Literature DB >> 15983418

SGXPro: a parallel workflow engine enabling optimization of program performance and automation of structure determination.

Zheng Qing Fu1, John Rose, Bi Cheng Wang.   

Abstract

SGXPro consists of four components. (i) A parallel workflow engine that was designed to automatically manage communication between the different processes and build systematic searches of algorithm/program/parameter space to generate the best possible result for a given data set. This is performed by offering the user a palette of programs and techniques commonly used in X-ray structure determination in an environment that lets the user choose programs in a mix-and-match manner, without worrying about inter-program communication and file formats, during the structure-determination process. The current SGXPro program palette includes 3DSCALE, SHELXD, ISAS, SOLVE/RESOLVE, DM, SOLOMON, DMMULTI, BLAST, AMoRe, EPMR, XTALVIEW, ARP/wARP and MAID. (ii) A client/server architecture that allows the user to utilize the best computing facility available. (iii) Plug-in-and-play design, which allows easily integration of new programs into the system. (iv) User-friendly interface.

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Year:  2005        PMID: 15983418     DOI: 10.1107/S0907444905010541

Source DB:  PubMed          Journal:  Acta Crystallogr D Biol Crystallogr        ISSN: 0907-4449


  18 in total

1.  Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7.

Authors:  Gerrit Langer; Serge X Cohen; Victor S Lamzin; Anastassis Perrakis
Journal:  Nat Protoc       Date:  2008       Impact factor: 13.491

2.  Atomic resolution structure of the cytoplasmic domain of Yersinia pestis YscU, a regulatory switch involved in type III secretion.

Authors:  George T Lountos; Brian P Austin; Sreedevi Nallamsetty; David S Waugh
Journal:  Protein Sci       Date:  2009-02       Impact factor: 6.725

3.  Anaerobic Heme Degradation: ChuY Is an Anaerobilin Reductase That Exhibits Kinetic Cooperativity.

Authors:  Joseph W LaMattina; Michael Delrossi; Katherine G Uy; Nicholas D Keul; David B Nix; Anudeep R Neelam; William N Lanzilotta
Journal:  Biochemistry       Date:  2017-01-26       Impact factor: 3.162

4.  On the combination of molecular replacement and single-wavelength anomalous diffraction phasing for automated structure determination.

Authors:  Santosh Panjikar; Venkataraman Parthasarathy; Victor S Lamzin; Manfred S Weiss; Paul A Tucker
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2009-09-16

5.  REdiii: a pipeline for automated structure solution.

Authors:  Markus Frederik Bohn; Celia A Schiffer
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2015-04-24

6.  Structural characterization of tartrate dehydrogenase: a versatile enzyme catalyzing multiple reactions.

Authors:  Radhika Malik; Ronald E Viola
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-05-15

7.  Crystal structure of the HEAT domain from the Pre-mRNA processing factor Symplekin.

Authors:  Sarah A Kennedy; Monica L Frazier; Mindy Steiniger; Ann M Mast; William F Marzluff; Matthew R Redinbo
Journal:  J Mol Biol       Date:  2009-07-01       Impact factor: 5.469

8.  Crystallization of human complement component C3b in the presence of a staphylococcal complement-inhibitor protein (SCIN).

Authors:  Brandon L Garcia; Apostolia Tzekou; Kasra X Ramyar; William J McWhorter; Daniel Ricklin; John D Lambris; Brian V Geisbrecht
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2009-04-24

9.  New protein fold revealed by a 1.65 A resolution crystal structure of Francisella tularensis pathogenicity island protein IglC.

Authors:  Ping Sun; Brian P Austin; Florian D Schubot; David S Waugh
Journal:  Protein Sci       Date:  2007-09-28       Impact factor: 6.725

10.  Structure of the Archaeoglobus fulgidus orphan ORF AF1382 determined by sulfur SAD from a moderately diffracting crystal.

Authors:  Jin-Yi Zhu; Zheng-Qing Fu; Lirong Chen; Hao Xu; John Chrzas; John Rose; Bi-Cheng Wang
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2012-08-18
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