Literature DB >> 16286078

Protein variety and functional diversity: Swiss-Prot annotation in its biological context.

Brigitte Boeckmann1, Marie-Claude Blatter, Livia Famiglietti, Ursula Hinz, Lydie Lane, Bernd Roechert, Amos Bairoch.   

Abstract

We all know that the dogma 'one gene, one protein' is obsolete. A functional protein and, likewise, a protein's ultimate function depend not only on the underlying genetic information but also on the ongoing conditions of the cellular system. Frequently the transcript, like the polypeptide, is processed in multiple ways, but only one or a few out of a multitude of possible variants are produced at a time. An overview on processes that can lead to sequence variety and structural diversity in eukaryotes is given. The UniProtKB/Swiss-Prot protein knowledgebase provides a wealth of information regarding protein variety, function and associated disorders. Examples for such annotation are shown and further ones are available at http://www.expasy.org/sprot/tutorial/examples_CRB.

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Year:  2005        PMID: 16286078     DOI: 10.1016/j.crvi.2005.06.001

Source DB:  PubMed          Journal:  C R Biol        ISSN: 1631-0691            Impact factor:   1.583


  42 in total

Review 1.  A beginner's guide to eukaryotic genome annotation.

Authors:  Mark Yandell; Daniel Ence
Journal:  Nat Rev Genet       Date:  2012-04-18       Impact factor: 53.242

2.  Type-II kinase inhibitor docking, screening, and profiling using modified structures of active kinase states.

Authors:  Irina Kufareva; Ruben Abagyan
Journal:  J Med Chem       Date:  2008-12-25       Impact factor: 7.446

3.  CanProVar: a human cancer proteome variation database.

Authors:  Jing Li; Dexter T Duncan; Bing Zhang
Journal:  Hum Mutat       Date:  2010-03       Impact factor: 4.878

4.  EuLoc: a web-server for accurately predict protein subcellular localization in eukaryotes by incorporating various features of sequence segments into the general form of Chou's PseAAC.

Authors:  Tzu-Hao Chang; Li-Ching Wu; Tzong-Yi Lee; Shu-Pin Chen; Hsien-Da Huang; Jorng-Tzong Horng
Journal:  J Comput Aided Mol Des       Date:  2013-01-03       Impact factor: 3.686

5.  SSMap: a new UniProt-PDB mapping resource for the curation of structural-related information in the UniProt/Swiss-Prot Knowledgebase.

Authors:  Fabrice P A David; Yum L Yip
Journal:  BMC Bioinformatics       Date:  2008-09-23       Impact factor: 3.169

6.  MimoSA: a system for minimotif annotation.

Authors:  Jay Vyas; Ronald J Nowling; Thomas Meusburger; David Sargeant; Krishna Kadaveru; Michael R Gryk; Vamsi Kundeti; Sanguthevar Rajasekaran; Martin R Schiller
Journal:  BMC Bioinformatics       Date:  2010-06-16       Impact factor: 3.169

7.  Comparative kinomics of human and chimpanzee reveal unique kinship and functional diversity generated by new domain combinations.

Authors:  Krishanpal Anamika; Juliette Martin; Narayanaswamy Srinivasan
Journal:  BMC Genomics       Date:  2008-12-23       Impact factor: 3.969

8.  Hmrbase: a database of hormones and their receptors.

Authors:  Mamoon Rashid; Deepak Singla; Arun Sharma; Manish Kumar; Gajendra P S Raghava
Journal:  BMC Genomics       Date:  2009-07-09       Impact factor: 3.969

9.  Automated quantitative assessment of proteins' biological function in protein knowledge bases.

Authors:  Gabriele Mayr; Günter Lepperdinger; Peter Lackner
Journal:  Adv Bioinformatics       Date:  2008-06-30

10.  RAId_DbS: mass-spectrometry based peptide identification web server with knowledge integration.

Authors:  Gelio Alves; Aleksey Y Ogurtsov; Yi-Kuo Yu
Journal:  BMC Genomics       Date:  2008-10-27       Impact factor: 3.969

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