF1-NXT1 RNA-binding activity.3 Publications

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • RNA binding Source: MGI
  • single-stranded DNA binding Source: MGI

GO - Biological processi

  • mRNA processing Source: UniProtKB-KW
  • mRNA transport Source: UniProtKB
  • RNA splicing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chaperone

Keywords - Biological processi

mRNA processing, mRNA splicing, mRNA transport, Transport

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Aly/REF export factor 2
Alternative name(s):
Alyref
RNA and export factor-binding protein 2
Gene namesi
Name:Alyref2
Synonyms:Ref2, Refbp2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:1913144. Alyref2.

Subcellular locationi

  • Nucleus By similarity
  • Cytoplasm By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi24R → E: Impairs interaction with NXF1. 1 Publication1
Mutagenesisi29R → E: Abolishes interaction with NXF1; when associated with E-30. 1 Publication1
Mutagenesisi30R → E: Abolishes interaction with NXF1; when associated with E-29. 1 Publication1
Mutagenesisi32R → E: Impairs interaction with NXF1. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000819761 – 218Aly/REF export factor 2Add BLAST218

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei24Asymmetric dimethylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei24Omega-N-methylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei32Asymmetric dimethylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei32Omega-N-methylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei37Asymmetric dimethylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei37Omega-N-methylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei40Asymmetric dimethylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei40Omega-N-methylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei166Asymmetric dimethylarginine; by PRMT1; in vitro1 Publication1
Modified residuei171Asymmetric dimethylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei171Omega-N-methylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei173Asymmetric dimethylarginine; by PRMT1; in vitro1 Publication1
Modified residuei181Asymmetric dimethylarginine; by PRMT1; in vitro1 Publication1
Modified residuei186Asymmetric dimethylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei186Omega-N-methylarginine; alternate; by PRMT1; in vitro1 Publication1
Modified residuei188Asymmetric dimethylarginine; by PRMT1; in vitro1 Publication1

Post-translational modificationi

Arginine methylation reduces RNA binding and enhances mRNA transfer to the NXF1-NXT1 heterodimer for nuclear export.1 Publication

Keywords - PTMi

Methylation

Proteomic databases

PaxDbiQ9JJW6.
PeptideAtlasiQ9JJW6.
PRIDEiQ9JJW6.
TopDownProteomicsiQ9JJW6-1. [Q9JJW6-1]

PTM databases

iPTMnetiQ9JJW6.
PhosphoSitePlusiQ9JJW6.

Expressioni

Gene expression databases

CleanExiMM_REFBP2.

Interactioni

Subunit structurei

Interacts (via N-terminus and RRM domain) with DDX39B and th NXF1-NXT1 heterodimer. Interacts with HHV-1 ICP27 and HVS ORF57 proteins.5 Publications

Protein-protein interaction databases

IntActiQ9JJW6. 2 interactors.
MINTiMINT-4132115.
STRINGi10090.ENSMUSP00000080242.

Structurei

Secondary structure

1218
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi4 – 6Combined sources3
Helixi9 – 17Combined sources9
Beta strandi23 – 25Combined sources3
Beta strandi28 – 32Combined sources5
Turni36 – 38Combined sources3
Turni41 – 43Combined sources3
Beta strandi46 – 48Combined sources3
Beta strandi59 – 61Combined sources3
Beta strandi75 – 80Combined sources6
Helixi88 – 97Combined sources10
Beta strandi102 – 106Combined sources5
Beta strandi110 – 113Combined sources4
Beta strandi118 – 123Combined sources6
Helixi125 – 134Combined sources10
Beta strandi141 – 144Combined sources4
Beta strandi146 – 152Combined sources7
Helixi153 – 155Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2F3JNMR-A1-155[»]
2KT5NMR-A53-155[»]
2YKANMR-A53-155[»]
ProteinModelPortaliQ9JJW6.
SMRiQ9JJW6.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9JJW6.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini75 – 152RRMPROSITE-ProRule annotationAdd BLAST78

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni16 – 37Sufficient for RNA-binding, interaction with NXF1-NXT1Add BLAST22
Regioni54 – 155Interaction with HHV-8 ORF57 protein and with ICP27 from HHV-1Add BLAST102

Domaini

The RRM domain and the N-terminal region (15-58) seem to be involved in RNA binding.1 Publication

Sequence similaritiesi

Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0533. Eukaryota.
ENOG4111JAW. LUCA.
HOGENOMiHOG000239962.
HOVERGENiHBG054806.
InParanoidiQ9JJW6.
KOiK12881.
PhylomeDBiQ9JJW6.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR025715. FoP_C.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF13865. FoP_duplication. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM01218. FoP_duplication. 1 hit.
SM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9JJW6-1) [UniParc]FASTAAdd to basket
Also known as: Refbp2-I

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MADKMDMSLD DIIKLNRNQR RVNRGGGPRR NRPAIARGGR NRPAPYSRPK
60 70 80 90 100
PLPDKWQHDL FDSGCGGGEG VETGAKLLVS NLDFGVSDAD IQELFAEFGT
110 120 130 140 150
LKKAAVDYDR SGRSLGTADV HFERRADALK AMKQYKGVPL DGRPMDIQLV
160 170 180 190 200
ASQIDPQRRP AQSGNRGGMT RSRGSGGFGG RGSQGRGRGT GRNSKQQQLS
210
AEELDAQLDA YNARMDTS
Length:218
Mass (Da):23,730
Last modified:October 1, 2000 - v1
Checksum:i977901CECDCF18FC
GO
Isoform 2 (identifier: Q9JJW6-2) [UniParc]FASTAAdd to basket
Also known as: Refbp2-II

The sequence of this isoform differs from the canonical sequence as follows:
     198-198: Missing.

Show »
Length:217
Mass (Da):23,602
Checksum:i4622274B18AA50C2
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti151A → T in BAC33282 (PubMed:16141072).Curated1
Sequence conflicti200S → F in BAC33282 (PubMed:16141072).Curated1
Sequence conflicti215M → R in BAC33282 (PubMed:16141072).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_008598198Missing in isoform 2. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ252141 mRNA. Translation: CAB76384.1.
AK048243 mRNA. Translation: BAC33282.1.
CCDSiCCDS15497.1. [Q9JJW6-1]
RefSeqiNP_062357.3. NM_019484.4.
UniGeneiMm.389208.

Genome annotation databases

GeneIDi56009.
KEGGimmu:56009.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ252141 mRNA. Translation: CAB76384.1.
AK048243 mRNA. Translation: BAC33282.1.
CCDSiCCDS15497.1. [Q9JJW6-1]
RefSeqiNP_062357.3. NM_019484.4.
UniGeneiMm.389208.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2F3JNMR-A1-155[»]
2KT5NMR-A53-155[»]
2YKANMR-A53-155[»]
ProteinModelPortaliQ9JJW6.
SMRiQ9JJW6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ9JJW6. 2 interactors.
MINTiMINT-4132115.
STRINGi10090.ENSMUSP00000080242.

PTM databases

iPTMnetiQ9JJW6.
PhosphoSitePlusiQ9JJW6.

Proteomic databases

PaxDbiQ9JJW6.
PeptideAtlasiQ9JJW6.
PRIDEiQ9JJW6.
TopDownProteomicsiQ9JJW6-1. [Q9JJW6-1]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi56009.
KEGGimmu:56009.

Organism-specific databases

CTDi56009.
MGIiMGI:1913144. Alyref2.

Phylogenomic databases

eggNOGiKOG0533. Eukaryota.
ENOG4111JAW. LUCA.
HOGENOMiHOG000239962.
HOVERGENiHBG054806.
InParanoidiQ9JJW6.
KOiK12881.
PhylomeDBiQ9JJW6.

Miscellaneous databases

EvolutionaryTraceiQ9JJW6.
PROiQ9JJW6.
SOURCEiSearch...

Gene expression databases

CleanExiMM_REFBP2.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
InterProiIPR025715. FoP_C.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
[Graphical view]
PfamiPF13865. FoP_duplication. 1 hit.
PF00076. RRM_1. 1 hit.
[Graphical view]
SMARTiSM01218. FoP_duplication. 1 hit.
SM00360. RRM. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
PROSITEiPS50102. RRM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiALRF2_MOUSE
AccessioniPrimary (citable) accession number: Q9JJW6
Secondary accession number(s): Q8C869
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 10, 2003
Last sequence update: October 1, 2000
Last modified: November 2, 2016
This is version 115 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. 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.