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Editor: damberger
Time: 2014/11/08 00:07:49 GMT+1 |
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Note: |
changed: - 4. Project !ProteinB (note for a homodimer, create a copy of ProjectA naming it ProjectB. This can be used for chain B of the homodimer. Otherwise follow the steps below) 4. Project !ProteinB (note for a homodimer, create a copy of ProjectA naming it !ProjectB. This can be used for chain B of the homodimer. Otherwise follow the steps below) changed: - c. read in the chemical shift list of protein B: right-click on the project Inter_A_lab_B_unlab and "Import-Atom List" selecting the option AtomList references "Residues" c. read in the chemical shift list of protein B: right-click on the project !ProteinAandB and "Import-Atom List" selecting the option AtomList references "Residues"
Determining the structures of complexes or oligomers requires some additional procedures. Typically isotope-labeling of individual components helps to simplify the problem. The project is therefore divided into subprojects where only the resonance assignments of the isotope-labeled component are determined. Later the assignments of the individual components must be merged so that the NOEs between components can be analysed using experiments which use isotope-filtering and -editing to obtain only intermolecular NOEs.
CARA provides support for this analysis by allowing the definition of samples with different isotope-labeling patterns Moreover, SpinLinks? which represent NOEs? between spins can be defined to only appear in a subset of NOESY spectra. Via the SpinLink? visibility the subset of NOEs? visible in isotope-filtered/edited experiments can be represented. (See release notes for how to do this, further information is forthcoming on the wiki).
number by ChainId
c. Enter a number in the "Add offset to SpinId?" field that is larger than the maximum SpinId? determined in step 4 (e.g. 5000)
d. Select format CYANA.
e. Click OK (this writes out a sequence file starting at the ChainNr? of the first residue of protein B, and a chemical shift list .prot where each spin has an Id in the output file which is +5000 compared to the Id it has in Project B. We do this so that the sequence and chemical shift list can be merged with that of project A.