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Protein

Nuclear RNA export factor 1

Gene

Nxf1

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

Functioni

Involved in the nuclear export of mRNA species bearing retroviral constitutive transport elements (CTE) and in the export of mRNA from the nucleus to the cytoplasm (TAP/NFX1 pathway). The NXF1-NXT1 heterodimer is involved in the export of HSP70 mRNA in conjunction with ALYREF/THOC4 and THOC5 components of the TREX complex. ALYREF/THOC4-bound mRNA is thought to be transferred to the NXF1-NXT1 heterodimer for export.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA transport, Transport

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Nuclear RNA export factor 1
Alternative name(s):
Tip-associated protein
Tip-associating protein
mRNA export factor TAP
Gene namesi
Name:Nxf1
Synonyms:Tap
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi62014. Nxf1.

Subcellular locationi

  • Nucleusnucleoplasm By similarity
  • Nucleus speckle By similarity
  • Cytoplasm By similarity
  • Nucleus By similarity

  • Note: Localized predominantly in the nucleoplasm and at both the nucleoplasmic and cytoplasmic faces of the nuclear pore complex. Shuttles between the nucleus and the cytoplasm. Travels to the cytoplasm as part of the exon junction complex (EJC) bound to mRNA. The association with the TREX complex seems to occur in regions surrounding nuclear speckles known as perispeckles. Nucleus; nuclear rim.By similarity

GO - Cellular componenti

  • cytoplasm Source: RGD
  • nuclear speck Source: UniProtKB
  • nucleus Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00002205312 – 618Nuclear RNA export factor 1Add BLAST617

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylalanineBy similarity1
Modified residuei41Asymmetric dimethylarginine; alternateBy similarity1
Modified residuei41Omega-N-methylarginine; alternateBy similarity1
Modified residuei125Nitrated tyrosineBy similarity1

Keywords - PTMi

Acetylation, Methylation, Nitration

Proteomic databases

PaxDbiO88984.
PRIDEiO88984.

PTM databases

iPTMnetiO88984.
PhosphoSitePlusiO88984.

Interactioni

Subunit structurei

Heterodimer with NXT1. The formation of NXF1-NXT1 heterodimers is required for the NXF1-mediated nuclear mRNA export. Found in a post-splicing complex with RBM8A, UPF1, UPF2, UPF3A, UPF3B and RNPS1. Interacts (via NTF2 domain) with NXT1. Interacts with ALYREF/THOC4. Interacts with FYTTD1/UIF. Interacts with EIF4A3. Interacts with NUPL2. Interacts with THOC5. Interacts with CHTOP. Interacts with FRG1 (via N-terminus). Interacts with LUZP4. Interacts with NXF1; the interaction occurs in a mRNA-dependent and polyribosomes-independent manner in the nucleus. Associates with the exon junction complex (EJC) and with the transcription/export (TREX) complex. Found in a mRNA complex with UPF3A and UPF3B.By similarity

Protein-protein interaction databases

BioGridi248722. 1 interactor.
STRINGi10116.ENSRNOP00000026033.

Structurei

3D structure databases

ProteinModelPortaliO88984.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini118 – 197RRMAdd BLAST80
Repeati265 – 290LRR 1Add BLAST26
Repeati291 – 314LRR 2Add BLAST24
Repeati315 – 342LRR 3Add BLAST28
Repeati343 – 370LRR 4Add BLAST28
Domaini385 – 535NTF2PROSITE-ProRule annotationAdd BLAST151
Domaini564 – 618TAP-CPROSITE-ProRule annotationAdd BLAST55

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni2 – 197Interaction with ALYREF/THOC4 and LUZP4By similarityAdd BLAST196
Regioni2 – 117RNA-binding (RBD)By similarityAdd BLAST116
Regioni2 – 59Minor non-specific RNA-bindingBy similarityAdd BLAST58
Regioni60 – 117Major non-specific RNA-bindingBy similarityAdd BLAST58
Regioni60 – 117RNA bindingBy similarityAdd BLAST58

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi66 – 99Nuclear localization signalBy similarityAdd BLAST34
Motifi82 – 109Nuclear export signalBy similarityAdd BLAST28

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi550 – 560Pro-richAdd BLAST11

Domaini

The minimal CTE binding domain consists of an RNP-type RNA binding domain (RBD) and leucine-rich repeats.By similarity
The nucleoporin binding domain consists of a NTF2 domain (also called NTF2-like domain) and a TAP-C domain (also called UBA-like domain). It has 2 nucleoporin-FG-repeats binding sites (one in the NTF2 and the other in the TAP-C domain) which contribute to nucleoporin association and act synergistically to export cellular mRNAs.By similarity
The NTF2 domain is functional only in the presence of NXT1 and is essential for the export of mRNA from the nucleus. It inhibits RNA binding activity through an intramolecular interaction with the N-terminal RNA binding domain (RBD); the inhibition is removed by an association with the TREX complex, specifically involving ALYREF/THOC4 and THOC5.By similarity
The TAP-C domain mediates direct interactions with nucleoporin-FG-repeats and is necessary and sufficient for localization of NXF1 to the nuclear rim. The conserved loop 594-NWD-596 of the TAP-C domain has a critical role in the interaction with nucleoporins.By similarity
The leucine-rich repeats are essential for the export of mRNA from the nucleus.By similarity
The RNA-binding domain is a non-canonical RNP-type domain.By similarity

Sequence similaritiesi

Belongs to the NXF family.Curated
Contains 4 LRR (leucine-rich) repeats.Curated
Contains 1 NTF2 domain.PROSITE-ProRule annotation
Contains 1 TAP-C domain.PROSITE-ProRule annotation

Keywords - Domaini

Leucine-rich repeat, Repeat

Phylogenomic databases

eggNOGiKOG3763. Eukaryota.
ENOG410XR55. LUCA.
HOGENOMiHOG000236269.
HOVERGENiHBG013199.
InParanoidiO88984.
KOiK14284.
PhylomeDBiO88984.

Family and domain databases

CDDicd00780. NTF2. 1 hit.
cd14342. UBA_TAP-C. 1 hit.
Gene3Di3.10.450.50. 1 hit.
3.30.70.330. 1 hit.
3.80.10.10. 1 hit.
InterProiIPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR002075. NTF2.
IPR032710. NTF2-like_dom.
IPR018222. Nuclear_transport_factor_2_euk.
IPR012677. Nucleotide-bd_a/b_plait.
IPR030217. NXF_fam.
IPR005637. TAP_C_dom.
IPR015245. Tap_RNA-bd.
IPR009060. UBA-like.
[Graphical view]
PANTHERiPTHR10662. PTHR10662. 1 hit.
PfamiPF02136. NTF2. 1 hit.
PF09162. Tap-RNA_bind. 1 hit.
PF03943. TAP_C. 1 hit.
[Graphical view]
ProDomiPD043466. Tap_RNA_bd. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00804. TAP_C. 1 hit.
[Graphical view]
SUPFAMiSSF46934. SSF46934. 1 hit.
SSF52058. SSF52058. 1 hit.
SSF54427. SSF54427. 1 hit.
SSF54928. SSF54928. 1 hit.
PROSITEiPS51450. LRR. 2 hits.
PS50177. NTF2_DOMAIN. 1 hit.
PS51281. TAP_C. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

O88984-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADEGKSYNE HDDRVSFPQR RKKGRGPFRW KCGVGNRRSG RGGSGIRSSR
60 70 80 90 100
FEEDDGDVAM NDPQDGPRVR FNPYTTRPNR RRDTWHDRDR IHVTVRRDRA
110 120 130 140 150
PQERGGAGTS QDGTTKNWFK ITIPYGKKYD KMWLLSMIQS KCSVPFNPIE
160 170 180 190 200
FHYENTRAHF FVENATTASA LKAVNYKIQD RENGRISIII NSSAPPYIVQ
210 220 230 240 250
NELKPEQVEQ LKLIMSKRYD GSQQALDLKG LRSDPDLVAQ NIDVVLNRRG
260 270 280 290 300
CMAAALRIIE ENIPELLSLN LSNNRLYKLD DMSSIVQKAP NLKILNLSGN
310 320 330 340 350
ELKSEWELDK IKGLKLEELW LDRNPMCDTF LDQSTYISTI RERFPKLLRL
360 370 380 390 400
DGHELPPPIA FDVEAPTMLP PCKGSYFGTE NLKSLVLHFL QQYYAIYDSG
410 420 430 440 450
DRQGLLDAYH DGACCSLSTP SNPQNPVRHN LAKYFNDSRN VKKIKDTTTR
460 470 480 490 500
FRLLKHTRLN VVAFLNELPK THHDVNSFVV DISAQTSTLL CFSVNGVFKE
510 520 530 540 550
VDGKSRDSLR AFTRTFIAVP ASNSGLCIVN DELFVRNASP EEIQRAFAMP
560 570 580 590 600
APTPSSSPVP TLSQEQQDML QAFSTQSGMN LEWSQKCLQD NNWDYTRSAQ
610
AFTHLKAKGE IPEVAFMK
Length:618
Mass (Da):70,362
Last modified:November 1, 1998 - v1
Checksum:iB1F1F9D92212820D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF093139 mRNA. Translation: AAC63367.1.
RefSeqiNP_067590.1. NM_021579.1.
UniGeneiRn.159847.

Genome annotation databases

GeneIDi59087.
KEGGirno:59087.
UCSCiRGD:62014. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF093139 mRNA. Translation: AAC63367.1.
RefSeqiNP_067590.1. NM_021579.1.
UniGeneiRn.159847.

3D structure databases

ProteinModelPortaliO88984.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi248722. 1 interactor.
STRINGi10116.ENSRNOP00000026033.

PTM databases

iPTMnetiO88984.
PhosphoSitePlusiO88984.

Proteomic databases

PaxDbiO88984.
PRIDEiO88984.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi59087.
KEGGirno:59087.
UCSCiRGD:62014. rat.

Organism-specific databases

CTDi10482.
RGDi62014. Nxf1.

Phylogenomic databases

eggNOGiKOG3763. Eukaryota.
ENOG410XR55. LUCA.
HOGENOMiHOG000236269.
HOVERGENiHBG013199.
InParanoidiO88984.
KOiK14284.
PhylomeDBiO88984.

Miscellaneous databases

PROiO88984.

Family and domain databases

CDDicd00780. NTF2. 1 hit.
cd14342. UBA_TAP-C. 1 hit.
Gene3Di3.10.450.50. 1 hit.
3.30.70.330. 1 hit.
3.80.10.10. 1 hit.
InterProiIPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR002075. NTF2.
IPR032710. NTF2-like_dom.
IPR018222. Nuclear_transport_factor_2_euk.
IPR012677. Nucleotide-bd_a/b_plait.
IPR030217. NXF_fam.
IPR005637. TAP_C_dom.
IPR015245. Tap_RNA-bd.
IPR009060. UBA-like.
[Graphical view]
PANTHERiPTHR10662. PTHR10662. 1 hit.
PfamiPF02136. NTF2. 1 hit.
PF09162. Tap-RNA_bind. 1 hit.
PF03943. TAP_C. 1 hit.
[Graphical view]
ProDomiPD043466. Tap_RNA_bd. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00804. TAP_C. 1 hit.
[Graphical view]
SUPFAMiSSF46934. SSF46934. 1 hit.
SSF52058. SSF52058. 1 hit.
SSF54427. SSF54427. 1 hit.
SSF54928. SSF54928. 1 hit.
PROSITEiPS51450. LRR. 2 hits.
PS50177. NTF2_DOMAIN. 1 hit.
PS51281. TAP_C. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNXF1_RAT
AccessioniPrimary (citable) accession number: O88984
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 2, 2002
Last sequence update: November 1, 1998
Last modified: November 2, 2016
This is version 131 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.