Literature DB >> 24590708

Selecting targets from eukaryotic parasites for structural genomics and drug discovery.

Isabelle Q H Phan1, Robin Stacy, Peter J Myler.   

Abstract

The selection of targets is the first step for any structural genomics project. The application of structural genomics approaches to drug discovery also starts with the selection of targets. Here, three protocols are described that were developed to select targets from eukaryotic pathogens. These protocols could also be applied to other drug discovery projects.

Entities:  

Mesh：

Year:  2014        PMID： 24590708      PMCID： PMC4601580          DOI： 10.1007/978-1-4939-0354-2_4

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  16 in total

1.  Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.

Authors:  A Krogh; B Larsson; G von Heijne; E L Sonnhammer
Journal:  J Mol Biol       Date:  2001-01-19       Impact factor: 5.469

Review 2.  Target selection for structural genomics.

Authors:  S E Brenner
Journal:  Nat Struct Biol       Date:  2000-11

3.  Automatic target selection for structural genomics on eukaryotes.

Authors:  Jinfeng Liu; Hedi Hegyi; Thomas B Acton; Gaetano T Montelione; Burkhard Rost
Journal:  Proteins       Date:  2004-08-01

4.  A combined transmembrane topology and signal peptide prediction method.

Authors:  Lukas Käll; Anders Krogh; Erik L L Sonnhammer
Journal:  J Mol Biol       Date:  2004-05-14       Impact factor: 5.469

Review 5.  The Seattle Structural Genomics Center for Infectious Disease (SSGCID).

Authors:  P J Myler; R Stacy; L Stewart; B L Staker; W C Van Voorhis; G Varani; G W Buchko
Journal:  Infect Disord Drug Targets       Date:  2009-11

6.  BLAST+: architecture and applications.

Authors:  Christiam Camacho; George Coulouris; Vahram Avagyan; Ning Ma; Jason Papadopoulos; Kevin Bealer; Thomas L Madden
Journal:  BMC Bioinformatics       Date:  2009-12-15       Impact factor: 3.169

7.  Ergatis: a web interface and scalable software system for bioinformatics workflows.

Authors:  Joshua Orvis; Jonathan Crabtree; Kevin Galens; Aaron Gussman; Jason M Inman; Eduardo Lee; Sreenath Nampally; David Riley; Jaideep P Sundaram; Victor Felix; Brett Whitty; Anup Mahurkar; Jennifer Wortman; Owen White; Samuel V Angiuoli
Journal:  Bioinformatics       Date:  2010-04-22       Impact factor: 6.937

8.  OrthoMCL: identification of ortholog groups for eukaryotic genomes.

Authors:  Li Li; Christian J Stoeckert; David S Roos
Journal:  Genome Res       Date:  2003-09       Impact factor: 9.043

9.  Structural genomics of infectious disease drug targets: the SSGCID.

Authors:  Robin Stacy; Darren W Begley; Isabelle Phan; Bart L Staker; Wesley C Van Voorhis; Gabriele Varani; Garry W Buchko; Lance J Stewart; Peter J Myler
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2011-08-13

10.  EuPathDB: a portal to eukaryotic pathogen databases.

Authors:  Cristina Aurrecoechea; John Brestelli; Brian P Brunk; Steve Fischer; Bindu Gajria; Xin Gao; Alan Gingle; Greg Grant; Omar S Harb; Mark Heiges; Frank Innamorato; John Iodice; Jessica C Kissinger; Eileen T Kraemer; Wei Li; John A Miller; Vishal Nayak; Cary Pennington; Deborah F Pinney; David S Roos; Chris Ross; Ganesh Srinivasamoorthy; Christian J Stoeckert; Ryan Thibodeau; Charles Treatman; Haiming Wang
Journal:  Nucleic Acids Res       Date:  2009-11-13       Impact factor: 16.971
View more
  5 in total

1.  Structures of a histidine triad family protein from Entamoeba histolytica bound to sulfate, AMP and GMP.

Authors:  Donald D Lorimer; Ryan Choi; Ariel Abramov; Stephen Nakazawa Hewitt; Anna S Gardberg; Wesley C Van Voorhis; Bart L Staker; Peter J Myler; Thomas E Edwards
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-04-21       Impact factor: 1.056

2.  Structures of aspartate aminotransferases from Trypanosoma brucei, Leishmania major and Giardia lamblia.

Authors:  Jan Abendroth; Ryan Choi; Abigail Wall; Matthew C Clifton; Christine M Lukacs; Bart L Staker; Wesley Van Voorhis; Peter Myler; Don D Lorimer; Thomas E Edwards
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-04-21       Impact factor: 1.056

3.  Structure of an ADP-ribosylation factor, ARF1, from Entamoeba histolytica bound to Mg(2+)-GDP.

Authors:  Dmitry A Serbzhinskiy; Matthew C Clifton; Banumathi Sankaran; Bart L Staker; Thomas E Edwards; Peter J Myler
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-04-21       Impact factor: 1.056

4.  Iron superoxide dismutases in eukaryotic pathogens: new insights from Apicomplexa and Trypanosoma structures.

Authors:  Isabelle Q H Phan; Douglas R Davies; Nilmar Silvio Moretti; Dhanasekaran Shanmugam; Igor Cestari; Atashi Anupama; James W Fairman; Thomas E Edwards; Kenneth Stuart; Sergio Schenkman; Peter J Myler
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-05-07       Impact factor: 1.056

Review 5.  Cystoisospora suis - A Model of Mammalian Cystoisosporosis.

Authors:  Aruna Shrestha; Ahmed Abd-Elfattah; Barbara Freudenschuss; Barbara Hinney; Nicola Palmieri; Bärbel Ruttkowski; Anja Joachim
Journal:  Front Vet Sci       Date:  2015-11-30
  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.