Literature DB >> 18218654

A discrete view on fold space.

Manfred J Sippl1, Stefan J Suhrer, Markus Gruber, Markus Wiederstein.   

Abstract

UNLABELLED: The database of known protein structures contains an overwhelming number of structural similarities that frequently point to intriguing biological relationships. The similarities are often difficult to spot, and once detected their comprehension needs proper visualization. Here we introduce the new concept of a Fold Space Navigator, a user interface enabling the efficient navigation through fold space and the instantaneous visualization of pairwise structure similarities. AVAILABILITY: The Fold Space Navigator is accessible as a public web service at http://services.came.sbg.ac.at

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Year:  2008        PMID： 18218654     DOI： 10.1093/bioinformatics/btn020

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  8 in total

1.  The CATH classification revisited--architectures reviewed and new ways to characterize structural divergence in superfamilies.

Authors:  Alison L Cuff; Ian Sillitoe; Tony Lewis; Oliver C Redfern; Richard Garratt; Janet Thornton; Christine A Orengo
Journal:  Nucleic Acids Res       Date:  2008-11-07       Impact factor: 16.971

2.  Structural characteristics of novel protein folds.

Authors:  Narcis Fernandez-Fuentes; Joseph M Dybas; Andras Fiser
Journal:  PLoS Comput Biol       Date:  2010-04-22       Impact factor: 4.475

3.  The CATH hierarchy revisited-structural divergence in domain superfamilies and the continuity of fold space.

Authors:  Alison Cuff; Oliver C Redfern; Lesley Greene; Ian Sillitoe; Tony Lewis; Mark Dibley; Adam Reid; Frances Pearl; Tim Dallman; Annabel Todd; Richard Garratt; Janet Thornton; Christine Orengo
Journal:  Structure       Date:  2009-08-12       Impact factor: 5.006

Review 4.  Exploiting structural classifications for function prediction: towards a domain grammar for protein function.

Authors:  Benoît H Dessailly; Oliver C Redfern; Alison Cuff; Christine A Orengo
Journal:  Curr Opin Struct Biol       Date:  2009-04-22       Impact factor: 6.809

5.  Analysis of RNA binding by the dengue virus NS5 RNA capping enzyme.

Authors:  Brittney R Henderson; Bejan J Saeedi; Grace Campagnola; Brian J Geiss
Journal:  PLoS One       Date:  2011-10-12       Impact factor: 3.240

6.  COPS--a novel workbench for explorations in fold space.

Authors:  Stefan J Suhrer; Markus Wiederstein; Markus Gruber; Manfred J Sippl
Journal:  Nucleic Acids Res       Date:  2009-05-22       Impact factor: 16.971

7.  Detection of spatial correlations in protein structures and molecular complexes.

Authors:  Manfred J Sippl; Markus Wiederstein
Journal:  Structure       Date:  2012-04-03       Impact factor: 5.006

8.  VIPERdb2: an enhanced and web API enabled relational database for structural virology.

Authors:  Mauricio Carrillo-Tripp; Craig M Shepherd; Ian A Borelli; Sangita Venkataraman; Gabriel Lander; Padmaja Natarajan; John E Johnson; Charles L Brooks; Vijay S Reddy
Journal:  Nucleic Acids Res       Date:  2008-11-03       Impact factor: 16.971
  8 in total

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