[NMR Sparky Yahoo group] R: [nmr_sparky] Re: distance constraints from NOESY crosspeaks
R: Re: distance constraints from NOESY crosspeaks
A single spectrum at 300 ms contains a lot of spin diffusion. It's good to assign DNA/RNA not for constraints. Try to use something like 50 ms instead. Marco
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nmrlearner
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02-13-2012 02:34 AM
[NMR Sparky Yahoo group] Re: distance constraints from NOESY crosspeaks
Re: distance constraints from NOESY crosspeaks
Did you do the build up with different mixing time?Jay From: jennig148 To: nmr_sparky@yahoogroups.com Sent: Friday, February 10,
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nmrlearner
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02-10-2012 09:28 PM
[NMR Sparky Yahoo group] distance constraints from NOESY crosspeaks
distance constraints from NOESY crosspeaks
Hello users, I have a NOESY spectrum of a DNA/RNA strand. I try to get the distance constraints by integration of the NOESY crosspeaks and then converting the
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nmrlearner
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02-10-2012 09:28 PM
[Question from NMRWiki Q&A forum] Problem while genrating the constraints form N-15 edit AND C-13 EDIT NOESY files
Problem while genrating the constraints form N-15 edit AND C-13 EDIT NOESY files
I am encountering the problem while generating the constraints form N-15 edit AND C-13 EDIT NOESY files that very few constraints 200 out of 2400 peaks .Calibration is OK .chemical shift file is good agreement with secondary structure of know crystal structure .Completeness of assignment:Completeness of all atom assignment is 80.74 %.Completeness of proton atom assignment is 82.50 %.Completeness of heavy atom assignment is 74.56 %.Completeness of all atom assignment is 74.58 %.Completeness of proton atom...
nmrlearner
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12-24-2011 12:27 AM
[Question from NMRWiki Q&A forum] Auto peak picking of N15Edit NOESY and C13 Edit NOESY spectrum
Auto peak picking of N15Edit NOESY and C13 Edit NOESY spectrum
Dear friends,
I am in process of doing structure calculation of a dimeric protein. The problem I faced is regarding the assignment of N15Edit NOESY and C13 Edit NOESY spectrum.I have already processed the fid data and converted to sparky ucsf format. Is there options available in sparky for auto peak picking, integration and assignment of my NOESY spectrum? And second query is regarding the generation of input files for structure calculation. In our Lab we are using ARIA 2.1 software for structure calculation? Is there any...
nmrlearner
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12-14-2011 07:14 PM
Time-shared HSQC-NOESY for accurate distance constraints measured at high-field in 15N-13C-ILV methyl labeled proteins
Time-shared HSQC-NOESY for accurate distance constraints measured at high-field in 15N-13C-ILV methyl labeled proteins
Abstract We present a time-shared 3D HSQC-NOESY experiment that enables one to simultaneously record 13C- and 15N-dispersed spectra in Ile, Leu and Val (ILV) methyl-labeled samples. This experiment is designed to delineate the two spectra which would otherwise overlap with one another when acquired together. These spectra display nOe correlations in the detected proton dimension, i.e. with maximum resolution. This is in contrast to NOESY-HSQC types of experiments that...
nmrlearner
Journal club
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01-09-2011 12:46 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
Journal club
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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...