Journal of biomolecular NMR (2012). Mark Berjanskii, Jianjun Zhou, Yongjie Liang, Guohui Lin, David S Wishart et al.
In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no parameter identical to X-ray resolution. Instead, resolution is often used as a synonym of NMR model quality. Resolution of NMR structures is often deduced from ensemble precision, torsion angle normality and number of distance restraints per residue. The lack of common techniques to assess the resolution of X-ray and NMR structures complicates the comparison of structures solved by these two methods. This problem is sometimes approached by calculating "equivalent resolution" from structure quality metrics. However, existing protocols do not offer a comprehensive assessment of protein structure as they calculate equivalent resolution from a relatively small number (
Did you find this post helpful? |
Similar Threads
Thread
Thread Starter
Forum
Replies
Last Post
A Simple Method to Measure Protein Side-Chain MobilityUsing NMR Chemical Shifts
A Simple Method to Measure Protein Side-Chain MobilityUsing NMR Chemical Shifts
Mark V. Berjanskii and David S. Wishart
http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja407509z/aop/images/medium/ja-2013-07509z_0003.gif
Journal of the American Chemical Society
DOI: 10.1021/ja407509z
http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA
http://feeds.feedburner.com/~r/acs/jacsat/~4/qRQjRZhXxAM
nmrlearner
Journal club
0
09-23-2013 09:41 PM
[NMR paper] A simple method to measure protein side-chain mobility using NMR chemical shifts.
A simple method to measure protein side-chain mobility using NMR chemical shifts.
http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--pubs.acs.org-images-pubmed-acspubs.jpg Related Articles A simple method to measure protein side-chain mobility using NMR chemical shifts.
J Am Chem Soc. 2013 Sep 13;
Authors: Berjanskii MV, Wishart DS
Abstract
Protein side-chain motions are involved in many important biological processes including enzymatic catalysis, allosteric regulation, and the mediation of protein-protein,...
nmrlearner
Journal club
0
09-17-2013 11:36 PM
[NMR paper] Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
From Mendeley Biomolecular NMR group:
Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
Journal of biomolecular NMR (2012). Mark Berjanskii, Jianjun Zhou, Yongjie Liang, Guohui Lin, David S Wishart et al.
In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no...
nmrlearner
Journal club
0
01-02-2013 01:48 PM
[NMR paper] Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
From Mendeley Biomolecular NMR group:
Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
Journal of biomolecular NMR (2012). Mark Berjanskii, Jianjun Zhou, Yongjie Liang, Guohui Lin, David S Wishart et al.
In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no...
nmrlearner
Journal club
0
10-19-2012 10:22 AM
[NMR paper] Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
From Mendeley Biomolecular NMR group:
Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
Journal of biomolecular NMR (2012). Mark Berjanskii, Jianjun Zhou, Yongjie Liang, Guohui Lin, David S Wishart et al.
In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no...
nmrlearner
Journal club
0
10-12-2012 09:58 AM
[NMR paper] Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
From Mendeley Biomolecular NMR group:
Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures.
Journal of biomolecular NMR (2012). Mark Berjanskii, Jianjun Zhou, Yongjie Liang, Guohui Lin, David S Wishart et al.
In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no...
nmrlearner
Journal club
0
08-24-2012 08:01 PM
Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures
Resolution-by-proxy: a simple measure for assessing and comparing the overall quality of NMR protein structures
<div class="Abstract" lang="en">Abstract <div class="normal">In protein X-ray crystallography, resolution is often used as a good indicator of structural quality. Diffraction resolution of protein crystals correlates well with the number of X-ray observables that are used in structure generation and, therefore, with protein coordinate errors. In protein NMR, there is no parameter identical to X-ray resolution. Instead, resolution is often used as a synonym of NMR model...
nmrlearner
Journal club
0
06-11-2012 08:14 AM
[NMR paper] Application of 1H NMR chemical shifts to measure the quality of protein structures.
Application of 1H NMR chemical shifts to measure the quality of protein structures.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Application of 1H NMR chemical shifts to measure the quality of protein structures.
J Mol Biol. 1995 Apr 7;247(4):541-6
Authors: Williamson MP, Kikuchi J, Asakura T
We have developed a program that can calculate proton NMR chemical shifts for proteins, using a set of co-ordinates provided for example from an X-ray or NMR structure. When...