Systematic comparison of crystal and NMR protein structures deposited in the protein data bank.
Systematic comparison of crystal and NMR protein structures deposited in the protein data bank.
Systematic comparison of crystal and NMR protein structures deposited in the protein data bank.
Open Biochem J. 2010;4:83-95
Authors: Sikic K, Tomic S, Carugo O
Nearly all the macromolecular three-dimensional structures deposited in Protein Data Bank were determined by either crystallographic (X-ray) or Nuclear Magnetic Resonance (NMR) spectroscopic methods. This paper reports a systematic comparison of the crystallographic and NMR results deposited in...
nmrlearner
Journal club
0
02-05-2011 05:28 PM
[NMR paper] Assessing precision and accuracy of protein structures derived from NMR data.
Assessing precision and accuracy of protein structures derived from NMR data.
Related Articles Assessing precision and accuracy of protein structures derived from NMR data.
Proteins. 2005 Jun 1;59(4):655-61
Authors: Snyder DA, Bhattacharya A, Huang YJ, Montelione GT
nmrlearner
Journal club
0
11-25-2010 08:21 PM
CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data -
CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data - 7thSpace Interactive (press release)
<img alt="" height="1" width="1" />
CoNSEnsX: an ensemble view of protein structures and NMR-derived experimental data
7thSpace Interactive (press release)
These ensembles are usually substantially more diverse than conventional NMR ensembles and eliminate the expectation that a single conformer should fulfill ...
Read here
nmrlearner
Online News
0
10-29-2010 09:32 PM
[NMR paper] Calculating protein structures from NMR data.
Calculating protein structures from NMR data.
Related Articles Calculating protein structures from NMR data.
Methods Mol Biol. 1997;60:157-94
Authors: Güntert P
nmrlearner
Journal club
0
08-22-2010 03:03 PM
[NMR paper] Conformational analysis of protein structures derived from NMR data.
Conformational analysis of protein structures derived from NMR data.
Related Articles Conformational analysis of protein structures derived from NMR data.
Proteins. 1993 Nov;17(3):232-51
Authors: MacArthur MW, Thornton JM
A study is presented of the conformational characteristics of NMR-derived protein structures in the Protein Data Bank compared to X-ray structures. Both ensemble and energy-minimized average structures are analyzed. We have addressed the problem using the methods developed for crystal structures by examining the distribution...
nmrlearner
Journal club
0
08-22-2010 03:01 AM
[NMR paper] Computational methods for determining protein structures from NMR data.
Computational methods for determining protein structures from NMR data.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Computational methods for determining protein structures from NMR data.
Biochem Pharmacol. 1990 Jul 1;40(1):15-22
Authors: Gippert GP, Yip PF, Wright PE, Case DA
The general procedures by which solution structures of proteins may be deduced from distance and angular constraints derived from NMR are reviewed, with an emphasis on practical aspects of...
nmrlearner
Journal club
0
08-21-2010 10:48 PM
[NMR paper] Refinement of the NMR structures for acyl carrier protein with scalar coupling data.
Refinement of the NMR structures for acyl carrier protein with scalar coupling data.
Related Articles Refinement of the NMR structures for acyl carrier protein with scalar coupling data.
Proteins. 1990;8(4):377-85
Authors: Kim Y, Prestegard JH
Structure determination of small proteins using NMR data is most commonly pursued by combining NOE derived distance constraints with inherent constraints based on chemical bonding. Ideally, one would make use of a variety of experimental observations, not just distance constraints. Here, coupling...
nmrlearner
Journal club
0
08-21-2010 10:48 PM
[NMR analysis blog] Basics on Arrayed-NMR Data Analysis (Part III): Extracting and calculating useful NMR
Basics on Arrayed-NMR Data Analysis (Part III): Extracting and calculating useful NMR related molecular information
After the basic introductory posts on arrayed NMR experiments, it’s now time to get some action and see how to extract relevant information from these experiments and calculate useful NMR related parameters such as diffusion, relaxation times, kinetics constants, etc.
Actually, in this post I will cover the first case, that is, the analysis of PFG experiments to calculate diffusion coefficients. The reason for this is twofold: (1) I have a nice PFG data set whilst the...