Literature DB >> 22465017

The UniProtKB/Swiss-Prot Tox-Prot program: A central hub of integrated venom protein data.

Florence Jungo1, Lydie Bougueleret, Ioannis Xenarios, Sylvain Poux.   

Abstract

Animal toxins are of interest to a wide range of scientists, due to their numerous applications in pharmacology, neurology, hematology, medicine, and drug research. This, and to a lesser extent the development of new performing tools in transcriptomics and proteomics, has led to an increase in toxin discovery. In this context, providing publicly available data on animal toxins has become essential. The UniProtKB/Swiss-Prot Tox-Prot program (http://www.uniprot.org/program/Toxins) plays a crucial role by providing such an access to venom protein sequences and functions from all venomous species. This program has up to now curated more than 5000 venom proteins to the high-quality standards of UniProtKB/Swiss-Prot (release 2012_02). Proteins targeted by these toxins are also available in the knowledgebase. This paper describes in details the type of information provided by UniProtKB/Swiss-Prot for toxins, as well as the structured format of the knowledgebase.
Copyright © 2012 Elsevier Ltd. All rights reserved.

Entities:  

Mesh:

Substances:

Year:  2012        PMID: 22465017      PMCID: PMC3393831          DOI: 10.1016/j.toxicon.2012.03.010

Source DB:  PubMed          Journal:  Toxicon        ISSN: 0041-0101            Impact factor:   3.033


  33 in total

1.  A unified nomenclature for short-chain peptides isolated from scorpion venoms: alpha-KTx molecular subfamilies.

Authors:  J Tytgat; K G Chandy; M L Garcia; G A Gutman; M F Martin-Eauclaire; J J van der Walt; L D Possani
Journal:  Trends Pharmacol Sci       Date:  1999-11       Impact factor: 14.819

2.  ATDB 2.0: A database integrated toxin-ion channel interaction data.

Authors:  Quanze He; Wenjun Han; Quanyuan He; Linju Huo; Jingjing Zhang; Yong Lin; Ping Chen; Songping Liang
Journal:  Toxicon       Date:  2010-09-15       Impact factor: 3.033

Review 3.  Arrangements in the modular evolution of proteins.

Authors:  Andrew D Moore; Asa K Björklund; Diana Ekman; Erich Bornberg-Bauer; Arne Elofsson
Journal:  Trends Biochem Sci       Date:  2008-07-24       Impact factor: 13.807

4.  The PSI-MOD community standard for representation of protein modification data.

Authors:  Luisa Montecchi-Palazzi; Ron Beavis; Pierre-Alain Binz; Robert J Chalkley; John Cottrell; David Creasy; Jim Shofstahl; Sean L Seymour; John S Garavelli
Journal:  Nat Biotechnol       Date:  2008-08       Impact factor: 54.908

5.  PDBsum new things.

Authors:  Roman A Laskowski
Journal:  Nucleic Acids Res       Date:  2008-11-07       Impact factor: 16.971

6.  Infrastructure for the life sciences: design and implementation of the UniProt website.

Authors:  Eric Jain; Amos Bairoch; Severine Duvaud; Isabelle Phan; Nicole Redaschi; Baris E Suzek; Maria J Martin; Peter McGarvey; Elisabeth Gasteiger
Journal:  BMC Bioinformatics       Date:  2009-05-08       Impact factor: 3.169

7.  genenames.org: the HGNC resources in 2011.

Authors:  Ruth L Seal; Susan M Gordon; Michael J Lush; Mathew W Wright; Elspeth A Bruford
Journal:  Nucleic Acids Res       Date:  2010-10-06       Impact factor: 16.971

8.  ArachnoServer 2.0, an updated online resource for spider toxin sequences and structures.

Authors:  Volker Herzig; David L A Wood; Felicity Newell; Pierre-Alain Chaumeil; Quentin Kaas; Greta J Binford; Graham M Nicholson; Dominique Gorse; Glenn F King
Journal:  Nucleic Acids Res       Date:  2010-10-29       Impact factor: 16.971

9.  The Protein Model Portal.

Authors:  Konstantin Arnold; Florian Kiefer; Jürgen Kopp; James N D Battey; Michael Podvinec; John D Westbrook; Helen M Berman; Lorenza Bordoli; Torsten Schwede
Journal:  J Struct Funct Genomics       Date:  2008-11-27

10.  InterPro: the integrative protein signature database.

Authors:  Sarah Hunter; Rolf Apweiler; Teresa K Attwood; Amos Bairoch; Alex Bateman; David Binns; Peer Bork; Ujjwal Das; Louise Daugherty; Lauranne Duquenne; Robert D Finn; Julian Gough; Daniel Haft; Nicolas Hulo; Daniel Kahn; Elizabeth Kelly; Aurélie Laugraud; Ivica Letunic; David Lonsdale; Rodrigo Lopez; Martin Madera; John Maslen; Craig McAnulla; Jennifer McDowall; Jaina Mistry; Alex Mitchell; Nicola Mulder; Darren Natale; Christine Orengo; Antony F Quinn; Jeremy D Selengut; Christian J A Sigrist; Manjula Thimma; Paul D Thomas; Franck Valentin; Derek Wilson; Cathy H Wu; Corin Yeats
Journal:  Nucleic Acids Res       Date:  2008-10-21       Impact factor: 16.971

View more
  76 in total

1.  Venom: the sharp end of pain therapeutics.

Authors:  Steven A Trim; Carol M Trim
Journal:  Br J Pain       Date:  2013-11

Review 2.  Whole-genome sequencing in outbreak analysis.

Authors:  Carol A Gilchrist; Stephen D Turner; Margaret F Riley; William A Petri; Erik L Hewlett
Journal:  Clin Microbiol Rev       Date:  2015-07       Impact factor: 26.132

3.  Chemoselective tarantula toxins report voltage activation of wild-type ion channels in live cells.

Authors:  Drew C Tilley; Kenneth S Eum; Sebastian Fletcher-Taylor; Daniel C Austin; Christophe Dupré; Lilian A Patrón; Rita L Garcia; Kit Lam; Vladimir Yarov-Yarovoy; Bruce E Cohen; Jon T Sack
Journal:  Proc Natl Acad Sci U S A       Date:  2014-10-20       Impact factor: 11.205

4.  Combined transcriptomic and proteomic analysis reveals a diversity of venom-related and toxin-like peptides expressed in the mat anemone Zoanthus natalensis (Cnidaria, Hexacorallia).

Authors:  Qiwen Liao; Guiyi Gong; Terence C W Poon; Irene L Ang; Kate M K Lei; Shirley Weng In Siu; Clarence Tsun Ting Wong; Gandhi Rádis-Baptista; Simon Ming-Yuen Lee
Journal:  Arch Toxicol       Date:  2019-06-15       Impact factor: 5.153

5.  Role of human Hv1 channels in sperm capacitation and white blood cell respiratory burst established by a designed peptide inhibitor.

Authors:  Ruiming Zhao; Kelleigh Kennedy; Gerardo A De Blas; Gerardo Orta; Martín A Pavarotti; Rodolfo J Arias; José Luis de la Vega-Beltrán; Qufei Li; Hui Dai; Eduardo Perozo; Luis S Mayorga; Alberto Darszon; Steve A N Goldstein
Journal:  Proc Natl Acad Sci U S A       Date:  2018-11-26       Impact factor: 11.205

6.  Designer and natural peptide toxin blockers of the KcsA potassium channel identified by phage display.

Authors:  Ruiming Zhao; Hui Dai; Netanel Mendelman; Luis G Cuello; Jordan H Chill; Steve A N Goldstein
Journal:  Proc Natl Acad Sci U S A       Date:  2015-12-01       Impact factor: 11.205

7.  KEGG orthology-based annotation of the predicted proteome of Acropora digitifera: ZoophyteBase - an open access and searchable database of a coral genome.

Authors:  Walter C Dunlap; Antonio Starcevic; Damir Baranasic; Janko Diminic; Jurica Zucko; Ranko Gacesa; Madeleine Jh van Oppen; Daslav Hranueli; John Cullum; Paul F Long
Journal:  BMC Genomics       Date:  2013-07-26       Impact factor: 3.969

8.  TISIGNER.com: web services for improving recombinant protein production.

Authors:  Bikash K Bhandari; Chun Shen Lim; Paul P Gardner
Journal:  Nucleic Acids Res       Date:  2021-07-02       Impact factor: 16.971

9.  Mass landscapes of seven scorpion species: The first analyses of Australian species with 1,5-DAN matrix.

Authors:  Jennifer J Smith; Alun Jones; Paul F Alewood
Journal:  J Venom Res       Date:  2012-10-23

10.  Phylogenetic and Selection Analysis of an Expanded Family of Putatively Pore-Forming Jellyfish Toxins (Cnidaria: Medusozoa).

Authors:  Anna M L Klompen; Ehsan Kayal; Allen G Collins; Paulyn Cartwright
Journal:  Genome Biol Evol       Date:  2021-06-08       Impact factor: 3.416

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.