fa_atr Lennard-Jones attractive between atoms in different residues fa_rep Lennard-Jones repulsive between atoms in different residues fa_sol Lazaridis-Karplus solvation energy fa_intra_sol_xover4 Intra-residue Lazaridis-Karplus solvation energy lk_ball_wtd Asymmetric solvation energy fa_intra_rep Lennard-Jones repulsive between atoms in the same residue fa_elec Coulombic electrostatic potential with a distance-dependent dielectric pro_close Proline ring closure energy and energy of psi angle of preceding residue hbond_sr_bb Backbone-backbone hbonds close in primary sequence hbond_lr_bb Backbone-backbone hbonds distant in primary sequence hbond_bb_sc Sidechain-backbone hydrogen bond energy hbond_sc Sidechain-sidechain hydrogen bond energy dslf_fa13 Disulfide geometry potential rama_prepro Ramachandran preferences (with separate lookup tables for pre-proline positions and other positions) omega Omega dihedral in the backbone. A Harmonic constraint on planarity with standard deviation of ~6 deg. p_aa_pp Probability of amino acid, given torsion values for phi and psi fa_dun Internal energy of sidechain rotamers as derived from Dunbrack's statistics yhh_planarity A special torsional potential to keep the tyrosine hydroxyl in the plane of the aromatic ring ref Reference energy for each amino acid. Balances internal energy of amino acid terms. Plays role in design. METHOD_WEIGHTS Not an energy term itself, but the parameters for each amino acid used by the ref energy term.
I read the ref2015 score.
I use the ddg_monomer with ref 2015
① some items are not found, such as fa_elec , omega, rama_prepro.
② In addition, I can not understand some result，
hbond_sc show a -1.165 value (more negative more stable?)
tryptophan is hydrophobic, I can not undestand how it can contribute stability due to the hbond_sc
③ If I want to introduce h-bond to improve the stability, which item of the score that should be concerened ( the sum of hbond_sr_bb，hbond_lr_bb，hbond_bb_sc and hbond_sc?)