Jan Jensen edited sigma_i__HB_is_the__.tex  almost 9 years ago

Commit id: 2f6a12ba4b0afd80354a53228c99140cee73a825

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\sigma^i_{HB} $\sigma^i_{HB}$  is the effect of hydrogen bonding to the H(N) and O(C) atoms of residue $i$, respectively, on the chemical shielding of the backbone amide atoms (i.e. this term is zero for CB) and has two contribution. $$ \sigma^i_{HB}=\sigma^i_{1^\circ HB(r_{\mathrm{HO}},\theta_{\mathrm{H},\rho_{\mathrm{H}}+\sigma^i_{2^\circ HB(r_{\mathrm{OH}},\theta_{\mathrm{O},\rho_{\mathrm{O}}$$ HB}(r_{\mathrm{HO}},\theta_{\mathrm{H}},\rho_{\mathrm{H}})+\sigma^i_{2^\circ HB}(r_{\mathrm{OH}},\theta_{\mathrm{O}},\rho_{\mathrm{O}})$$  Here $r_{\mathrm{HO}}$ refers to the OH HB distance involving the amide H and θH and ρH are the corresponding angles (Figure 2). Similarly, $r_{\mathrm{OH}}$ refers to the OH HB distance involving the amide O and $\theta_{\mathrm{O}}$ and $\rho_{\mathrm{O}}$ are the corresponding angles. For H(N), N, CA, and HA is computed using the amide proton of residue $i$, i.e. $\sigma^i_{HB}=\sigma^i_{1^\circ HB}(r_{\mathrm{H(i)O}},\theta_{\mathrm{H}i},\rho_{\mathrm{H}i})$, while for C’, which is bonded to the N atom of the subsequent residue, $\sigma^i_{1^\circ HB}$ is computed using the amide proton of residue $i+1$. is computed for C’, HA and CA using the O of residue i, while for H(N) and N, it is computed using the O(C) atom of the preceding $(i-1)$ residue.