Literature DB >> 14978305

The PRESAT-vector: asymmetric T-vector for high-throughput screening of soluble protein domains for structural proteomics.

Natsuko Goda1, Takeshi Tenno, Hirotoshi Takasu, Hidekazu Hiroaki, Masahiro Shirakawa.   

Abstract

A rapid unidirectional method for cloning PCR-amplified cDNA fragments into virtually any fusion protein expression vector is described. The method, termed PRESAT-vector cloning, is based on a T-vector technique that does not require restriction endonuclease digestion of the PCR product. Subsequently, we applied a novel ORF selection method of the ligated plasmid products. This second step involves restriction endonuclease treatment that eliminates the plasmids containing an ORF in the wrong orientation prior to transformation into the bacterial host for further protein expression studies. To achieve this selection, we customized the 5'-sequence of the "rear" PCR primer corresponding to the C terminus of the protein to be expressed. The colonies harbored only the ligated products of the desired orientation at >90% efficiency. This method is applied to a GST fusion expression system, and an HTS system for soluble proteins from an expression library was tested.

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Year:  2004        PMID: 14978305      PMCID: PMC2286733          DOI: 10.1110/ps.03439004

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  24 in total

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Authors:  Ji Ung Jeung; Sung Ki Cho; Kyu Suk Shim; Sung Han Ok; Dae Sik Lim; Jeong Sheop Shin
Journal:  Plasmid       Date:  2002-09       Impact factor: 3.466

Review 2.  Protein analysis on a proteomic scale.

Authors:  Eric Phizicky; Philippe I H Bastiaens; Heng Zhu; Michael Snyder; Stanley Fields
Journal:  Nature       Date:  2003-03-13       Impact factor: 49.962

Review 3.  Structural genomics of proteins from conserved biochemical pathways and processes.

Authors:  Stephen K Burley; Jeffrey B Bonanno
Journal:  Curr Opin Struct Biol       Date:  2002-06       Impact factor: 6.809

4.  The identification of a conserved domain in both spartin and spastin, mutated in hereditary spastic paraplegia.

Authors:  Francesca D Ciccarelli; Christos Proukakis; Heema Patel; Harold Cross; Shakil Azam; Michael A Patton; Peer Bork; Andrew H Crosby
Journal:  Genomics       Date:  2003-04       Impact factor: 5.736

5.  Structural genomics projects in Japan.

Authors:  S Yokoyama; H Hirota; T Kigawa; T Yabuki; M Shirouzu; T Terada; Y Ito; Y Matsuo; Y Kuroda; Y Nishimura; Y Kyogoku; K Miki; R Masui; S Kuramitsu
Journal:  Nat Struct Biol       Date:  2000-11

6.  Oligonucleotide-directed mutagenesis: a simple method using two oligonucleotide primers and a single-stranded DNA template.

Authors:  M J Zoller; M Smith
Journal:  Methods Enzymol       Date:  1987       Impact factor: 1.600

7.  Rapid protein-folding assay using green fluorescent protein.

Authors:  G S Waldo; B M Standish; J Berendzen; T C Terwilliger
Journal:  Nat Biotechnol       Date:  1999-07       Impact factor: 54.908

8.  Protein solubility and folding monitored in vivo by structural complementation of a genetic marker protein.

Authors:  W C Wigley; R D Stidham; N M Smith; J F Hunt; P J Thomas
Journal:  Nat Biotechnol       Date:  2001-02       Impact factor: 54.908

Review 9.  Analyzing genomes: current realities and future possibilities.

Authors:  Edward K Wakeland; Amy E Wandstrat
Journal:  Curr Opin Immunol       Date:  2002-10       Impact factor: 7.486

Review 10.  Universal TA cloning.

Authors:  M Y Zhou; C E Gomez-Sanchez
Journal:  Curr Issues Mol Biol       Date:  2000-01       Impact factor: 2.081

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  12 in total

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Authors:  Naoko Iwaya; Yohta Kuwahara; Yoshie Fujiwara; Natsuko Goda; Takeshi Tenno; Kohei Akiyama; Shogo Mase; Hidehito Tochio; Takahisa Ikegami; Masahiro Shirakawa; Hidekazu Hiroaki
Journal:  J Biol Chem       Date:  2010-03-25       Impact factor: 5.157

2.  Fine-tuning of protein domain boundary by minimizing potential coiled coil regions.

Authors:  Naoko Iwaya; Natsuko Goda; Satoru Unzai; Kenichiro Fujiwara; Toshiki Tanaka; Kentaro Tomii; Hidehito Tochio; Masahiro Shirakawa; Hidekazu Hiroaki
Journal:  J Biomol NMR       Date:  2006-12-16       Impact factor: 2.835

3.  Ligation independent cloning vectors for expression of SUMO fusions.

Authors:  Stephen D Weeks; Mark Drinker; Patrick J Loll
Journal:  Protein Expr Purif       Date:  2006-12-13       Impact factor: 1.650

4.  Unusual thermal disassembly of the SPFH domain oligomer from Pyrococcus horikoshii.

Authors:  Yohta Kuwahara; Satoru Unzai; Takashi Nagata; Yoko Hiroaki; Hideshi Yokoyama; Ikuo Matsui; Takahisa Ikegami; Yoshinori Fujiyoshi; Hidekazu Hiroaki
Journal:  Biophys J       Date:  2009-10-07       Impact factor: 4.033

5.  Crystal structure of afadin PDZ domain-nectin-3 complex shows the structural plasticity of the ligand-binding site.

Authors:  Yoshie Fujiwara; Natsuko Goda; Tomonari Tamashiro; Hirotaka Narita; Kaori Satomura; Takeshi Tenno; Atsushi Nakagawa; Masayuki Oda; Mamoru Suzuki; Toshiaki Sakisaka; Yoshimi Takai; Hidekazu Hiroaki
Journal:  Protein Sci       Date:  2015-01-13       Impact factor: 6.725

6.  Structure and function of the N-terminal nucleolin binding domain of nuclear valosin-containing protein-like 2 (NVL2) harboring a nucleolar localization signal.

Authors:  Yoshie Fujiwara; Ken-ichiro Fujiwara; Natsuko Goda; Naoko Iwaya; Takeshi Tenno; Masahiro Shirakawa; Hidekazu Hiroaki
Journal:  J Biol Chem       Date:  2011-04-07       Impact factor: 5.157

7.  Characterization of the regulatory region of the dopa decarboxylase gene in Medaka: an in vivo green fluorescent protein reporter assay combined with a simple TA-cloning method.

Authors:  Kazuhiro E Fujimori
Journal:  Mol Biotechnol       Date:  2008-11-06       Impact factor: 2.695

8.  A high-throughput immobilized bead screen for stable proteins and multi-protein complexes.

Authors:  Meghan A Lockard; Pawel Listwan; Jean-Denis Pedelacq; Stéphanie Cabantous; Hau B Nguyen; Thomas C Terwilliger; Geoffrey S Waldo
Journal:  Protein Eng Des Sel       Date:  2011-06-03       Impact factor: 1.650

9.  How to find soluble proteins: a comprehensive analysis of alpha/beta hydrolases for recombinant expression in E. coli.

Authors:  Markus Koschorreck; Markus Fischer; Sandra Barth; Jürgen Pleiss
Journal:  BMC Genomics       Date:  2005-04-02       Impact factor: 3.969

10.  A Method for Systematic Assessment of Intrinsically Disordered Protein Regions by NMR.

Authors:  Natsuko Goda; Kana Shimizu; Yohta Kuwahara; Takeshi Tenno; Tamotsu Noguchi; Takahisa Ikegami; Motonori Ota; Hidekazu Hiroaki
Journal:  Int J Mol Sci       Date:  2015-07-10       Impact factor: 5.923

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