data_8GKF # _model_server_result.job_id G8-5baiE4JEy-oa31m9Sew _model_server_result.datetime_utc '2024-11-27 07:21:55' _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 8gkf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":301}' # _entry.id 8GKF # _exptl.entry_id 8GKF _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 458.488 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description TOMUDEX _entity.pdbx_number_of_molecules 9 _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 8GKF _cell.length_a 141.83 _cell.length_b 141.83 _cell.length_c 209.745 _cell.Z_PDB 72 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8GKF _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 PISA monomeric 1 author_and_software_defined_assembly 5 PISA monomeric 1 author_and_software_defined_assembly 6 PISA monomeric 1 author_and_software_defined_assembly 7 PISA monomeric 1 author_and_software_defined_assembly 8 PISA monomeric 1 author_and_software_defined_assembly 9 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,J,S 1 1 B,K,T 2 1 C,L,U 3 1 D,M,V 4 1 E,N,W 5 1 F,O,X 6 1 G,P,Y 7 1 H,Q,Z 8 1 I,R,AA 9 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P N N ? 2 Q N N ? 2 R N N # _chem_comp.formula 'C21 H22 N4 O6 S' _chem_comp.formula_weight 458.488 _chem_comp.id D16 _chem_comp.mon_nstd_flag . _chem_comp.name TOMUDEX _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ZD1694;Raltitrexed # 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 N1 C2 D16 sing 83 n n N1 C8A D16 sing 84 n n N1 HN1 D16 sing 85 n n C2 CM2 D16 sing 86 n n C2 N3 D16 doub 87 n n CM2 HM21 D16 sing 88 n n CM2 HM22 D16 sing 89 n n CM2 HM23 D16 sing 90 n n N3 C4 D16 sing 91 n n C4 O4 D16 doub 92 n n C4 C4A D16 sing 93 n n C4A C5 D16 doub 94 n y C4A C8A D16 sing 95 n y C5 C6 D16 sing 96 n y C5 H5 D16 sing 97 n n C6 C7 D16 doub 98 n y C6 C9 D16 sing 99 n n C7 C8 D16 sing 100 n y C7 H7 D16 sing 101 n n C8 C8A D16 doub 102 n y C8 H8 D16 sing 103 n n C9 N10 D16 sing 104 n n C9 H91 D16 sing 105 n n C9 H92 D16 sing 106 n n N10 C14 D16 sing 107 n n N10 CP1 D16 sing 108 n n C11 S13 D16 sing 109 n y C11 C16 D16 doub 110 n y C11 C D16 sing 111 n n S13 C14 D16 sing 112 n y C14 C15 D16 doub 113 n y C15 C16 D16 sing 114 n y C15 H15 D16 sing 115 n n C16 H16 D16 sing 116 n n C O D16 doub 117 n n C N D16 sing 118 n n N CA D16 sing 119 n n N HN D16 sing 120 n n CA CB D16 sing 121 n n CA CT D16 sing 122 n n CA HA D16 sing 123 n n CB CG D16 sing 124 n n CB HB1 D16 sing 125 n n CB HB2 D16 sing 126 n n CG CD D16 sing 127 n n CG HG1 D16 sing 128 n n CG HG2 D16 sing 129 n n CD OE1 D16 doub 130 n n CD OE2 D16 sing 131 n n OE2 HOE2 D16 sing 132 n n CT O1 D16 doub 133 n n CT O2 D16 sing 134 n n O2 HO2 D16 sing 135 n n CP1 HP11 D16 sing 136 n n CP1 HP12 D16 sing 137 n n CP1 HP13 D16 sing 138 n n # _atom_sites.entry_id 8GKF _atom_sites.fract_transf_matrix[1][1] 0.007051 _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] 0.007051 _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] 0.004768 _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 J 2 D16 A 1 301 301 D16 RAL . K 2 D16 B 1 301 301 D16 RAL . L 2 D16 C 1 301 301 D16 RAL . M 2 D16 D 1 301 301 D16 RAL . N 2 D16 E 1 301 301 D16 RAL . O 2 D16 F 1 301 301 D16 RAL . P 2 D16 G 1 301 301 D16 RAL . Q 2 D16 H 1 301 301 D16 RAL . R 2 D16 I 1 301 301 D16 RAL . S 3 HOH A 1 401 41 HOH HOH . S 3 HOH A 2 402 12 HOH HOH . S 3 HOH A 3 403 39 HOH HOH . S 3 HOH A 4 404 36 HOH HOH . S 3 HOH A 5 405 11 HOH HOH . S 3 HOH A 6 406 53 HOH HOH . S 3 HOH A 7 407 40 HOH HOH . S 3 HOH A 8 408 18 HOH HOH . S 3 HOH A 9 409 8 HOH HOH . S 3 HOH A 10 410 42 HOH HOH . S 3 HOH A 11 411 13 HOH HOH . T 3 HOH B 1 401 44 HOH HOH . T 3 HOH B 2 402 21 HOH HOH . T 3 HOH B 3 403 14 HOH HOH . T 3 HOH B 4 404 71 HOH HOH . T 3 HOH B 5 405 23 HOH HOH . T 3 HOH B 6 406 2 HOH HOH . T 3 HOH B 7 407 22 HOH HOH . T 3 HOH B 8 408 61 HOH HOH . T 3 HOH B 9 409 1 HOH HOH . T 3 HOH B 10 410 33 HOH HOH . T 3 HOH B 11 411 46 HOH HOH . T 3 HOH B 12 412 10 HOH HOH . T 3 HOH B 13 413 3 HOH HOH . T 3 HOH B 14 414 45 HOH HOH . T 3 HOH B 15 415 9 HOH HOH . T 3 HOH B 16 416 47 HOH HOH . T 3 HOH B 17 417 20 HOH HOH . T 3 HOH B 18 418 62 HOH HOH . T 3 HOH B 19 419 19 HOH HOH . T 3 HOH B 20 420 24 HOH HOH . U 3 HOH C 1 401 7 HOH HOH . U 3 HOH C 2 402 4 HOH HOH . U 3 HOH C 3 403 48 HOH HOH . U 3 HOH C 4 404 32 HOH HOH . U 3 HOH C 5 405 35 HOH HOH . U 3 HOH C 6 406 34 HOH HOH . V 3 HOH D 1 401 52 HOH HOH . V 3 HOH D 2 402 29 HOH HOH . V 3 HOH D 3 403 5 HOH HOH . V 3 HOH D 4 404 51 HOH HOH . V 3 HOH D 5 405 49 HOH HOH . V 3 HOH D 6 406 43 HOH HOH . V 3 HOH D 7 407 50 HOH HOH . W 3 HOH E 1 401 15 HOH HOH . W 3 HOH E 2 402 6 HOH HOH . W 3 HOH E 3 403 74 HOH HOH . W 3 HOH E 4 404 75 HOH HOH . W 3 HOH E 5 405 55 HOH HOH . W 3 HOH E 6 406 16 HOH HOH . W 3 HOH E 7 407 72 HOH HOH . W 3 HOH E 8 408 76 HOH HOH . X 3 HOH F 1 401 37 HOH HOH . X 3 HOH F 2 402 25 HOH HOH . X 3 HOH F 3 403 38 HOH HOH . Y 3 HOH G 1 401 54 HOH HOH . Y 3 HOH G 2 402 56 HOH HOH . Y 3 HOH G 3 403 17 HOH HOH . Y 3 HOH G 4 404 66 HOH HOH . Y 3 HOH G 5 405 30 HOH HOH . Y 3 HOH G 6 406 67 HOH HOH . Y 3 HOH G 7 407 64 HOH HOH . Y 3 HOH G 8 408 63 HOH HOH . Y 3 HOH G 9 409 65 HOH HOH . Z 3 HOH H 1 401 73 HOH HOH . Z 3 HOH H 2 402 26 HOH HOH . Z 3 HOH H 3 403 27 HOH HOH . Z 3 HOH H 4 404 68 HOH HOH . Z 3 HOH H 5 405 59 HOH HOH . Z 3 HOH H 6 406 28 HOH HOH . Z 3 HOH H 7 407 57 HOH HOH . Z 3 HOH H 8 408 58 HOH HOH . Z 3 HOH H 9 409 69 HOH HOH . Z 3 HOH H 10 410 70 HOH HOH . AA 3 HOH I 1 401 31 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 N N1 D16 . . . O 2 22.781 -26.112 47.94 1 46.96 ? N1 D16 301 F 1 HETATM 2 C C2 D16 . . . O 2 22.64 -27.436 47.662 1 48.4 ? C2 D16 301 F 1 HETATM 3 C CM2 D16 . . . O 2 23.879 -28.27 47.685 1 55.27 ? CM2 D16 301 F 1 HETATM 4 N N3 D16 . . . O 2 21.493 -27.984 47.393 1 44.03 ? N3 D16 301 F 1 HETATM 5 C C4 D16 . . . O 2 20.364 -27.215 47.379 1 49.25 ? C4 D16 301 F 1 HETATM 6 O O4 D16 . . . O 2 19.292 -27.778 47.115 1 52.63 ? O4 D16 301 F 1 HETATM 7 C C4A D16 . . . O 2 20.432 -25.776 47.666 1 46.8 ? C4A D16 301 F 1 HETATM 8 C C5 D16 . . . O 2 19.318 -24.926 47.668 1 43.43 ? C5 D16 301 F 1 HETATM 9 C C6 D16 . . . O 2 19.445 -23.595 47.945 1 44.51 ? C6 D16 301 F 1 HETATM 10 C C7 D16 . . . O 2 20.734 -23.077 48.232 1 47.46 ? C7 D16 301 F 1 HETATM 11 C C8 D16 . . . O 2 21.843 -23.886 48.236 1 47.84 ? C8 D16 301 F 1 HETATM 12 C C8A D16 . . . O 2 21.701 -25.246 47.951 1 48.03 ? C8A D16 301 F 1 HETATM 13 C C9 D16 . . . O 2 18.244 -22.679 47.949 1 43.34 ? C9 D16 301 F 1 HETATM 14 N N10 D16 . . . O 2 17.831 -22.261 46.611 1 47.43 ? N10 D16 301 F 1 HETATM 15 C C11 D16 . . . O 2 19.178 -19.429 44.529 1 52.26 ? C11 D16 301 F 1 HETATM 16 S S13 D16 . . . O 2 18.069 -20.744 44.384 1 53.03 ? S13 D16 301 F 1 HETATM 17 C C14 D16 . . . O 2 18.261 -21.097 46.077 1 45.48 ? C14 D16 301 F 1 HETATM 18 C C15 D16 . . . O 2 18.864 -20.031 46.745 1 49.16 ? C15 D16 301 F 1 HETATM 19 C C16 D16 . . . O 2 19.38 -19.087 45.861 1 50.24 ? C16 D16 301 F 1 HETATM 20 C C D16 . . . O 2 19.714 -18.838 43.278 1 58.5 ? C D16 301 F 1 HETATM 21 O O D16 . . . O 2 19.254 -19.163 42.184 1 53.61 ? O D16 301 F 1 HETATM 22 N N D16 . . . O 2 20.716 -17.96 43.396 1 56.84 ? N D16 301 F 1 HETATM 23 C CA D16 . . . O 2 21.127 -17.161 42.258 1 57.84 ? CA D16 301 F 1 HETATM 24 C CB D16 . . . O 2 20.664 -15.712 42.447 1 51.68 ? CB D16 301 F 1 HETATM 25 C CG D16 . . . O 2 21.196 -15.083 43.72 1 36.28 ? CG D16 301 F 1 HETATM 26 C CD D16 . . . O 2 20.709 -13.664 43.952 1 47.88 ? CD D16 301 F 1 HETATM 27 O OE1 D16 . . . O 2 19.498 -13.493 44.189 1 44.84 ? OE1 D16 301 F 1 HETATM 28 O OE2 D16 . . . O 2 21.537 -12.734 43.868 1 53.21 ? OE2 D16 301 F 1 HETATM 29 C CT D16 . . . O 2 22.632 -17.276 41.954 1 58.48 ? CT D16 301 F 1 HETATM 30 O O1 D16 . . . O 2 23.233 -16.234 41.617 1 54.77 ? O1 D16 301 F 1 HETATM 31 O O2 D16 . . . O 2 23.152 -18.406 42.061 1 61.64 ? O2 D16 301 F 1 HETATM 32 C CP1 D16 . . . O 2 16.98 -23.161 45.851 1 44.26 ? CP1 D16 301 F 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #