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NMR processing:
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NMR assignment:
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MARS
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PINE
Side-chains:
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NOEs:
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UNIO Candid
ASDP
Structure from NMR restraints:
Ab initio:
GeNMR
Cyana
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UNIO ATNOS-Candid
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Fragment-based:
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Template-based:
GeNMR
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Refinement:
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Structure from chemical shifts:
Fragment-based:
WeNMR CS-Rosetta
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Homology-based:
CS23D
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Torsion angles from chemical shifts:
Preditor
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Secondary structure from chemical shifts:
CSI (via RCI server)
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PECAN
Flexibility from chemical shifts:
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Interactions from chemical shifts:
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Chemical shifts re-referencing:
Shiftcor
UNIO Shiftinspector
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CheckShift
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NMR model quality:
NOEs, other restraints:
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Chemical shifts:
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iCing
RDCs:
DC
Anisofit
Pseudocontact shifts:
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Protein geomtery:
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What-If
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SAVES2 or SAVES4
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Verify_3D
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NMR spectrum prediction:
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Flexibility from structure:
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Molecular dynamics:
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Chemical shifts prediction:
From structure:
Shiftx2
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CH3shift- Methyl
ArShift- Aromatic
ShiftS
Proshift
PPM
CheShift-2- Cα
From sequence:
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Disordered proteins:
MAXOCC
Format conversion & validation:
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From NMR-STAR 3.1
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NMR sample preparation:
Protein disorder:
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Protein solubility:
camLILA
ccSOL
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Isotope labeling:
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Old 08-14-2010, 04:19 AM
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Default Mapping of protein structural ensembles by chemical shifts

Abstract Applying the chemical shift prediction programs SHIFTX and SHIFTS to a data base of protein structures with known chemical shifts we show that the averaged chemical shifts predicted from the structural ensembles explain better the experimental data than the lowest energy structures. This is in agreement with the fact that proteins in solution occur in multiple conformational states in fast exchange on the chemical shift time scale. However, in contrast to the real conditions in solution at ambient temperatures, the standard NMR structural calculation methods as well chemical shift prediction methods are optimized to predict the lowest energy ground state structure that is only weakly populated at physiological temperatures. An analysis of the data shows that a chemical shift prediction can be used as measure to define the minimum size of the structural bundle required for a faithful description of the structural ensemble.
  • Content Type Journal Article
  • DOI 10.1007/s10858-010-9438-4
  • Authors
    • Kumaran Baskaran, University of Regensburg Department of Biophysics and Physical Biochemistry 93040 Regensburg Federal Republic of Germany
    • Konrad Brunner, University of Regensburg Department of Biophysics and Physical Biochemistry 93040 Regensburg Federal Republic of Germany
    • Claudia E. Munte, University of Regensburg Department of Biophysics and Physical Biochemistry 93040 Regensburg Federal Republic of Germany
    • Hans Robert Kalbitzer, University of Regensburg Department of Biophysics and Physical Biochemistry 93040 Regensburg Federal Republic of Germany

Source: Journal of Biomolecular NMR
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