Literature DB >> 24590711

Protein production for structural genomics using E. coli expression.

Magdalena Makowska-Grzyska1, Youngchang Kim, Natalia Maltseva, Hui Li, Min Zhou, Grazyna Joachimiak, Gyorgy Babnigg, Andrzej Joachimiak.   

Abstract

The goal of structural biology is to reveal details of the molecular structure of proteins in order to understand their function and mechanism. X-ray crystallography and NMR are the two best methods for atomic level structure determination. However, these methods require milligram quantities of proteins. In this chapter a reproducible methodology for large-scale protein production applicable to a diverse set of proteins is described. The approach is based on protein expression in E. coli as a fusion with a cleavable affinity tag that was tested on over 20,000 proteins. Specifically, a protocol for fermentation of large quantities of native proteins in disposable culture vessels is presented. A modified protocol that allows for the production of selenium-labeled proteins in defined media is also offered. Finally, a method for the purification of His6-tagged proteins on immobilized metal affinity chromatography columns that generates high-purity material is described in detail.

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Year:  2014        PMID: 24590711      PMCID: PMC4108990          DOI: 10.1007/978-1-4939-0354-2_7

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


  29 in total

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

Authors:  Scott A Lesley; Ian A Wilson
Journal:  J Struct Funct Genomics       Date:  2005

2.  PSI:Biology-materials repository: a biologist's resource for protein expression plasmids.

Authors:  Catherine Y Cormier; Jin G Park; Michael Fiacco; Jason Steel; Preston Hunter; Jason Kramer; Rajeev Singla; Joshua LaBaer
Journal:  J Struct Funct Genomics       Date:  2011-03-01

Review 3.  High-throughput protein purification and quality assessment for crystallization.

Authors:  Youngchang Kim; Gyorgy Babnigg; Robert Jedrzejczak; William H Eschenfeldt; Hui Li; Natalia Maltseva; Catherine Hatzos-Skintges; Minyi Gu; Magdalena Makowska-Grzyska; Ruiying Wu; Hao An; Gekleng Chhor; Andrzej Joachimiak
Journal:  Methods       Date:  2011-08-31       Impact factor: 3.608

4.  The high-throughput protein sample production platform of the Northeast Structural Genomics Consortium.

Authors:  Rong Xiao; Stephen Anderson; James Aramini; Rachel Belote; William A Buchwald; Colleen Ciccosanti; Ken Conover; John K Everett; Keith Hamilton; Yuanpeng Janet Huang; Haleema Janjua; Mei Jiang; Gregory J Kornhaber; Dong Yup Lee; Jessica Y Locke; Li-Chung Ma; Melissa Maglaqui; Lei Mao; Saheli Mitra; Dayaban Patel; Paolo Rossi; Seema Sahdev; Seema Sharma; Ritu Shastry; G V T Swapna; Saichu N Tong; Dongyan Wang; Huang Wang; Li Zhao; Gaetano T Montelione; Thomas B Acton
Journal:  J Struct Biol       Date:  2010-08-03       Impact factor: 2.867

5.  Cleavable C-terminal His-tag vectors for structure determination.

Authors:  William H Eschenfeldt; Natalia Maltseva; Lucy Stols; Mark I Donnelly; Minyi Gu; Boguslaw Nocek; Kemin Tan; Youngchang Kim; Andrzej Joachimiak
Journal:  J Struct Funct Genomics       Date:  2010-03-06

6.  Protein production by auto-induction in high density shaking cultures.

Authors:  F William Studier
Journal:  Protein Expr Purif       Date:  2005-05       Impact factor: 1.650

Review 7.  High-throughput crystallography for structural genomics.

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

8.  Production of selenomethionine-labeled proteins in two-liter plastic bottles for structure determination.

Authors:  Lucy Stols; Cynthia Sanville Millard; Irina Dementieva; Mark I Donnelly
Journal:  J Struct Funct Genomics       Date:  2004

9.  Atomic structures of the human immunophilin FKBP-12 complexes with FK506 and rapamycin.

Authors:  G D Van Duyne; R F Standaert; P A Karplus; S L Schreiber; J Clardy
Journal:  J Mol Biol       Date:  1993-01-05       Impact factor: 5.469

10.  A combined approach to improving large-scale production of tobacco etch virus protease.

Authors:  Paul G Blommel; Brian G Fox
Journal:  Protein Expr Purif       Date:  2007-04-25       Impact factor: 1.650

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  11 in total

1.  Structural and functional characterization of three Type B and C chloramphenicol acetyltransferases from Vibrio species.

Authors:  Ashley Alcala; Guadalupe Ramirez; Allan Solis; Youngchang Kim; Kemin Tan; Oscar Luna; Karen Nguyen; Daniel Vazquez; Michael Ward; Min Zhou; Rory Mulligan; Natalia Maltseva; Misty L Kuhn
Journal:  Protein Sci       Date:  2019-12-06       Impact factor: 6.725

2.  Crystal structure of nonphosphorylated receiver domain of the stress response regulator RcsB from Escherichia coli.

Authors:  Ekaterina V Filippova; Zdzislaw Wawrzak; Jiapeng Ruan; Sergii Pshenychnyi; Richard M Schultz; Alan J Wolfe; Wayne F Anderson
Journal:  Protein Sci       Date:  2016-10-24       Impact factor: 6.725

3.  Substrate-Induced Allosteric Change in the Quaternary Structure of the Spermidine N-Acetyltransferase SpeG.

Authors:  Ekaterina V Filippova; Steven Weigand; Jerzy Osipiuk; Olga Kiryukhina; Andrzej Joachimiak; Wayne F Anderson
Journal:  J Mol Biol       Date:  2015-09-26       Impact factor: 5.469

4.  Gene selection and cloning approaches for co-expression and production of recombinant protein-protein complexes.

Authors:  György Babnigg; Robert Jedrzejczak; Boguslaw Nocek; Adam Stein; William Eschenfeldt; Lucy Stols; Norman Marshall; Alicia Weger; Ruiying Wu; Mark Donnelly; Andrzej Joachimiak
Journal:  J Struct Funct Genomics       Date:  2015-12-15

5.  Structure of Cryptosporidium IMP dehydrogenase bound to an inhibitor with in vivo antiparasitic activity.

Authors:  Youngchang Kim; Magdalena Makowska-Grzyska; Suresh Kumar Gorla; Deviprasad R Gollapalli; Gregory D Cuny; Andrzej Joachimiak; Lizbeth Hedstrom
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2015-04-21       Impact factor: 1.056

6.  The spermidine acetyltransferase SpeG regulates transcription of the small RNA rprA.

Authors:  Linda I Hu; Ekaterina V Filippova; Joseph Dang; Sergii Pshenychnyi; Jiapeng Ruan; Olga Kiryukhina; Wayne F Anderson; Misty L Kuhn; Alan J Wolfe
Journal:  PLoS One       Date:  2018-12-18       Impact factor: 3.240

7.  Optimization of culture conditions for the expression of three different insoluble proteins in Escherichia coli.

Authors:  Matías Gutiérrez-González; Camila Farías; Samantha Tello; Diana Pérez-Etcheverry; Alfonso Romero; Roberto Zúñiga; Carolina H Ribeiro; Carmen Lorenzo-Ferreiro; María Carmen Molina
Journal:  Sci Rep       Date:  2019-11-14       Impact factor: 4.379

8.  Structure of papain-like protease from SARS-CoV-2 and its complexes with non-covalent inhibitors.

Authors:  Jerzy Osipiuk; Saara-Anne Azizi; Steve Dvorkin; Michael Endres; Robert Jedrzejczak; Krysten A Jones; Soowon Kang; Rahul S Kathayat; Youngchang Kim; Vladislav G Lisnyak; Samantha L Maki; Vlad Nicolaescu; Cooper A Taylor; Christine Tesar; Yu-An Zhang; Zhiyao Zhou; Glenn Randall; Karolina Michalska; Scott A Snyder; Bryan C Dickinson; Andrzej Joachimiak
Journal:  Nat Commun       Date:  2021-02-02       Impact factor: 14.919

9.  Crystal structure of Nsp15 endoribonuclease NendoU from SARS-CoV-2.

Authors:  Youngchang Kim; Robert Jedrzejczak; Natalia I Maltseva; Mateusz Wilamowski; Michael Endres; Adam Godzik; Karolina Michalska; Andrzej Joachimiak
Journal:  Protein Sci       Date:  2020-05-02       Impact factor: 6.993

Review 10.  Chromatography-Free Purification Strategies for Large Biological Macromolecular Complexes Involving Fractionated PEG Precipitation and Density Gradients.

Authors:  Fabian Henneberg; Ashwin Chari
Journal:  Life (Basel)       Date:  2021-11-24
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