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NMR processing:
MDD
NMR assignment:
Backbone:
Autoassign
MARS
UNIO Match
PINE
Side-chains:
UNIO ATNOS-Ascan
NOEs:
UNIO ATNOS-Candid
UNIO Candid
ASDP
Structure from NMR restraints:
Ab initio:
GeNMR
Cyana
XPLOR-NIH
ASDP
UNIO ATNOS-Candid
UNIO Candid
Fragment-based:
BMRB CS-Rosetta
Rosetta-NMR (Robetta)
Template-based:
GeNMR
I-TASSER
Refinement:
Amber
Structure from chemical shifts:
Fragment-based:
WeNMR CS-Rosetta
BMRB CS-Rosetta
Homology-based:
CS23D
Simshift
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:
Shiftcor
UNIO Shiftinspector
LACS
CheckShift
RefDB
NMR model quality:
NOEs, other restraints:
PROSESS
PSVS
RPF scores
iCing
Chemical shifts:
PROSESS
CheShift2
Vasco
iCing
RDCs:
DC
Anisofit
Pseudocontact shifts:
Anisofit
Protein geomtery:
Resolution-by-Proxy
PROSESS
What-If
iCing
PSVS
MolProbity
SAVES2 or SAVES4
Vadar
Prosa
ProQ
MetaMQAPII
PSQS
Eval123D
STAN
Ramachandran Plot
Rampage
ERRAT
Verify_3D
Harmony
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:
camLILA
ccSOL
Camfold
camGroEL
Zyggregator
Isotope labeling:
UPLABEL
Solid-state NMR:
sedNMR

Showing results 1 to 8 of 8
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Search: Threads Started By: linawaed
  Thread / Thread Starter Last Post Replies Views Forum
Go to first new post Prof. Richard Neutze's NMR lectures
Some NMR lectures by Prof. Richard Neutze (Göteborg Centre for Structural Biology, Sweden): 1. Protein NMR - introduction and concepts 2. Protein NMR - experimental techniques 3. Sequence-specific resonance assignment 4. NMR structure determination 5. Protein dynamics by NMR 6. Projection spectroscopy - reducing the dimensionality of multi-nuclei experiments
linawaed
09-02-2008 07:57 PM
by linawaed Go to last post
0 4,526 Educational web pages
Go to first new post Prof. Walter Chazin's classnotes on biomolecular NMR
Here are some NMR classnotes by Prof. Walter Chazin (Vanderbilt University Center for Structural Biology): Introduction to Structural Biology Biomolecular Nuclear Magnetic Resonance Spectroscopy How NMR is Used for the Study of Biomacromolecules More of his classnotes can be found on the Vanderbilt website: http://structbio.vanderbilt.edu/chazin/classnotes/
linawaed
09-02-2008 07:22 PM
by linawaed Go to last post
0 3,810 Educational web pages
Go to first new post Postdoctoral Fellow Positions - Structural Biophysics Laboratory, NCI (Frederick), NIH
SpinCore are advertising 2 post-doc research fellow vacancies at the Structural Biophysics Lab of the NCI. """ Postdoctoral Fellow Positions Structural Biophysics Laboratory, NCI (Frederick), NIH The Macromolecular Section of the Structural Biophysics Laboratory (SBL), Center for Cancer Research (CCR), National Cancer Institute (NCI), National Institutes of Health (NIH), Department of Health and Human Services (DHHS), seeks to recruit two postdoctoral fellows who are well trained in solution nuclear magnetic resonance spectroscopy and/or in bio-macromolecular structural biology. ...
linawaed
08-11-2008 12:20 PM
by linawaed Go to last post
0 15,553 Job marketplace
Go to first new post Hadamard NMR spectroscopy for relaxation measurements of large (>35 kDa) proteins
Hadamard NMR spectroscopy for relaxation measurements of large (>35 kDa) proteins B. Tom Burnley, Arnout P. Kalverda, Stephen J. Paisey, Alan Berry and Steve W. Homans Journal of Biomolecular NMR; 2007; 39(3) pp 239 - 245 Abstract: Here we present a suite of pulse sequences for the measurement of 15N T1, T1ρ and NOE data that combine traditional TROSY-based pulse sequences with band-selective Hadamard frequency encoding. The additive nature of the Hadamard matrix produces much reduced resonance overlap without the need for an increase in the dimensionality of the experiment or a...
linawaed
08-04-2008 10:43 AM
by linawaed Go to last post
0 3,286 Journal club
Go to first new post Welcome
Covariance NMR in higher dimensions: application to 4D NOESY spectroscopy of proteins David A. Snyder, Fengli Zhang and Rafael Brüschweiler Journal of Biomolecular NMR; 2007; 39(3) pp 165 - 175 Abstract: Elucidation of high-resolution protein structures by NMR spectroscopy requires a large number of distance constraints that are derived from nuclear Overhauser effects between protons (NOEs). Due to the high level of spectral overlap encountered in 2D NMR spectra of proteins, the measurement of high quality distance constraints requires higher dimensional NMR experiments. Although...
linawaed
08-04-2008 10:35 AM
by linawaed Go to last post
0 2,645 Journal club
Go to first new post Structure refinement based on adaptive restraints using local-elevation simulation
Biomolecular structure refinement based on adaptive restraints using local-elevation simulation Markus Christen, Bettina Keller and Wilfred F. van Gunsteren Journal of Biomolecular NMR; 2007; 39(4) pp 265 - 273 Abstract: Introducing experimental values as restraints into molecular dynamics (MD) simulation to bias the values of particular molecular properties, such as nuclear Overhauser effect intensities or distances, dipolar couplings, 3 J-coupling constants, chemical shifts or crystallographic structure factors, towards experimental values is a widely used structure refinement...
linawaed
08-04-2008 04:29 AM
by linawaed Go to last post
0 2,768 Journal club
Go to first new post The war of tools: how can NMR spectroscopists detect errors in their structures?
The war of tools: how can NMR spectroscopists detect errors in their structures? Edoardo Saccenti and Antonio Rosato Journal of Biomolecular NMR; 2008; 40(4) pp 251 - 261 Abstract: Protein structure determination by NMR methods has started in the mid-eighties and has been growing steadily since then. Ca. 14% of the protein structures deposited in the PDB have been solved by NMR. The evaluation of the quality of NMR structures however is still lacking a well-established practice. In this work, we examined various tools for the assessment of structural quality to ascertain the extent to...
linawaed
08-04-2008 04:09 AM
by linawaed Go to last post
0 2,933 Journal club
Go to first new post Double quantum filtering homonuclear MAS NMR correlation spectra: a tool for membrane protein studies
Double quantum filtering homonuclear MAS NMR correlation spectra: a tool for membrane protein studies Jakob J. Lopez, Christoph Kaiser, Sarika Shastri and Clemens Glaubitz Journal of Biomolecular NMR; 2008; 41(2) pp 97 - 104 Abstract: 13C homonuclear correlation spectra based on proton driven spin diffusion (PDSD) are becoming increasingly important for obtaining distance constraints from multiply labeled biomolecules by MAS NMR. One particular challenging situation arises when such constraints are to be obtained from spectra with a large natural abundance signal background which...
linawaed
08-04-2008 04:01 AM
by linawaed Go to last post
0 3,725 Journal club
Showing results 1 to 8 of 8

 
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