Home LiteratureArticle Details
PMID: 12520031 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

NESbase version 1.0: a database of nuclear export signals.

Nucleic acids research ·Vol. 31 ·No. 1 ·2003-01-01 ·Pages 393-6

la Cour T, Gupta R, Rapacki K, Skriver K, Poulsen FM, Brunak S

Abstract

Protein export from the nucleus is often mediated by a Leucine-rich Nuclear Export Signal (NES). NESbase is a database of experimentally validated Leucine-rich NESs curated from literature. These signals are not annotated in databases such as SWISS-PROT, PIR or PROSITE. Each NESbase entry contains information of whether NES was shown to be necessary and/or sufficient for export, and whether the export was shown to be mediated by the export receptor CRM1. The compiled information was used to make a sequence logo of the Leucine-rich NESs, displaying the conservation of amino acids within a window of 25 residues. Surprisingly, only 36% of the sequences used for the logo fit the widely accepted NES consensus L-x(2,3)-[LIVFM]-x(2,3)-L-x-[LI]. The database is available online at http://www.cbs.dtu.dk/databases/NESbase/.

MeSH Terms
Active Transport, Cell Nucleus Amino Acid Motifs Animals Conserved Sequence Databases, Protein Leucine/chemistry Proteins/chemistry,metabolism Sequence Alignment
Chemicals
Proteins Leucine
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
la Cour Tanja
Center for Biological Sequence Analysis, Building-208, Technical University of Denmark, DK-2800 Lyngby, Denmark.
Gupta Ramneek
Rapacki Kristoffer
Skriver Karen
Poulsen Flemming M
Brunak Søren
References (25)
25 references, click to expand
  1. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000.
    Nucleic Acids Res. 2000 Jan 1;28(1):45-8 PMID: 10592178
  2. CRM1 is responsible for intracellular transport mediated by the nuclear export signal.
    Nature. 1997 Nov 20;390(6657):308-11 PMID: 9384386
  3. Transport of proteins and RNAs in and out of the nucleus.
    Cell. 1999 Dec 23;99(7):677-90 PMID: 10619422
  4. Nuclear export of proteins in plants: AtXPO1 is the export receptor for leucine-rich nuclear export signals in Arabidopsis thaliana.
    Plant J. 1999 Dec;20(6):695-705 PMID: 10652141
  5. Calreticulin Is a receptor for nuclear export.
    J Cell Biol. 2001 Jan 8;152(1):127-40 PMID: 11149926
  6. Nucleocytoplasmic transport: the soluble phase.
    Annu Rev Biochem. 1998;67:265-306 PMID: 9759490
  7. The ins and outs of HIV Rev.
    Arch Biochem Biophys. 1999 May 15;365(2):186-91 PMID: 10328811
  8. The NES-Crm1p export pathway is not a major mRNA export route in Saccharomyces cerevisiae.
    EMBO J. 1999 Jul 1;18(13):3746-56 PMID: 10393189
  9. Finding nuclear localization signals.
    EMBO Rep. 2000 Nov;1(5):411-5 PMID: 11258480
  10. The nuclear pore complex as a transport machine.
    J Biol Chem. 2001 May 18;276(20):16593-6 PMID: 11283009
  11. The rules and roles of nucleocytoplasmic shuttling proteins.
    FEBS Lett. 2001 Jun 8;498(2-3):157-63 PMID: 11412848
  12. Protein export from the nucleus.
    Traffic. 2001 Oct;2(10):684-9 PMID: 11576444
  13. Nucleocytoplasmic transport: Ran, beta and beyond.
    Trends Cell Biol. 2001 Dec;11(12):497-503 PMID: 11719056
  14. The Protein Information Resource: an integrated public resource of functional annotation of proteins.
    Nucleic Acids Res. 2002 Jan 1;30(1):35-7 PMID: 11752247
  15. Sequence logos: a new way to display consensus sequences.
    Nucleic Acids Res. 1990 Oct 25;18(20):6097-100 PMID: 2172928
  16. Nuclear targeting sequences--a consensus?
    Trends Biochem Sci. 1991 Dec;16(12):478-81 PMID: 1664152
  17. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.
    Nucleic Acids Res. 1994 Nov 11;22(22):4673-80 PMID: 7984417
  18. Identification of a signal for rapid export of proteins from the nucleus.
    Cell. 1995 Aug 11;82(3):463-73 PMID: 7634336
  19. The HIV-1 Rev activation domain is a nuclear export signal that accesses an export pathway used by specific cellular RNAs.
    Cell. 1995 Aug 11;82(3):475-83 PMID: 7543368
  20. Protein sequence requirements for function of the human T-cell leukemia virus type 1 Rex nuclear export signal delineated by a novel in vivo randomization-selection assay.
    Mol Cell Biol. 1996 Aug;16(8):4207-14 PMID: 8754820
  21. Evidence for a role of CRM1 in signal-mediated nuclear protein export.
    Science. 1997 Oct 3;278(5335):141-4 PMID: 9311922
  22. Exportin 1 (Crm1p) is an essential nuclear export factor.
    Cell. 1997 Sep 19;90(6):1041-50 PMID: 9323132
  23. CRM1 is an export receptor for leucine-rich nuclear export signals.
    Cell. 1997 Sep 19;90(6):1051-60 PMID: 9323133
  24. The importin-beta family member Crm1p bridges the interaction between Rev and the nuclear pore complex during nuclear export.
    Curr Biol. 1997 Oct 1;7(10):767-75 PMID: 9368759
  25. Transport between the cell nucleus and the cytoplasm.
    Annu Rev Cell Dev Biol. 1999;15:607-60 PMID: 10611974
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkg101
Published
2003-01-01
Pages
393-6
Language
English
Region
England
NLM ID
0411011
PMCID
PMC165548
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/gkg101 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2