Keywords: manual

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## energy_data.covalent_cys -- use disulfide bridges in residue distance

> This modulates the effect of residue_span_range; if `True`, the disulfide bridges are taken into account when calculating the residue index difference between two atoms (i.e., disulfides make some atom pairs closer in sequence). energy_data.covalent_cys = `True` is slow and only has an effect when certain statistical non-bonded potentials are used (i.e., energy_data.dynamic_modeller is `True` and the non-bonded library has been derived considering the disulfide effect). Thus, it should generally be set to `False`.