data_9EEV # _model_server_result.job_id KBfVozegcUJUEDxCBQUa1Q _model_server_result.datetime_utc '2025-06-24 03:27:20' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 9eev # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 9EEV # _exptl.entry_id 9EEV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 501.542 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1R,2S,5S)-N-{(1E,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-2-carboxamide _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.12 _cell.angle_gamma 90 _cell.entry_id 9EEV _cell.length_a 44.947 _cell.length_b 53.204 _cell.length_c 113.698 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9EEV _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 44.947 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C23 H34 F3 N5 O4' _chem_comp.formula_weight 501.542 _chem_comp.id 4WI _chem_comp.mon_nstd_flag . _chem_comp.name (1R,2S,5S)-N-{(1E,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-2-carboxamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PF-07321332, bound form;nirmatrelvir, bound form;Paxlovid, bound form' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag O1 C8 4WI doub 1 n n C8 N2 4WI sing 2 n n C8 C5 4WI sing 3 n n N2 C7 4WI sing 4 n n C4 C5 4WI sing 5 n n C4 C2 4WI sing 6 n n C5 C6 4WI sing 7 n n N5 C3 4WI doub 8 n n C3 C2 4WI sing 9 n n C7 C6 4WI sing 10 n n C2 N1 4WI sing 11 n n N1 C1 4WI sing 12 n n F1 C22 4WI sing 13 n n O3 C13 4WI doub 14 n n C1 C9 4WI sing 15 n n C1 O2 4WI doub 16 n n F3 C22 4WI sing 17 n n C23 C15 4WI sing 18 n n C22 F2 4WI sing 19 n n C22 C21 4WI sing 20 n n C9 N3 4WI sing 21 n n C9 C12 4WI sing 22 n n C13 N3 4WI sing 23 n n C13 C14 4WI sing 24 n n N4 C21 4WI sing 25 n n N4 C14 4WI sing 26 n n C19 C18 4WI sing 27 n n N3 C10 4WI sing 28 n n C21 O4 4WI doub 29 n n C12 C18 4WI sing 30 n n C12 C11 4WI sing 31 n n C14 C15 4WI sing 32 n n C15 C17 4WI sing 33 n n C15 C16 4WI sing 34 n n C18 C20 4WI sing 35 n n C18 C11 4WI sing 36 n n C10 C11 4WI sing 37 n n C3 H33 4WI sing 38 n n C6 H5 4WI sing 39 n n C6 H6 4WI sing 40 n n C7 H7 4WI sing 41 n n C7 H8 4WI sing 42 n n C10 H11 4WI sing 43 n n C10 H12 4WI sing 44 n n C5 H4 4WI sing 45 n n C9 H10 4WI sing 46 n n C11 H13 4WI sing 47 n n C12 H14 4WI sing 48 n n C19 H23 4WI sing 49 n n C19 H24 4WI sing 50 n n C19 H25 4WI sing 51 n n C20 H26 4WI sing 52 n n C20 H27 4WI sing 53 n n C20 H28 4WI sing 54 n n C16 H17 4WI sing 55 n n C16 H19 4WI sing 56 n n C16 H18 4WI sing 57 n n C17 H20 4WI sing 58 n n C17 H21 4WI sing 59 n n C17 H22 4WI sing 60 n n C23 H29 4WI sing 61 n n C23 H30 4WI sing 62 n n C23 H31 4WI sing 63 n n C4 H2 4WI sing 64 n n C4 H3 4WI sing 65 n n C2 H32 4WI sing 66 n n C14 H15 4WI sing 67 n n N5 H36 4WI sing 68 n n N2 H9 4WI sing 69 n n N1 H1 4WI sing 70 n n N4 H16 4WI sing 71 n n # _atom_sites.entry_id 9EEV _atom_sites.fract_transf_matrix[1][1] 0.022248 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004373 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018796 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008964 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id 4WI _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 401 _pdbx_nonpoly_scheme.auth_seq_num 401 _pdbx_nonpoly_scheme.pdb_mon_id 4WI _pdbx_nonpoly_scheme.auth_mon_id 4WI _pdbx_nonpoly_scheme.pdb_ins_code . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C8 4WI . . . B 2 39.518 -25.392 -9.115 0.8 100.98 ? C8 4WI 401 A 1 HETATM 2 C C3 4WI . . . B 2 42.158 -28.916 -11.479 0.8 100.3 ? C3 4WI 401 A 1 HETATM 3 C C1 4WI . . . B 2 42.299 -27.019 -13.837 0.8 83.91 ? C1 4WI 401 A 1 HETATM 4 C C13 4WI . . . B 2 41.966 -23.866 -15.07 0.8 85.25 ? C13 4WI 401 A 1 HETATM 5 C C21 4WI . . . B 2 41.931 -21.553 -17.347 0.8 83.36 ? C21 4WI 401 A 1 HETATM 6 C C6 4WI . . . B 2 41.893 -25.024 -9.439 0.8 95.52 ? C6 4WI 401 A 1 HETATM 7 C C7 4WI . . . B 2 41.343 -24.136 -8.325 0.8 101 ? C7 4WI 401 A 1 HETATM 8 C C10 4WI . . . B 2 43.759 -25.324 -15.948 0.8 79.51 ? C10 4WI 401 A 1 HETATM 9 C C5 4WI . . . B 2 40.652 -25.658 -10.097 0.8 97.41 ? C5 4WI 401 A 1 HETATM 10 C C9 4WI . . . B 2 41.74 -26.309 -15.093 0 80.04 ? C9 4WI 401 A 1 HETATM 11 C C11 4WI . . . B 2 43.353 -26.405 -16.927 0.8 77.82 ? C11 4WI 401 A 1 HETATM 12 C C12 4WI . . . B 2 42.091 -27.063 -16.393 0.8 74.93 ? C12 4WI 401 A 1 HETATM 13 C C18 4WI . . . B 2 42.241 -26.758 -17.869 0.8 82.97 ? C18 4WI 401 A 1 HETATM 14 C C19 4WI . . . B 2 41.507 -25.545 -18.486 0.8 74.41 ? C19 4WI 401 A 1 HETATM 15 C C20 4WI . . . B 2 42.386 -27.972 -18.8 0.8 75.23 ? C20 4WI 401 A 1 HETATM 16 C C16 4WI . . . B 2 45.039 -21.583 -14.875 0.8 80.4 ? C16 4WI 401 A 1 HETATM 17 C C17 4WI . . . B 2 43.932 -23.09 -13.179 0.8 74.2 ? C17 4WI 401 A 1 HETATM 18 C C23 4WI . . . B 2 42.948 -20.815 -13.696 0.8 74.86 ? C23 4WI 401 A 1 HETATM 19 C C4 4WI . . . B 2 40.73 -27.172 -10.434 0.8 96.93 ? C4 4WI 401 A 1 HETATM 20 C C2 4WI . . . B 2 41.909 -27.416 -11.392 0.8 101.48 ? C2 4WI 401 A 1 HETATM 21 C C14 4WI . . . B 2 42.842 -22.663 -15.425 0.8 85.13 ? C14 4WI 401 A 1 HETATM 22 C C22 4WI . . . B 2 40.983 -20.465 -17.854 0 81.89 ? C22 4WI 401 A 1 HETATM 23 C C15 4WI . . . B 2 43.686 -22.045 -14.295 0.8 81.17 ? C15 4WI 401 A 1 HETATM 24 N N5 4WI . . . B 2 41.862 -29.66 -10.506 0.8 97.77 ? N5 4WI 401 A 1 HETATM 25 N N2 4WI . . . B 2 39.955 -24.556 -8.175 0.8 102.2 ? N2 4WI 401 A 1 HETATM 26 N N3 4WI . . . B 2 42.454 -25.077 -15.333 0.8 83.33 ? N3 4WI 401 A 1 HETATM 27 N N1 4WI . . . B 2 41.584 -26.851 -12.71 0.8 92.68 ? N1 4WI 401 A 1 HETATM 28 N N4 4WI . . . B 2 41.986 -21.671 -16.021 0.8 85.49 ? N4 4WI 401 A 1 HETATM 29 O O1 4WI . . . B 2 38.386 -25.867 -9.18 0.8 102.42 ? O1 4WI 401 A 1 HETATM 30 O O2 4WI . . . B 2 43.335 -27.682 -13.902 0.8 87.26 ? O2 4WI 401 A 1 HETATM 31 O O3 4WI . . . B 2 40.886 -23.745 -14.587 0.8 86.77 ? O3 4WI 401 A 1 HETATM 32 O O4 4WI . . . B 2 42.58 -22.244 -18.111 0.8 84.66 ? O4 4WI 401 A 1 HETATM 33 F F1 4WI . . . B 2 40.46 -20.791 -19.079 0 78.44 ? F1 4WI 401 A 1 HETATM 34 F F2 4WI . . . B 2 41.637 -19.272 -17.917 0 83.34 ? F2 4WI 401 A 1 HETATM 35 F F3 4WI . . . B 2 40.008 -20.37 -16.91 0.8 88.64 ? F3 4WI 401 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 225 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 35 #