Literature DB >> 18563369

Protein structure determination by x-ray crystallography.

Andrea Ilari1, Carmelinda Savino.   

Abstract

X-ray biocrystallography is the most powerful method to obtain a macromolecular structure. The improvement of computational technologies in recent years and the development of new and powerful computer programs together with the enormous increment in the number of protein structures deposited in the Protein Data Bank, render the resolution of new structures easier than in the past. The aim of this chapter is to provide practical procedures useful for solving a new structure. It is impossible to give more than a flavor of what the x-ray crystallographic technique entails in one brief chapter; therefore, this chapter focuses its attention on the Molecular Replacement method. Whenever applicable, this method allows the resolution of macromolecular structures starting from a single data set and a search model downloaded from the PDB, with the aid only of computer work.

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Year:  2008        PMID: 18563369     DOI: 10.1007/978-1-60327-159-2_3

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


  20 in total

1.  Subresidue-Resolution Footprinting of Ligand-Protein Interactions by Carbene Chemistry and Ion Mobility-Mass Spectrometry.

Authors:  Gaoyuan Lu; Xiaowei Xu; Gongyu Li; Huiyong Sun; Nian Wang; Yinxue Zhu; Ning Wan; Yatao Shi; Guangji Wang; Lingjun Li; Haiping Hao; Hui Ye
Journal:  Anal Chem       Date:  2019-12-11       Impact factor: 6.986

Review 2.  Escherichia coli DegP: a structure-driven functional model.

Authors:  Joaquin Ortega; Jack Iwanczyk; Ahmad Jomaa
Journal:  J Bacteriol       Date:  2009-05-22       Impact factor: 3.490

Review 3.  Studying DNA-protein interactions with single-molecule Förster resonance energy transfer.

Authors:  Shazia Farooq; Carel Fijen; Johannes Hohlbein
Journal:  Protoplasma       Date:  2013-12-28       Impact factor: 3.356

4.  Protein structure calculation with data imputation: the use of substitute restraints.

Authors:  Carolina Cano; Konrad Brunner; Kumaran Baskaran; Ralph Elsner; Claudia E Munte; Hans Robert Kalbitzer
Journal:  J Biomol NMR       Date:  2009-10-17       Impact factor: 2.835

Review 5.  Chemical cross-linking and native mass spectrometry: A fruitful combination for structural biology.

Authors:  Andrea Sinz; Christian Arlt; Dror Chorev; Michal Sharon
Journal:  Protein Sci       Date:  2015-05-27       Impact factor: 6.725

Review 6.  Hybrid methods for combined experimental and computational determination of protein structure.

Authors:  Justin T Seffernick; Steffen Lindert
Journal:  J Chem Phys       Date:  2020-12-28       Impact factor: 3.488

7.  Global analysis of protein structural changes in complex proteomes.

Authors:  Yuehan Feng; Giorgia De Franceschi; Abdullah Kahraman; Martin Soste; Andre Melnik; Paul J Boersema; Patrizia Polverino de Laureto; Yaroslav Nikolaev; Ana Paula Oliveira; Paola Picotti
Journal:  Nat Biotechnol       Date:  2014-09-14       Impact factor: 54.908

8.  Measuring protein structural changes on a proteome-wide scale using limited proteolysis-coupled mass spectrometry.

Authors:  Simone Schopper; Abdullah Kahraman; Pascal Leuenberger; Yuehan Feng; Ilaria Piazza; Oliver Müller; Paul J Boersema; Paola Picotti
Journal:  Nat Protoc       Date:  2017-10-26       Impact factor: 13.491

9.  Native top-down mass spectrometry for the structural characterization of human hemoglobin.

Authors:  Jiang Zhang; G Reza Malmirchegini; Robert T Clubb T Clubb; Joseph A Loo
Journal:  Eur J Mass Spectrom (Chichester)       Date:  2015       Impact factor: 1.067

10.  Dissociation of multisubunit protein-ligand complexes in the gas phase. Evidence for ligand migration.

Authors:  Yixuan Zhang; Lu Deng; Elena N Kitova; John S Klassen
Journal:  J Am Soc Mass Spectrom       Date:  2013-08-14       Impact factor: 3.109

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