Literature DB >> 9342144

Correlation between side chain mobility and conformation in protein structures.

O Carugo1, P Argos.   

Abstract

Thermal factors of protein atoms as determined by X-ray crystallographic techniques show a tendency to be larger in side chains with unfavourable local conformations rather than in those displaying conformational energy minima. It follows that side chain atoms are more mobile if they are in a non-rotameric configuration and that the stereochemistry of protein structures cannot be fully assessed or simulated without consideration of thermal factors that monitor flexibility in various regions of the protein. The observations should also prove useful in protein folding and design.

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Year:  1997        PMID: 9342144     DOI: 10.1093/protein/10.7.777

Source DB:  PubMed          Journal:  Protein Eng        ISSN: 0269-2139


  21 in total

1.  Decomposition of protein tryptophan fluorescence spectra into log-normal components. III. Correlation between fluorescence and microenvironment parameters of individual tryptophan residues.

Authors:  Y K Reshetnyak; Y Koshevnik; E A Burstein
Journal:  Biophys J       Date:  2001-09       Impact factor: 4.033

2.  Improved amino acid flexibility parameters.

Authors:  David K Smith; Predrag Radivojac; Zoran Obradovic; A Keith Dunker; Guang Zhu
Journal:  Protein Sci       Date:  2003-05       Impact factor: 6.725

3.  B-factor Analysis and Conformational Rearrangement of Aldose Reductase.

Authors:  Ganesaratnam K Balendiran; J Rajendran Pandian; Evin Drake; Anubhav Vinayak; Malkhey Verma; Duilio Cascio
Journal:  Curr Proteomics       Date:  2014       Impact factor: 0.837

4.  Determination of ensemble-average pairwise root mean-square deviation from experimental B-factors.

Authors:  Antonija Kuzmanic; Bojan Zagrovic
Journal:  Biophys J       Date:  2010-03-03       Impact factor: 4.033

5.  Missing strings of residues in protein crystal structures.

Authors:  Kristina Djinovic-Carugo; Oliviero Carugo
Journal:  Intrinsically Disord Proteins       Date:  2015-10-23

6.  Transforming between discrete and continuous angle distribution models: application to protein χ₁ torsions.

Authors:  Jürgen M Schmidt
Journal:  J Biomol NMR       Date:  2012-07-31       Impact factor: 2.835

7.  Structure fluctuations and conformational changes in protein binding.

Authors:  Anatoly M Ruvinsky; Tatsiana Kirys; Alexander V Tuzikov; Ilya A Vakser
Journal:  J Bioinform Comput Biol       Date:  2012-04       Impact factor: 1.122

8.  Heterogeneity in the structural dynamics of Sulfolobus solfataricus beta-glycosidase revealed by electron paramagnetic resonance and frequency domain fluorometry.

Authors:  Evgenia Lozinsky; Ferdinando Febbraio; Alexander I Shames; Gertz I Likhtenshtein; Ettore Bismuto; Roberto Nucci
Journal:  Protein Sci       Date:  2002-11       Impact factor: 6.725

9.  Hysteresis and Allostery in Human UDP-Glucose Dehydrogenase Require a Flexible Protein Core.

Authors:  Nathaniel R Beattie; Brittany J Pioso; Andrew M Sidlo; Nicholas D Keul; Zachary A Wood
Journal:  Biochemistry       Date:  2018-11-30       Impact factor: 3.162

10.  Side-chain rotamer changes upon ligand binding: common, crucial, correlate with entropy and rearrange hydrogen bonding.

Authors:  Francis Gaudreault; Matthieu Chartier; Rafael Najmanovich
Journal:  Bioinformatics       Date:  2012-09-15       Impact factor: 6.937

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