NMR Sparky Yahoo group Re: distance constraints from NOESY crosspeaks

		BioNMR > NMR community > News from other NMR forums
[NMR Sparky Yahoo group] Re: distance constraints from NOESY crosspeaks

Webservers

NMR processing:

MDD

NMR assignment:

Backbone:

Side-chains:

NOEs:

Structure from NMR restraints:

Ab initio:

Fragment-based:

Rosetta-NMR (Robetta)

Template-based:

GeNMR

I-TASSER

Refinement:

Amber

Structure from chemical shifts:

Fragment-based:

Homology-based:

Torsion angles from chemical shifts:

Preditor

TALOS

Promega- Proline

Secondary structure from chemical shifts:

CSI (via RCI server)

TALOS

MICS caps, β-turns

d2D

PECAN

Flexibility from chemical shifts:

RCI

Interactions from chemical shifts:

HADDOCK

Chemical shifts re-referencing:

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

SAVES2 or SAVES4

Quality Control Check

NMR spectrum prediction:

FANDAS

MestReS

V-NMR

Flexibility from structure:

Backbone S2

Methyl S2

B-factor

Molecular dynamics:

Gromacs

Amber

Antechamber

Chemical shifts prediction:

From structure:

Shiftx2

Sparta+

Camshift

CH3shift- Methyl

ArShift- Aromatic

ShiftS

Proshift

PPM

CheShift-2- Cα

From sequence:

Shifty

Camcoil

Poulsen_rc_CS

Disordered proteins:

MAXOCC

Format conversion & validation:

CCPN

From NMR-STAR 3.1

Validate NMR-STAR 3.1

NMR sample preparation:

Protein disorder:

DisMeta

Protein solubility:

Isotope labeling:

Solid-state NMR:

Thread Tools

Search this Thread

Rate Thread

Display Modes

02-10-2012, 09:28 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,777

Points: 193,617, Level: 100

Level up: 0%, 0 Points needed

Activity: 50.7%

Last Achievements

Award-Showcase

NMR Credits: 0

NMR Points: 193,617

Downloads: 0

Uploads: 0

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,

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[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 More...	nmrlearner	News from other NMR forums	0	02-13-2012 02:34 AM
[NMR Sparky Yahoo group] Re: distance constraints from NOESY crosspeaks Re: distance constraints from NOESY crosspeaks No, i have only a spectrum with a mixing time of 300ms. More...	nmrlearner	News from other NMR forums	0	02-13-2012 02:34 AM
[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 More...	nmrlearner	News from other NMR forums	0	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	News from other NMR forums	0	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	News from other NMR forums	0	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	0	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	0	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	Journal club	0	08-22-2010 03:03 PM

« Previous Thread | Next Thread »

Posting Rules
You may not post new threads You may not post replies You may not post attachments You may not edit your posts BB code is On Smilies are On [IMG] code is On HTML code is On Trackbacks are Off Pingbacks are Off Refbacks are Off