Hello Sparky users, i want to generate distance retraints from the Noe peak volumes i have. sofar i have integrated all the peaks and i tried to classify them
[NMR Sparky Yahoo group] R: [nmr_sparky] noe distance restraints
R: noe distance restraints
Hi Werkawi, the peak list you generate with lt after integration can be saved in a .list file. This file can be the input for some program, in python or the
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nmrlearner
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09-28-2012 04:15 AM
[Question from NMRWiki Q&A forum] How to extract inter distance restraints of homodimer protein from known crystal structure ?
How to extract inter distance restraints of homodimer protein from known crystal structure ?
Hello friends ,
my target protein exist as dimer and tetrameter , I would like to calculate the solution structure of dimer . i want extract inter distance restraints between two monomers of homo-dimer protein by using known crystal structure( pdb ). Unfortunately my c13 and n15 filter noesy experiment is failed . How to extract distance restraints from pdb of Homodimer .
Regards Srinivas
nmrlearner
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04-13-2012 08:21 PM
[Question from NMRWiki Q&A forum] Generate inter-proton distance restraints from an X-ray structure
Generate inter-proton distance restraints from an X-ray structure
Hello,
Does anyone know of any program that can generate inter-proton distance restraints from an X-ray structure?I was able to use Molmol to generate dihedral angles. MolMol can also generate inter-atom distances, however, I could not figure out how to just generate 1H-1H distances. I have a total of 50,000 inter-atom distance (H-H, C-O, C-N...all types).
Any help is highly appreciated.
Winston
nmrlearner
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04-25-2011 03:43 AM
Impact of (15)N R(2)/R(1) Relaxation Restraints on Molecular Size, Shape, and Bond Vector Orientation for NMR Protein Structure Determination with Sparse Distance Restraints.
Impact of (15)N R(2)/R(1) Relaxation Restraints on Molecular Size, Shape, and Bond Vector Orientation for NMR Protein Structure Determination with Sparse Distance Restraints.
Impact of (15)N R(2)/R(1) Relaxation Restraints on Molecular Size, Shape, and Bond Vector Orientation for NMR Protein Structure Determination with Sparse Distance Restraints.
J Am Chem Soc. 2011 Apr 4;
Authors: Ryabov Y, Schwieters CD, Clore GM
(15)N R(2)/R(1) relaxation data contain information on molecular shape and size as well as on bond vector orientations relative to...
nmrlearner
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04-06-2011 10:54 AM
Impact of 15N R2/R1 Relaxation Restraints on Molecular Size, Shape, and Bond Vector Orientation for NMR Protein Structure Determination with Sparse Distance Restraints
Impact of 15N R2/R1 Relaxation Restraints on Molecular Size, Shape, and Bond Vector Orientation for NMR Protein Structure Determination with Sparse Distance Restraints
Yaroslav Ryabov, Charles D. Schwieters and G. Marius Clore
http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja201020c/aop/images/medium/ja-2011-01020c_0002.gif
Journal of the American Chemical Society
DOI: 10.1021/ja201020c
http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA
http://feeds.feedburner.com/~r/acs/jacsat/~4/3J1IyCLkQMQ
nmrlearner
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04-05-2011 10:37 AM
[NMR paper] Automated NOESY interpretation with ambiguous distance restraints: the refined NMR so
Automated NOESY interpretation with ambiguous distance restraints: the refined NMR solution structure of the pleckstrin homology domain from beta-spectrin.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Automated NOESY interpretation with ambiguous distance restraints: the refined NMR solution structure of the pleckstrin homology domain from beta-spectrin.
J Mol Biol. 1997 Jun 13;269(3):408-22
Authors: Nilges M, Macias MJ, O'Donoghue SI, Oschkinat H
We have used a...
nmrlearner
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08-22-2010 03:31 PM
[NMR paper] Automated NOESY interpretation with ambiguous distance restraints: the refined NMR so
Automated NOESY interpretation with ambiguous distance restraints: the refined NMR solution structure of the pleckstrin homology domain from beta-spectrin.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Automated NOESY interpretation with ambiguous distance restraints: the refined NMR solution structure of the pleckstrin homology domain from beta-spectrin.
J Mol Biol. 1997 Jun 13;269(3):408-22
Authors: Nilges M, Macias MJ, O'Donoghue SI, Oschkinat H
We have used a...
nmrlearner
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08-22-2010 03:03 PM
Distance restraints for structure determination
Distance restraints for structure determination
Experimentally derived parameters for protein structure determination, Part 1: nOe distance restraints. Lecture by Dr. Matthew Cordes from University of Arizona.
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noe distance restraints
Linear Mode
