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Tool

Overview page. Subjects: Music.

One of the leading US alternative metal acts to emerge from the 90s, Tool was formed in Los Angeles, California, in 1990 by Adam Jones (b. 15 January 1965, Libertyville ...

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ProSup: a refined tool for protein structure alignment

Peter Lackner, Walter A. Koppensteiner, Manfred J. Sippl and Francisco S. Domingues.

in Protein Engineering, Design and Selection

November 2000; p ublished online November 2000 .

Journal Article. Subjects: Proteins. 5145 words.

We investigated and optimized a method for structure comparison which is based on rigid body superimposition. The method maximizes the number of structurally equivalent residues while...

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Green fluorescent antibodies: novel <i>in vitro</i> tools

Joanne L. Casey, Andrew M. Coley, Leann M. Tilley and Michael Foley.

in Protein Engineering, Design and Selection

June 2000; p ublished online June 2000 .

Journal Article. Subjects: Proteins. 5008 words.

We produced a fluorescent antibody as a single recombinant protein in Escherichia coli by fusing a red-shifted mutant of green fluorescent protein (EGFP) to a single-chain antibody variable...

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Common Structural Cliques: a tool for protein structure and function analysis

Mariusz Milik, Sándor Szalma and Krzysztof A. Olszewski.

in Protein Engineering, Design and Selection

August 2003; p ublished online August 2003 .

Journal Article. Subjects: Proteins. 7389 words.

Proposed is a method for locating functionally relevant atoms in protein structures and a representation of spatial arrangements of these atoms allowing for a flexible description of active...

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Molecular dynamics simulations as a tool for improving protein stability

Mariël G. Pikkemaat, Antonius B.M. Linssen, Herman J.C. Berendsen and Dick B. Janssen.

in Protein Engineering, Design and Selection

March 2002; p ublished online March 2002 .

Journal Article. Subjects: Proteins. 6871 words.

Haloalkane dehalogenase (DhlA) was used as a model protein to explore the possibility to use molecular dynamics (MD) simulations as a tool to identify flexible regions in proteins that can...

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A web-based tool for rational screening of mutants libraries using ProSAR

Magali Berland, Bernard Offmann, Isabelle André, Magali Remaud-Siméon and Philippe Charton.

in Protein Engineering, Design and Selection

October 2014; p ublished online August 2014 .

Journal Article. Subjects: Proteins. 3367 words.

In directed evolution experiments, it is at stake to have methods to screen efficiently the mutant libraries. We propose a web-based tool that implements an established in silico method for...

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Incorporating Synthetic Oligonucleotides via Gene Reassembly (ISOR): a versatile tool for generating targeted libraries

Asael Herman and Dan S. Tawfik.

in Protein Engineering, Design and Selection

May 2007; p ublished online May 2007 .

Journal Article. Subjects: Proteins. 5849 words.

The directed evolution of proteins has benefited greatly from site-specific methods of diversification such as saturation mutagenesis. These techniques target diversity to a number of...

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Covalent DNA display as a novel tool for directed evolution of proteins <i>in vitro</i>

Julian Bertschinger and Dario Neri.

in Protein Engineering, Design and Selection

September 2004; p ublished online November 2004 .

Journal Article. Subjects: Proteins. 7300 words.

We present a novel method for the directed evolution of polypeptides, which combines in vitro compartmentalization and covalent DNA display. A library of linear DNA fragments is co-packaged...

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Sequences annotated by structure: a tool to facilitate the use of structural information in sequence analysis.

D Milburn, R A Laskowski and J M Thornton.

in Protein Engineering, Design and Selection

October 1998; p ublished online October 1998 .

Journal Article. Subjects: Proteins. 0 words.

With the aim of bridging the gap between protein sequence and structural analyses, we have developed a tool to aid the identification of new protein sequences by recognizing distant...

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Rapid and easy development of versatile tools to study protein/ligand interactions

M. Vandevenne, G. Gaspard, N. Yilmaz, F. Giannotta, J.M. Frère, M. Galleni and P. Filée.

in Protein Engineering, Design and Selection

July 2008; p ublished online May 2008 .

Journal Article. Subjects: Proteins. 5657 words.

The system described here allows the expression of protein fragments into a solvent-exposed loop of a carrier protein, the β-lactamase BlaP. When using Escherichia coli constitutive...

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The effect of chirality and steric hindrance on intrinsic backbone conformational propensities: tools for protein design

Matthew Carter Childers, Clare-Louise Towse and Valerie Daggett.

in Protein Engineering, Design and Selection

July 2016; p ublished online June 2016 .

Journal Article. Subjects: Proteins. 7439 words.

The conformational propensities of amino acids are an amalgamation of sequence effects, environmental effects and underlying intrinsic behavior. Many have attempted to investigate...

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