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Protein

Nuclear RNA export factor 1

Gene

Nxf1

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

  • mRNA binding Source: MGI
  • nucleocytoplasmic transporter activity Source: MGI
  • nucleotide binding Source: InterPro
  • poly(A) RNA binding Source: MGI
  • RNA binding Source: MGI
  • single-stranded RNA binding Source: MGI

GO - Biological processi

  • mRNA export from nucleus Source: MGI
  • poly(A)+ mRNA export from nucleus Source: MGI
  • RNA export from nucleus Source: MGI
Complete GO annotation...

Keywords - Biological processi

mRNA transport, Transport

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-MMU-159236. Transport of Mature mRNA derived from an Intron-Containing Transcript.

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
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 19

Organism-specific databases

MGIiMGI:1858330. 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: UniProtKB-SubCell
  • nuclear inclusion body Source: MGI
  • nuclear pore Source: MGI
  • nuclear speck Source: UniProtKB
  • nucleus Source: MGI
  • transcription export complex Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedBy similarity
Chaini2 – 618617Nuclear RNA export factor 1PRO_0000220530Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineBy similarity
Modified residuei125 – 1251Nitrated tyrosineCombined sources

Keywords - PTMi

Acetylation, Nitration

Proteomic databases

EPDiQ99JX7.
MaxQBiQ99JX7.
PaxDbiQ99JX7.
PRIDEiQ99JX7.

PTM databases

iPTMnetiQ99JX7.
PhosphoSiteiQ99JX7.

Expressioni

Tissue specificityi

Expressed ubiquitously.

Gene expression databases

BgeeiQ99JX7.
ExpressionAtlasiQ99JX7. baseline and differential.
GenevisibleiQ99JX7. MM.

Interactioni

Subunit structurei

Heterodimer with NXT1. Interacts (via NTF2 domain) with NXT1. The formation of NXF1-NXT1 heterodimers is required for the NXF1-mediated nuclear mRNA export. Interacts with NXT2, E1B-AP5, RAE1, ALYREF/THOC4, FYTTD1/UIF, EIF4A3, NUPL2 and THOC5 and with several nucleoporins. Associates with the exon junction complex (EJC). Found in a mRNA complex with RENT3A and RENT3B. Interacts with FRG1 (via N-terminus). Interacts with LUZP4 (By similarity).By similarity2 Publications

Protein-protein interaction databases

BioGridi207282. 9 interactions.
IntActiQ99JX7. 1 interaction.
MINTiMINT-4104532.
STRINGi10090.ENSMUSP00000010241.

Structurei

3D structure databases

ProteinModelPortaliQ99JX7.
SMRiQ99JX7. Positions 117-548, 551-618.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini118 – 19780RRMAdd
BLAST
Repeati265 – 29026LRR 1Add
BLAST
Repeati291 – 31424LRR 2Add
BLAST
Repeati315 – 34228LRR 3Add
BLAST
Repeati343 – 37028LRR 4Add
BLAST
Domaini385 – 535151NTF2PROSITE-ProRule annotationAdd
BLAST
Domaini564 – 61855TAP-CPROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni2 – 197196Interaction with ALYREF/THOC4 and LUZP4By similarityAdd
BLAST
Regioni2 – 117116RNA-binding (RBD)By similarityAdd
BLAST
Regioni2 – 5958Minor non-specific RNA-bindingBy similarityAdd
BLAST
Regioni60 – 11758Major non-specific RNA-bindingBy similarityAdd
BLAST
Regioni60 – 11758RNA bindingBy similarityAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi66 – 9934Nuclear localization signalBy similarityAdd
BLAST
Motifi82 – 10928Nuclear export signalBy similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi550 – 56011Pro-richAdd
BLAST

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.
GeneTreeiENSGT00390000007539.
HOGENOMiHOG000236269.
HOVERGENiHBG013199.
InParanoidiQ99JX7.
OMAiYAVYDSG.
OrthoDBiEOG7QZGB9.
TreeFamiTF314566.

Family and domain databases

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. 3 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.

Q99JX7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADEGKSYNE HDDRVSFPQR RKKGRGPFRW KCGEGNRRSG RGGSGVQSSR
60 70 80 90 100
FEEDDGDVAM NDPQDGPRVR YNPYTNRPNR RGDGWHDRDR IHITVRRDRA
110 120 130 140 150
PAERGGAGTS QDGTTKNWFK ITIPYGRKYD KTWLLSMIQS KCSVPFNPIE
160 170 180 190 200
FHYENTRAHF FVEDATTASA LKGVNHKIQD RENRRISIII NASAPPYTVQ
210 220 230 240 250
NELKPEQIEQ LKLIMSKRYD GNQQALDLKG LRSDPDLVAQ NIDVVLNRRS
260 270 280 290 300
CMAATLRIIE ENIPELLSLN LSSNRLYKLD DMSSIVQKAP NLKTLNLSGN
310 320 330 340 350
ELKTERELDK IKGLKLEELW LDRNPMCDNF GDQSSYISAI RERFPKLLRL
360 370 380 390 400
DGHELPPPIS FDVEAPTMLP PCKGSYFGTE NLKSLVLRFL QQYYVIYDSG
410 420 430 440 450
DRQGLLYAYH DGACCSLSIP YNPQNPVRKN LAEYVKDSRN VKKLKEPTQR
460 470 480 490 500
FRLLKHTRLN VVAFLNELPK TQHDVNAFVV DISAQTSTLL CFSVNGVFKE
510 520 530 540 550
VDGKSRDSLR AFTRTFIAVP ASNSGLCIVN DELFVRNASP EEIQRAFAMS
560 570 580 590 600
APTPSSSPVP TLSPEQQEML QAFSTQSGMN LEWSQKCLQD NNWDYTRSAQ
610
AFTLLKAKGE IPEVAFMK
Length:618
Mass (Da):70,300
Last modified:July 27, 2011 - v3
Checksum:i0556EF8553B4055F
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti79 – 791N → D in AAC63368 (Ref. 1) Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF093140 mRNA. Translation: AAC63368.1.
AK133883 mRNA. Translation: BAE21911.1.
AK167518 mRNA. Translation: BAE39590.1.
CH466612 Genomic DNA. Translation: EDL33363.1.
BC005594 mRNA. Translation: AAH05594.1.
CCDSiCCDS29543.1.
RefSeqiNP_058093.2. NM_016813.2.
UniGeneiMm.7271.

Genome annotation databases

EnsembliENSMUST00000010241; ENSMUSP00000010241; ENSMUSG00000010097.
GeneIDi53319.
UCSCiuc008gmr.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF093140 mRNA. Translation: AAC63368.1.
AK133883 mRNA. Translation: BAE21911.1.
AK167518 mRNA. Translation: BAE39590.1.
CH466612 Genomic DNA. Translation: EDL33363.1.
BC005594 mRNA. Translation: AAH05594.1.
CCDSiCCDS29543.1.
RefSeqiNP_058093.2. NM_016813.2.
UniGeneiMm.7271.

3D structure databases

ProteinModelPortaliQ99JX7.
SMRiQ99JX7. Positions 117-548, 551-618.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi207282. 9 interactions.
IntActiQ99JX7. 1 interaction.
MINTiMINT-4104532.
STRINGi10090.ENSMUSP00000010241.

PTM databases

iPTMnetiQ99JX7.
PhosphoSiteiQ99JX7.

Proteomic databases

EPDiQ99JX7.
MaxQBiQ99JX7.
PaxDbiQ99JX7.
PRIDEiQ99JX7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000010241; ENSMUSP00000010241; ENSMUSG00000010097.
GeneIDi53319.
UCSCiuc008gmr.1. mouse.

Organism-specific databases

CTDi10482.
MGIiMGI:1858330. Nxf1.

Phylogenomic databases

eggNOGiKOG3763. Eukaryota.
ENOG410XR55. LUCA.
GeneTreeiENSGT00390000007539.
HOGENOMiHOG000236269.
HOVERGENiHBG013199.
InParanoidiQ99JX7.
OMAiYAVYDSG.
OrthoDBiEOG7QZGB9.
TreeFamiTF314566.

Enzyme and pathway databases

ReactomeiR-MMU-159236. Transport of Mature mRNA derived from an Intron-Containing Transcript.

Miscellaneous databases

ChiTaRSiNxf1. mouse.
NextBioi310117.
PROiQ99JX7.
SOURCEiSearch...

Gene expression databases

BgeeiQ99JX7.
ExpressionAtlasiQ99JX7. baseline and differential.
GenevisibleiQ99JX7. MM.

Family and domain databases

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. 3 hits.
PS50177. NTF2_DOMAIN. 1 hit.
PS51281. TAP_C. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Tannoch V.J., Cormier-Regard S., Claycomb W.C.
    Submitted (SEP-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Heart ventricle.
  2. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Liver.
  3. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  5. "REF, an evolutionarily conserved family of hnRNP-like proteins, interacts with TAP/Mex67p and participates in mRNA nuclear export."
    Stutz F., Bachi A., Doerks T., Braun I.C., Seraphin B., Wilm M., Bork P., Izaurralde E.
    RNA 6:638-650(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ALYREF/THOC4 AND REFBP2.
  6. "The exon junction complex is detected on CBP80-bound but not eIF4E-bound mRNA in mammalian cells: dynamics of mRNP remodeling."
    Lejeune F., Ishigaki Y., Li X., Maquat L.E.
    EMBO J. 21:3536-3545(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH THE EXON JUNCTION COMPLEX.
  7. Cited for: NITRATION [LARGE SCALE ANALYSIS] AT TYR-125, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain.
  8. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver, Lung, Pancreas, Spleen and Testis.

Entry informationi

Entry nameiNXF1_MOUSE
AccessioniPrimary (citable) accession number: Q99JX7
Secondary accession number(s): O88985, Q3TJA5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 27, 2002
Last sequence update: July 27, 2011
Last modified: May 11, 2016
This is version 152 of the entry and version 3 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. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.