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Jan Jensen edited In_the_case_of_CA__.tex
almost 9 years ago
Commit id: 23c4d4fb07fbb66cee8fe00f96e7253ae2cd8dcb
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For CB removing $\Delta \sigma_{1^\circ H\alpha B}^i$ decreases the RMSD by 0.2 - 0.5 ppm, while $\Delta \sigma_{BB}^{i-1}$ and $\Delta \sigma_{BB}^{i+1}$ increases and decreases the RMSD value depending on the protein. Accordingly only $\Delta \sigma_{1^\circ H\alpha B}^i$ is removed. Note that the structural models used for $\Delta \sigma_{1^\circ HB}^i$ and $\Delta \sigma_{2^\circ HB}^i$ do not contain a CB so there is no such contribution for this nucleus.
For C removing $\Delta \sigma_{1^\circ H B}^i$ decreases the RMSD for 2OED by 0.1 so we choose to remove this term for this atom type. Note that removing $\Delta \sigma_{2^\circ H\alpha B}^i$ increases the RMSD by 0.4 - 0.6 so this term is important for accurate predictions of C chemical shifts.
For H and HA we choose to retain all the terms. Not surprisingly, the respective primary hydrogen bonding terms lower the RMSD by 0.4 - 0.6 ppm and are crucial for accurate predictions.