data_5V6S # _model_server_result.job_id AjvJ3Y0n6_OrQ5798_JpUA _model_server_result.datetime_utc '2024-10-18 16:21:58' _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 5v6s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 5V6S # _exptl.entry_id 5V6S _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 452.912 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-{4-[6-chloro-8-fluoro-7-(5-methyl-1H-indazol-4-yl)quinazolin-4-yl]piperazin-1-yl}propan-1-one _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 90 _cell.angle_gamma 120 _cell.entry_id 5V6S _cell.length_a 41.07 _cell.length_b 41.07 _cell.length_c 349.446 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5V6S _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 A SG CYS 13 A CYS 12 1_555 D C27 8YD . A 8YD 203 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.828 ? covale ? covale2 A SG CYS 13 A CYS 12 1_555 D C27 8YD . A 8YD 203 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.772 ? metalc ? metalc1 A OG SER 18 A SER 17 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc2 B O3B GDP . A GDP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc3 C MG MG . A MG 202 1_555 E O HOH . A HOH 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc4 C MG MG . A MG 202 1_555 E O HOH . A HOH 316 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc5 C MG MG . A MG 202 1_555 E O HOH . A HOH 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc6 C MG MG . A MG 202 1_555 E O HOH . A HOH 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? # _chem_comp.formula 'C23 H22 Cl F N6 O' _chem_comp.formula_weight 452.912 _chem_comp.id 8YD _chem_comp.mon_nstd_flag . _chem_comp.name 1-{4-[6-chloro-8-fluoro-7-(5-methyl-1H-indazol-4-yl)quinazolin-4-yl]piperazin-1-yl}propan-1-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'KRAS(G12C) inhibitor, acrylamide form, 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 F15 C14 8YD sing 1 n n N17 C18 8YD doub 2 n y N17 C16 8YD sing 3 n y C18 N19 8YD sing 4 n y C14 C16 8YD doub 5 n y C14 C03 8YD sing 6 n y C16 C31 8YD sing 7 n y N19 C20 8YD doub 8 n y N08 N07 8YD sing 9 n y N08 C09 8YD sing 10 n y C10 C09 8YD doub 11 n y C10 C11 8YD sing 12 n y N07 C06 8YD doub 13 n y C09 C05 8YD sing 14 n y C11 C12 8YD doub 15 n y C06 C05 8YD sing 16 n y C05 C04 8YD doub 17 n y C12 C04 8YD sing 18 n y C12 C13 8YD sing 19 n n C04 C03 8YD sing 20 n n C03 C02 8YD doub 21 n y C20 C31 8YD sing 22 n y C20 N21 8YD sing 23 n n C31 C32 8YD doub 24 n y C30 N21 8YD sing 25 n n C30 C29 8YD sing 26 n n C02 C32 8YD sing 27 n y C02 CL 8YD sing 28 n n N21 C22 8YD sing 29 n n C29 N24 8YD sing 30 n n C22 C23 8YD sing 31 n n C23 N24 8YD sing 32 n n N24 C25 8YD sing 33 n n C25 C26 8YD sing 34 n n C25 O28 8YD doub 35 n n C27 C26 8YD sing 36 n n C10 H101 8YD sing 37 n n C13 H132 8YD sing 38 n n C13 H131 8YD sing 39 n n C13 H133 8YD sing 40 n n C22 H222 8YD sing 41 n n C22 H221 8YD sing 42 n n C26 H261 8YD sing 43 n n C26 H262 8YD sing 44 n n C06 H061 8YD sing 45 n n N08 H081 8YD sing 46 n n C11 H111 8YD sing 47 n n C18 H181 8YD sing 48 n n C23 H232 8YD sing 49 n n C23 H231 8YD sing 50 n n C27 H271 8YD sing 51 n n C27 H273 8YD sing 52 n n C27 H272 8YD sing 53 n n C29 H291 8YD sing 54 n n C29 H292 8YD sing 55 n n C30 H301 8YD sing 56 n n C30 H302 8YD sing 57 n n C32 H321 8YD sing 58 n n # _atom_sites.entry_id 5V6S _atom_sites.fract_transf_matrix[1][1] 0.024349 _atom_sites.fract_transf_matrix[1][2] 0.014058 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.028115 _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] 0.002862 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 GDP A 1 201 1 GDP GDP . C 3 MG A 1 202 1 MG MG . D 4 8YD A 1 203 1 8YD LIG . E 5 HOH A 1 301 45 HOH HOH . E 5 HOH A 2 302 32 HOH HOH . E 5 HOH A 3 303 56 HOH HOH . E 5 HOH A 4 304 55 HOH HOH . E 5 HOH A 5 305 6 HOH HOH . E 5 HOH A 6 306 8 HOH HOH . E 5 HOH A 7 307 31 HOH HOH . E 5 HOH A 8 308 2 HOH HOH . E 5 HOH A 9 309 5 HOH HOH . E 5 HOH A 10 310 36 HOH HOH . E 5 HOH A 11 311 76 HOH HOH . E 5 HOH A 12 312 19 HOH HOH . E 5 HOH A 13 313 21 HOH HOH . E 5 HOH A 14 314 28 HOH HOH . E 5 HOH A 15 315 37 HOH HOH . E 5 HOH A 16 316 4 HOH HOH . E 5 HOH A 17 317 43 HOH HOH . E 5 HOH A 18 318 65 HOH HOH . E 5 HOH A 19 319 29 HOH HOH . E 5 HOH A 20 320 34 HOH HOH . E 5 HOH A 21 321 7 HOH HOH . E 5 HOH A 22 322 50 HOH HOH . E 5 HOH A 23 323 26 HOH HOH . E 5 HOH A 24 324 9 HOH HOH . E 5 HOH A 25 325 12 HOH HOH . E 5 HOH A 26 326 13 HOH HOH . E 5 HOH A 27 327 27 HOH HOH . E 5 HOH A 28 328 3 HOH HOH . E 5 HOH A 29 329 16 HOH HOH . E 5 HOH A 30 330 38 HOH HOH . E 5 HOH A 31 331 22 HOH HOH . E 5 HOH A 32 332 54 HOH HOH . E 5 HOH A 33 333 42 HOH HOH . E 5 HOH A 34 334 61 HOH HOH . E 5 HOH A 35 335 58 HOH HOH . E 5 HOH A 36 336 15 HOH HOH . E 5 HOH A 37 337 48 HOH HOH . E 5 HOH A 38 338 62 HOH HOH . E 5 HOH A 39 339 10 HOH HOH . E 5 HOH A 40 340 78 HOH HOH . E 5 HOH A 41 341 66 HOH HOH . E 5 HOH A 42 342 51 HOH HOH . E 5 HOH A 43 343 25 HOH HOH . E 5 HOH A 44 344 1 HOH HOH . E 5 HOH A 45 345 75 HOH HOH . E 5 HOH A 46 346 53 HOH HOH . E 5 HOH A 47 347 17 HOH HOH . E 5 HOH A 48 348 71 HOH HOH . E 5 HOH A 49 349 70 HOH HOH . E 5 HOH A 50 350 24 HOH HOH . E 5 HOH A 51 351 44 HOH HOH . E 5 HOH A 52 352 49 HOH HOH . E 5 HOH A 53 353 18 HOH HOH . E 5 HOH A 54 354 64 HOH HOH . E 5 HOH A 55 355 47 HOH HOH . E 5 HOH A 56 356 63 HOH HOH . E 5 HOH A 57 357 30 HOH HOH . E 5 HOH A 58 358 33 HOH HOH . E 5 HOH A 59 359 14 HOH HOH . E 5 HOH A 60 360 39 HOH HOH . E 5 HOH A 61 361 46 HOH HOH . E 5 HOH A 62 362 68 HOH HOH . E 5 HOH A 63 363 40 HOH HOH . E 5 HOH A 64 364 41 HOH HOH . E 5 HOH A 65 365 23 HOH HOH . E 5 HOH A 66 366 20 HOH HOH . E 5 HOH A 67 367 60 HOH HOH . E 5 HOH A 68 368 59 HOH HOH . E 5 HOH A 69 369 57 HOH HOH . E 5 HOH A 70 370 52 HOH HOH . E 5 HOH A 71 371 77 HOH HOH . E 5 HOH A 72 372 69 HOH HOH . E 5 HOH A 73 373 72 HOH HOH . E 5 HOH A 74 374 74 HOH HOH . E 5 HOH A 75 375 73 HOH HOH . E 5 HOH A 76 376 35 HOH HOH . # 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 C10 8YD . . . D 4 -5.3 19.238 -22.55 1 13.86 ? C10 8YD 203 A 1 HETATM 2 C C13 8YD . . . D 4 -7.762 16.356 -22.071 1 12.8 ? C13 8YD 203 A 1 HETATM 3 C C20 8YD . . . D 4 -13.811 18.463 -21.939 1 14.56 ? C20 8YD 203 A 1 HETATM 4 C C22 8YD . . . D 4 -14.213 18.491 -19.388 1 20.35 ? C22 8YD 203 A 1 HETATM 5 C C26 8YD . . . D 4 -18.549 19.129 -17.381 1 16.3 ? C26 8YD 203 A 1 HETATM 6 CL CL 8YD . . . D 4 -9.37 19.801 -19.515 1 13.68 ? CL 8YD 203 A 1 HETATM 7 C C02 8YD . . . D 4 -10.279 19.165 -20.887 1 13.48 ? C02 8YD 203 A 1 HETATM 8 C C03 8YD . . . D 4 -9.599 18.774 -22.035 1 13.4 ? C03 8YD 203 A 1 HETATM 9 C C04 8YD . . . D 4 -8.061 18.876 -22.19 1 12.82 ? C04 8YD 203 A 1 HETATM 10 C C05 8YD . . . D 4 -7.525 20.191 -22.338 1 12.93 ? C05 8YD 203 A 1 HETATM 11 C C06 8YD . . . D 4 -8.111 21.499 -22.358 1 14.97 ? C06 8YD 203 A 1 HETATM 12 N N07 8YD . . . D 4 -7.136 22.379 -22.533 1 13.5 ? N07 8YD 203 A 1 HETATM 13 N N08 8YD . . . D 4 -5.975 21.711 -22.617 1 15.18 ? N08 8YD 203 A 1 HETATM 14 C C09 8YD . . . D 4 -6.159 20.371 -22.511 1 12.92 ? C09 8YD 203 A 1 HETATM 15 C C11 8YD . . . D 4 -5.834 17.955 -22.397 1 13.91 ? C11 8YD 203 A 1 HETATM 16 C C12 8YD . . . D 4 -7.21 17.765 -22.233 1 12.53 ? C12 8YD 203 A 1 HETATM 17 C C14 8YD . . . D 4 -10.341 18.298 -23.103 1 13.02 ? C14 8YD 203 A 1 HETATM 18 F F15 8YD . . . D 4 -9.735 17.881 -24.243 1 14.44 ? F15 8YD 203 A 1 HETATM 19 C C16 8YD . . . D 4 -11.748 18.207 -23.036 1 13.28 ? C16 8YD 203 A 1 HETATM 20 N N17 8YD . . . D 4 -12.463 17.717 -24.104 1 11.73 ? N17 8YD 203 A 1 HETATM 21 C C18 8YD . . . D 4 -13.811 17.636 -24.086 1 15.21 ? C18 8YD 203 A 1 HETATM 22 N N19 8YD . . . D 4 -14.47 18.024 -22.978 1 15.85 ? N19 8YD 203 A 1 HETATM 23 N N21 8YD . . . D 4 -14.633 18.753 -20.803 1 15.18 ? N21 8YD 203 A 1 HETATM 24 C C23 8YD . . . D 4 -15.264 17.629 -18.746 1 17.36 ? C23 8YD 203 A 1 HETATM 25 N N24 8YD . . . D 4 -16.433 18.399 -18.62 1 16.54 ? N24 8YD 203 A 1 HETATM 26 C C25 8YD . . . D 4 -17.298 18.234 -17.471 1 15.46 ? C25 8YD 203 A 1 HETATM 27 C C27 8YD . . . D 4 -19.794 18.26 -17.411 1 15.25 ? C27 8YD 203 A 1 HETATM 28 O O28 8YD . . . D 4 -17.005 17.403 -16.642 1 12.73 ? O28 8YD 203 A 1 HETATM 29 C C29 8YD . . . D 4 -16.714 19.362 -19.647 1 18.1 ? C29 8YD 203 A 1 HETATM 30 C C30 8YD . . . D 4 -16.06 19.066 -20.967 1 18.59 ? C30 8YD 203 A 1 HETATM 31 C C31 8YD . . . D 4 -12.41 18.573 -21.908 1 12.94 ? C31 8YD 203 A 1 HETATM 32 C C32 8YD . . . D 4 -11.661 19.087 -20.82 1 13.81 ? C32 8YD 203 A 1 HETATM 33 H H101 8YD . . . D 4 -4.383 19.352 -22.651 1 16.63 ? H101 8YD 203 A 1 HETATM 34 H H132 8YD . . . D 4 -7.094 15.794 -21.648 1 15.36 ? H132 8YD 203 A 1 HETATM 35 H H131 8YD . . . D 4 -7.985 15.994 -22.943 1 15.36 ? H131 8YD 203 A 1 HETATM 36 H H133 8YD . . . D 4 -8.559 16.383 -21.519 1 15.36 ? H133 8YD 203 A 1 HETATM 37 H H222 8YD . . . D 4 -14.14 19.33 -18.908 1 24.42 ? H222 8YD 203 A 1 HETATM 38 H H221 8YD . . . D 4 -13.361 18.027 -19.382 1 24.42 ? H221 8YD 203 A 1 HETATM 39 H H261 8YD . . . D 4 -18.564 19.741 -18.133 1 19.57 ? H261 8YD 203 A 1 HETATM 40 H H262 8YD . . . D 4 -18.526 19.634 -16.553 1 19.57 ? H262 8YD 203 A 1 HETATM 41 H H061 8YD . . . D 4 -9.016 21.695 -22.271 1 17.97 ? H061 8YD 203 A 1 HETATM 42 H H081 8YD . . . D 4 -5.209 22.086 -22.729 1 18.22 ? H081 8YD 203 A 1 HETATM 43 H H111 8YD . . . D 4 -5.267 17.218 -22.415 1 16.7 ? H111 8YD 203 A 1 HETATM 44 H H181 8YD . . . D 4 -14.273 17.289 -24.814 1 18.25 ? H181 8YD 203 A 1 HETATM 45 H H232 8YD . . . D 4 -14.963 17.345 -17.869 1 20.83 ? H232 8YD 203 A 1 HETATM 46 H H231 8YD . . . D 4 -15.44 16.856 -19.305 1 20.83 ? H231 8YD 203 A 1 HETATM 47 H H271 8YD . . . D 4 -19.577 17.397 -17.795 1 18.31 ? H271 8YD 203 A 1 HETATM 48 H H273 8YD . . . D 4 -20.477 18.692 -17.948 1 18.31 ? H273 8YD 203 A 1 HETATM 49 H H272 8YD . . . D 4 -20.125 18.138 -16.507 1 18.31 ? H272 8YD 203 A 1 HETATM 50 H H291 8YD . . . D 4 -17.674 19.395 -19.781 1 21.72 ? H291 8YD 203 A 1 HETATM 51 H H292 8YD . . . D 4 -16.41 20.232 -19.342 1 21.72 ? H292 8YD 203 A 1 HETATM 52 H H301 8YD . . . D 4 -16.505 18.308 -21.376 1 22.3 ? H301 8YD 203 A 1 HETATM 53 H H302 8YD . . . D 4 -16.148 19.841 -21.544 1 22.3 ? H302 8YD 203 A 1 HETATM 54 H H321 8YD . . . D 4 -12.098 19.336 -20.038 1 16.57 ? H321 8YD 203 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 236 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 54 #