Tutorials: Difference between revisions
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== Downloads == | |||
* Download the latest [[Media:cyana-3.0demo-linux090713.tgz|demo version of CYANA 3.0]]. The demo version has the full functionality of the program for the protein sequences that are used in the following example calculations. | |||
* Download [[Media:Cyana-3.0-demo.zip|input data files]] for the following example calculations. | |||
== Example calculations == | == Example calculations == | ||
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** [[Calculate RMSD values and mean structures]] | ** [[Calculate RMSD values and mean structures]] | ||
** [[Angle restraints from the program TALOS]] | ** [[Angle restraints from the program TALOS]] | ||
== Input file formats == | == Input file formats == | ||
Revision as of 11:06, 14 July 2009
Downloads
- Download the latest demo version of CYANA 3.0. The demo version has the full functionality of the program for the protein sequences that are used in the following example calculations.
- Download input data files for the following example calculations.
Example calculations
- Basic structure calculation starting from given restraints
- Structure calculation using manually assigned NOESY peak lists
- Structure calculation with automated NOESY assignment
- Homodimer structure calculation with automated NOESY assignment
- Structure calculations using residual dipolar coupling restraints
- Structure calculations using pseudocontact shift restraints
- Various additional tasks
- Analyze a structure
- Angle restraints based on CA chemical shifts
- Create restraints for disulfide bonds
- Systematic local conformation analysis
- Create restraints for hydrogen bonds
- Merge multiple restraints files
- Migrate data from Cyana 1.x or Dyana
- Migrate data from Xplor or CNS
- Modify upper distance limits
- NOE statistics and plots
- Prepare files for PDB and BMRB deposition
- Create restraints to close flexible PRO rings
- Ramachandran plot and rotamer restraints
- Renumber chemical shifts and peaks
- Calculate RMSD values and mean structures
- Angle restraints from the program TALOS
Input file formats
- Residue library file (.lib)
- Sequence file (.seq)
- Distance restraint file (.upl, .lol)
- Torsion angle restraint file (.aco)
- Residual dipolar coupling restraint file (.rdc)
- Pseudocontact shift restraint file (.pcs)
- DG Cartesian coordinate file (.cor)
- PDB coordinate file (.pdb)
- Torsion angle file (.ang)
- XEASY chemical shift list file (.prot)
- BMRB chemical shift list file (.bmrb)
- XEASY peak list file (.peaks)
- NMRView peak list file (.xpk)