data_5VPT # _model_server_result.job_id MHDF1127phregp0hIYluKQ _model_server_result.datetime_utc '2024-12-18 05:32:20' _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 5vpt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 5VPT # _exptl.entry_id 5VPT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 487.494 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[(11S)-6,11-dihydrodibenzo[b,e]thiepin-11-yl]-5-hydroxy-3-[(2R)-1,1,1-trifluoropropan-2-yl]-2,3-dihydro-1H-pyrido[2,1-f][1,2,4]triazine-4,6-dione _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 90 _cell.entry_id 5VPT _cell.length_a 89.881 _cell.length_b 89.881 _cell.length_c 133.731 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VPT _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F 1 1 A,B,C,D,E,F 2 1,2,3,4 # 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_685 -x+1,-y+3,z -1 0 0 0 -1 0 0 0 1 89.881 269.643 0 3 'crystal symmetry operation' 3_765 -y+2,x+1,z 0 -1 0 1 0 0 0 0 1 179.762 89.881 0 4 'crystal symmetry operation' 4_475 y-1,-x+2,z 0 1 0 -1 0 0 0 0 1 -89.881 179.762 0 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _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 metalc ? metalc1 A NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc7 B MN MN . A MN 201 1_555 E O15 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.391 ? metalc ? metalc8 B MN MN . A MN 201 1_555 E O17 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.85 ? metalc ? metalc9 C MN MN . A MN 202 1_555 E O18 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc10 C MN MN . A MN 202 1_555 E O15 R07 . A R07 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc11 C MN MN . A MN 202 1_555 F O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc12 C MN MN . A MN 202 1_555 F O HOH . A HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.4 ? # _chem_comp.formula 'C24 H20 F3 N3 O3 S' _chem_comp.formula_weight 487.494 _chem_comp.id R07 _chem_comp.mon_nstd_flag . _chem_comp.name 1-[(11S)-6,11-dihydrodibenzo[b,e]thiepin-11-yl]-5-hydroxy-3-[(2R)-1,1,1-trifluoropropan-2-yl]-2,3-dihydro-1H-pyrido[2,1-f][1,2,4]triazine-4,6-dione _chem_comp.type non-polymer _chem_comp.pdbx_synonyms RO-7 # 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 C41 C43 R07 doub 277 n y C41 C39 R07 sing 278 n y C43 C45 R07 sing 279 n y C39 C36 R07 doub 280 n y C45 C37 R07 doub 281 n y C36 C37 R07 sing 282 n y C36 C33 R07 sing 283 n n C37 C19 R07 sing 284 n n C33 S32 R07 sing 285 n n S32 C31 R07 sing 286 n n C23 C20 R07 sing 287 n n C31 C53 R07 doub 288 n y C31 C30 R07 sing 289 n y C19 C30 R07 sing 290 n n C19 N09 R07 sing 291 n n C53 C51 R07 sing 292 n y C30 C47 R07 doub 293 n y C51 C49 R07 doub 294 n y C47 C49 R07 sing 295 n y C20 N13 R07 sing 296 n n C20 C22 R07 sing 297 n n N09 C10 R07 sing 298 n n N09 N06 R07 sing 299 n n C10 N13 R07 sing 300 n n F27 C22 R07 sing 301 n n N13 C14 R07 sing 302 n n F29 C22 R07 sing 303 n n C22 F28 R07 sing 304 n n C14 O18 R07 doub 305 n n C14 C07 R07 sing 306 n n N06 C07 R07 sing 307 n n N06 C04 R07 sing 308 n n C07 C08 R07 doub 309 n n C04 C02 R07 doub 310 n n C08 O15 R07 sing 311 n n C08 C01 R07 sing 312 n n C02 C01 R07 sing 313 n n C01 O17 R07 doub 314 n n C02 H1 R07 sing 315 n n C04 H2 R07 sing 316 n n C10 H3 R07 sing 317 n n C10 H4 R07 sing 318 n n C19 H5 R07 sing 319 n n C20 H6 R07 sing 320 n n C23 H7 R07 sing 321 n n C23 H8 R07 sing 322 n n C23 H9 R07 sing 323 n n C33 H10 R07 sing 324 n n C33 H11 R07 sing 325 n n C39 H12 R07 sing 326 n n C41 H13 R07 sing 327 n n C43 H14 R07 sing 328 n n C45 H15 R07 sing 329 n n C47 H16 R07 sing 330 n n C49 H17 R07 sing 331 n n C51 H18 R07 sing 332 n n C53 H19 R07 sing 333 n n O15 H20 R07 sing 334 n n # _atom_sites.entry_id 5VPT _atom_sites.fract_transf_matrix[1][1] 0.011126 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011126 _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] 0.007478 _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 MN A 1 201 201 MN MN . C 2 MN A 1 202 202 MN MN . D 3 SO4 A 1 203 203 SO4 SO4 . E 4 R07 A 1 204 1 R07 0GK . F 5 HOH A 1 301 2 HOH HOH . F 5 HOH A 2 302 25 HOH HOH . F 5 HOH A 3 303 1 HOH HOH . F 5 HOH A 4 304 14 HOH HOH . F 5 HOH A 5 305 16 HOH HOH . F 5 HOH A 6 306 24 HOH HOH . F 5 HOH A 7 307 19 HOH HOH . F 5 HOH A 8 308 8 HOH HOH . F 5 HOH A 9 309 4 HOH HOH . F 5 HOH A 10 310 23 HOH HOH . F 5 HOH A 11 311 20 HOH HOH . F 5 HOH A 12 312 9 HOH HOH . F 5 HOH A 13 313 10 HOH HOH . F 5 HOH A 14 314 11 HOH HOH . F 5 HOH A 15 315 7 HOH HOH . F 5 HOH A 16 316 3 HOH HOH . F 5 HOH A 17 317 17 HOH HOH . F 5 HOH A 18 318 12 HOH HOH . F 5 HOH A 19 319 13 HOH HOH . F 5 HOH A 20 320 21 HOH HOH . F 5 HOH A 21 321 5 HOH HOH . F 5 HOH A 22 322 15 HOH HOH . F 5 HOH A 23 323 6 HOH HOH . F 5 HOH A 24 324 18 HOH HOH . F 5 HOH A 25 325 22 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 C01 R07 . . . E 4 39.255 105.413 285.845 1 58.26 ? C01 R07 204 A 1 HETATM 2 C C02 R07 . . . E 4 38.249 104.468 285.359 1 53.41 ? C02 R07 204 A 1 HETATM 3 C C04 R07 . . . E 4 38.535 103.606 284.15 1 57.78 ? C04 R07 204 A 1 HETATM 4 C C07 R07 . . . E 4 40.83 104.613 283.9 1 53.27 ? C07 R07 204 A 1 HETATM 5 C C08 R07 . . . E 4 40.551 105.501 285.143 1 53.09 ? C08 R07 204 A 1 HETATM 6 C C10 R07 . . . E 4 41.596 102.632 282.212 1 63.37 ? C10 R07 204 A 1 HETATM 7 C C14 R07 . . . E 4 42.197 104.737 283.314 1 54.21 ? C14 R07 204 A 1 HETATM 8 C C19 R07 . . . E 4 40.103 103.826 281.153 1 56.68 ? C19 R07 204 A 1 HETATM 9 C C20 R07 . . . E 4 43.989 103.872 282.008 1 66.13 ? C20 R07 204 A 1 HETATM 10 C C22 R07 . . . E 4 44.881 102.963 282.862 1 70.14 ? C22 R07 204 A 1 HETATM 11 C C23 R07 . . . E 4 44.028 103.372 280.567 1 66.49 ? C23 R07 204 A 1 HETATM 12 C C30 R07 . . . E 4 38.727 104.7 281.366 1 53.9 ? C30 R07 204 A 1 HETATM 13 C C31 R07 . . . E 4 37.473 104.102 281.13 1 52.37 ? C31 R07 204 A 1 HETATM 14 C C33 R07 . . . E 4 38.832 101.431 280.196 1 57.12 ? C33 R07 204 A 1 HETATM 15 C C36 R07 . . . E 4 39.657 102.231 279.172 1 53.06 ? C36 R07 204 A 1 HETATM 16 C C37 R07 . . . E 4 40.28 103.385 279.622 1 53.69 ? C37 R07 204 A 1 HETATM 17 C C39 R07 . . . E 4 39.764 101.816 277.833 1 59.7 ? C39 R07 204 A 1 HETATM 18 C C41 R07 . . . E 4 40.509 102.572 276.939 1 55.19 ? C41 R07 204 A 1 HETATM 19 C C43 R07 . . . E 4 41.139 103.737 277.373 1 50.22 ? C43 R07 204 A 1 HETATM 20 C C45 R07 . . . E 4 41.022 104.152 278.699 1 53.57 ? C45 R07 204 A 1 HETATM 21 C C47 R07 . . . E 4 38.752 106.032 281.822 1 54.93 ? C47 R07 204 A 1 HETATM 22 C C49 R07 . . . E 4 37.596 106.768 282.052 1 53.64 ? C49 R07 204 A 1 HETATM 23 C C51 R07 . . . E 4 36.36 106.17 281.824 1 52.29 ? C51 R07 204 A 1 HETATM 24 C C53 R07 . . . E 4 36.318 104.856 281.366 1 56.71 ? C53 R07 204 A 1 HETATM 25 F F27 R07 . . . E 4 44.452 101.672 282.785 1 65.48 ? F27 R07 204 A 1 HETATM 26 F F28 R07 . . . E 4 46.158 103.057 282.391 1 78.56 ? F28 R07 204 A 1 HETATM 27 F F29 R07 . . . E 4 44.861 103.322 284.176 1 66.58 ? F29 R07 204 A 1 HETATM 28 N N06 R07 . . . E 4 39.879 103.699 283.441 1 55.98 ? N06 R07 204 A 1 HETATM 29 N N09 R07 . . . E 4 40.34 102.985 282.181 1 63.5 ? N09 R07 204 A 1 HETATM 30 N N13 R07 . . . E 4 42.639 103.828 282.534 1 60.59 ? N13 R07 204 A 1 HETATM 31 O O15 R07 . . . E 4 41.572 106.377 285.566 1 49.11 ? O15 R07 204 A 1 HETATM 32 O O17 R07 . . . E 4 39.036 106.097 286.8 1 55.91 ? O17 R07 204 A 1 HETATM 33 O O18 R07 . . . E 4 42.934 105.601 283.637 1 54.96 ? O18 R07 204 A 1 HETATM 34 S S32 R07 . . . E 4 37.342 102.391 280.544 1 60.99 ? S32 R07 204 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 231 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 34 #