conformer_search_type                                        flex
write_fragment_libraries                                     no
user_specified_anchor                                        no
limit_max_anchors                                            no
min_anchor_size                                              5
pruning_use_clustering                                       yes
pruning_max_orients                                          1000
pruning_clustering_cutoff                                    100
pruning_conformer_score_cutoff                               100.0
pruning_conformer_score_scaling_factor                       1.0
use_clash_overlap                                            no
write_growth_tree                                            no
use_internal_energy                                          no
ligand_atom_file                                             LIG
limit_max_ligands                                            no
skip_molecule                                                no
read_mol_solvation                                           no
calculate_rmsd                                               no
use_database_filter                                          no
orient_ligand                                                no
bump_filter                                                  no
score_molecules                                              yes
contact_score_primary                                        no
contact_score_secondary                                      no
grid_score_primary                                           no
grid_score_secondary                                         no
multigrid_score_primary                                      no
multigrid_score_secondary                                    no
dock3.5_score_primary                                        no
dock3.5_score_secondary                                      no
continuous_score_primary                                     no
continuous_score_secondary                                   no
footprint_similarity_score_primary                           no
footprint_similarity_score_secondary                         no
pharmacophore_score_primary                                  no
pharmacophore_score_secondary                                no
descriptor_score_primary                                     no
descriptor_score_secondary                                   no
gbsa_zou_score_primary                                       no
gbsa_zou_score_secondary                                     no
gbsa_hawkins_score_primary                                   yes
gbsa_hawkins_score_secondary                                 yes
gbsa_hawkins_score_rec_filename                              REC
gbsa_hawkins_score_solvent_dielectric                        78.5
gbsa_hawkins_use_salt_screen                                 yes
gbsa_hawkins_score_salt_conc(M)                              0.15
gbsa_hawkins_score_gb_offset                                 0.09
gbsa_hawkins_score_cont_vdw_and_es                           yes
gbsa_hawkins_score_vdw_att_exp                               6
gbsa_hawkins_score_vdw_rep_exp                               9
grid_score_rep_rad_scale                                     1
minimize_ligand                                              no
atom_model                                                   all
vdw_defn_file                                                /path_to/dock6/parameters/vdw_AMBER_parm99.defn
flex_defn_file                                               /path_to/dock6/parameters/flex.defn
flex_drive_file                                              /path_to/dock6/parameters/flex_drive.tbl
ligand_outfile_prefix                                        RESULTSPREFIX
write_orientations                                           no
num_primary_scored_conformers_rescored                       1
num_secondary_scored_conformers                              1
rank_primary_ligands                                         no
rank_secondary_ligands                                       no