Literature DB >> 16211502

Protein production and crystallization at the joint center for structural genomics.

Scott A Lesley1, Ian A Wilson.   

Abstract

By definition, structural genomics centers must be able to address a large number of diverse protein targets. The methods developed should permit parallel and cost-effective processing while allowing for the diverse nature of proteins. Our approach to this problem is a multi-tiered effort where targets are characterized and categorized by behavior and processed in parallel by appropriate methods. The Joint Center for Structural Genomics (JCSG) has applied this tactic to create a fully integrated and scaleable structure determination pipeline. Highlights of the development of the current pipeline for protein production and crystallization are presented here.

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Year:  2005        PMID: 16211502     DOI: 10.1007/s10969-005-2897-2

Source DB:  PubMed          Journal:  J Struct Funct Genomics        ISSN: 1345-711X


  15 in total

1.  DNA cloning using in vitro site-specific recombination.

Authors:  J L Hartley; G F Temple; M A Brasch
Journal:  Genome Res       Date:  2000-11       Impact factor: 9.043

Review 2.  Automation of X-ray crystallography.

Authors:  E Abola; P Kuhn; T Earnest; R C Stevens
Journal:  Nat Struct Biol       Date:  2000-11

Review 3.  High-throughput proteomics: protein expression and purification in the postgenomic world.

Authors:  S A Lesley
Journal:  Protein Expr Purif       Date:  2001-07       Impact factor: 1.650

4.  Mining the structural genomics pipeline: identification of protein properties that affect high-throughput experimental analysis.

Authors:  Chern-Sing Goh; Ning Lan; Shawn M Douglas; Baolin Wu; Nathaniel Echols; Andrew Smith; Duncan Milburn; Gaetano T Montelione; Hongyu Zhao; Mark Gerstein
Journal:  J Mol Biol       Date:  2004-02-06       Impact factor: 5.469

5.  GlobPlot: Exploring protein sequences for globularity and disorder.

Authors:  Rune Linding; Robert B Russell; Victor Neduva; Toby J Gibson
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

6.  The univector plasmid-fusion system, a method for rapid construction of recombinant DNA without restriction enzymes.

Authors:  Q Liu; M Z Li; D Leibham; D Cortez; S J Elledge
Journal:  Curr Biol       Date:  1998-12-03       Impact factor: 10.834

7.  Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.

Authors:  Robert L Strausberg; Elise A Feingold; Lynette H Grouse; Jeffery G Derge; Richard D Klausner; Francis S Collins; Lukas Wagner; Carolyn M Shenmen; Gregory D Schuler; Stephen F Altschul; Barry Zeeberg; Kenneth H Buetow; Carl F Schaefer; Narayan K Bhat; Ralph F Hopkins; Heather Jordan; Troy Moore; Steve I Max; Jun Wang; Florence Hsieh; Luda Diatchenko; Kate Marusina; Andrew A Farmer; Gerald M Rubin; Ling Hong; Mark Stapleton; M Bento Soares; Maria F Bonaldo; Tom L Casavant; Todd E Scheetz; Michael J Brownstein; Ted B Usdin; Shiraki Toshiyuki; Piero Carninci; Christa Prange; Sam S Raha; Naomi A Loquellano; Garrick J Peters; Rick D Abramson; Sara J Mullahy; Stephanie A Bosak; Paul J McEwan; Kevin J McKernan; Joel A Malek; Preethi H Gunaratne; Stephen Richards; Kim C Worley; Sarah Hale; Angela M Garcia; Laura J Gay; Stephen W Hulyk; Debbie K Villalon; Donna M Muzny; Erica J Sodergren; Xiuhua Lu; Richard A Gibbs; Jessica Fahey; Erin Helton; Mark Ketteman; Anuradha Madan; Stephanie Rodrigues; Amy Sanchez; Michelle Whiting; Anup Madan; Alice C Young; Yuriy Shevchenko; Gerard G Bouffard; Robert W Blakesley; Jeffrey W Touchman; Eric D Green; Mark C Dickson; Alex C Rodriguez; Jane Grimwood; Jeremy Schmutz; Richard M Myers; Yaron S N Butterfield; Martin I Krzywinski; Ursula Skalska; Duane E Smailus; Angelique Schnerch; Jacqueline E Schein; Steven J M Jones; Marco A Marra
Journal:  Proc Natl Acad Sci U S A       Date:  2002-12-11       Impact factor: 11.205

8.  The mammalian gene collection.

Authors:  R L Strausberg; E A Feingold; R D Klausner; F S Collins
Journal:  Science       Date:  1999-10-15       Impact factor: 47.728

9.  Shotgun crystallization strategy for structural genomics: an optimized two-tiered crystallization screen against the Thermotoga maritima proteome.

Authors:  Rebecca Page; Slawomir K Grzechnik; Jaume M Canaves; Glen Spraggon; Andreas Kreusch; Peter Kuhn; Raymond C Stevens; Scott A Lesley
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2003-05-23

10.  A scaleable and integrated crystallization pipeline applied to mining the Thermotoga maritima proteome.

Authors:  Michael DiDonato; Ashley M Deacon; Heath E Klock; Daniel McMullan; Scott A Lesley
Journal:  J Struct Funct Genomics       Date:  2004
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  21 in total

1.  Economical parallel protein expression screening and scale-up in Escherichia coli.

Authors:  Oleg Brodsky; Ciarán N Cronin
Journal:  J Struct Funct Genomics       Date:  2006-12-23

2.  An approach to crystallizing proteins by synthetic symmetrization.

Authors:  D Rey Banatao; Duilio Cascio; Christopher S Crowley; Mark R Fleissner; Heather L Tienson; Todd O Yeates
Journal:  Proc Natl Acad Sci U S A       Date:  2006-10-18       Impact factor: 11.205

Review 3.  Protein production and purification.

Authors:  Susanne Gräslund; Pär Nordlund; Johan Weigelt; B Martin Hallberg; James Bray; Opher Gileadi; Stefan Knapp; Udo Oppermann; Cheryl Arrowsmith; Raymond Hui; Jinrong Ming; Sirano dhe-Paganon; Hee-won Park; Alexei Savchenko; Adelinda Yee; Aled Edwards; Renaud Vincentelli; Christian Cambillau; Rosalind Kim; Sung-Hou Kim; Zihe Rao; Yunyu Shi; Thomas C Terwilliger; Chang-Yub Kim; Li-Wei Hung; Geoffrey S Waldo; Yoav Peleg; Shira Albeck; Tamar Unger; Orly Dym; Jaime Prilusky; Joel L Sussman; Ray C Stevens; Scott A Lesley; Ian A Wilson; Andrzej Joachimiak; Frank Collart; Irina Dementieva; Mark I Donnelly; William H Eschenfeldt; Youngchang Kim; Lucy Stols; Ruying Wu; Min Zhou; Stephen K Burley; J Spencer Emtage; J Michael Sauder; Devon Thompson; Kevin Bain; John Luz; Tarun Gheyi; Fred Zhang; Shane Atwell; Steven C Almo; Jeffrey B Bonanno; Andras Fiser; Sivasubramanian Swaminathan; F William Studier; Mark R Chance; Andrej Sali; Thomas B Acton; Rong Xiao; Li Zhao; Li Chung Ma; John F Hunt; Liang Tong; Kellie Cunningham; Masayori Inouye; Stephen Anderson; Heleema Janjua; Ritu Shastry; Chi Kent Ho; Dongyan Wang; Huang Wang; Mei Jiang; Gaetano T Montelione; David I Stuart; Raymond J Owens; Susan Daenke; Anja Schütz; Udo Heinemann; Shigeyuki Yokoyama; Konrad Büssow; Kristin C Gunsalus
Journal:  Nat Methods       Date:  2008-02       Impact factor: 28.547

4.  Expression, purification, crystallization and preliminary X-ray analysis of the receiver domain of Staphylococcus aureus LytR protein.

Authors:  Agnesa Shala; Kevin H Patel; Dasantila Golemi-Kotra; Gerald F Audette
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2013-11-29

5.  The structure of DinB from Geobacillus stearothermophilus: a representative of a unique four-helix-bundle superfamily.

Authors:  David R Cooper; Katarzyna Grelewska; Chang-Yub Kim; Andrzej Joachimiak; Zygmunt S Derewenda
Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun       Date:  2010-02-23

6.  Understanding specificity of the mycosin proteases in ESX/type VII secretion by structural and functional analysis.

Authors:  Jonathan M Wagner; Timothy J Evans; Jing Chen; Haining Zhu; Edith N G Houben; Wilbert Bitter; Konstantin V Korotkov
Journal:  J Struct Biol       Date:  2013-10-07       Impact factor: 2.867

7.  To automate or not to automate: this is the question.

Authors:  M Cymborowski; M Klimecka; M Chruszcz; M D Zimmerman; I A Shumilin; D Borek; K Lazarski; A Joachimiak; Z Otwinowski; W Anderson; W Minor
Journal:  J Struct Funct Genomics       Date:  2010-06-06

Review 8.  Biophysical characterization of recombinant proteins: a key to higher structural genomics success.

Authors:  Masoud Vedadi; Cheryl H Arrowsmith; Abdellah Allali-Hassani; Guillermo Senisterra; Gregory A Wasney
Journal:  J Struct Biol       Date:  2010-05-11       Impact factor: 2.867

Review 9.  High-throughput crystallography for structural genomics.

Authors:  Andrzej Joachimiak
Journal:  Curr Opin Struct Biol       Date:  2009-09-16       Impact factor: 6.809

Review 10.  Ratiocinative screen of eukaryotic integral membrane protein expression and solubilization for structure determination.

Authors:  Franklin A Hays; Zygy Roe-Zurz; Min Li; Libusha Kelly; Franz Gruswitz; Andrej Sali; Robert M Stroud
Journal:  J Struct Funct Genomics       Date:  2008-11-22
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