data_8GKY # _model_server_result.job_id 88HawpwyvPJhU90jhSMkKA _model_server_result.datetime_utc '2024-10-10 11:19:08' _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 8gky # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":601}' # _entry.id 8GKY # _exptl.entry_id 8GKY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 459.428 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-{4-[3-(2-amino-4-oxo-3,4-dihydro-5H-pyrrolo[3,2-d]pyrimidin-5-yl)propyl]-2-fluorobenzoyl}-L-glutamic acid' _entity.pdbx_number_of_molecules 2 _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 8GKY _cell.length_a 157.971 _cell.length_b 157.971 _cell.length_c 206.46 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8GKY _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 ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # 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,G,H,I 1 1 A,B,C,D,E,F,G,H,I 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' 12_564 x,x-y+1,-z-1/6 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -78.9855 136.806899 -34.41 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 F N 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 NZ LYS 269 A LYS 280 1_555 E C4A PLP . A PLP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 B NZ LYS 269 B LYS 280 1_555 H C4A PLP . B PLP 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? # _chem_comp.formula 'C21 H22 F N5 O6' _chem_comp.formula_weight 459.428 _chem_comp.id ZVR _chem_comp.mon_nstd_flag . _chem_comp.name 'N-{4-[3-(2-amino-4-oxo-3,4-dihydro-5H-pyrrolo[3,2-d]pyrimidin-5-yl)propyl]-2-fluorobenzoyl}-L-glutamic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O25 C23 ZVR doub 402 n n O24 C23 ZVR sing 403 n n C23 C22 ZVR sing 404 n n C22 C21 ZVR sing 405 n n O18 C17 ZVR doub 406 n n O10 C04 ZVR doub 407 n n N03 C04 ZVR sing 408 n n N03 C02 ZVR sing 409 n n N11 C02 ZVR sing 410 n n C21 C20 ZVR sing 411 n n C17 C12 ZVR sing 412 n n C17 N19 ZVR sing 413 n n C14 C12 ZVR doub 414 n y C14 C16 ZVR sing 415 n y C04 C08 ZVR sing 416 n n C02 N01 ZVR doub 417 n n C20 N19 ZVR sing 418 n n C20 C26 ZVR sing 419 n n C12 C13 ZVR sing 420 n y C16 C32 ZVR doub 421 n y C13 F33 ZVR sing 422 n n C13 C15 ZVR doub 423 n y N01 C09 ZVR sing 424 n n C08 C09 ZVR doub 425 n y C08 N07 ZVR sing 426 n y C32 C15 ZVR sing 427 n y C32 C31 ZVR sing 428 n n C26 O27 ZVR doub 429 n n C26 O28 ZVR sing 430 n n C30 C29 ZVR sing 431 n n C30 C31 ZVR sing 432 n n C29 N07 ZVR sing 433 n n C09 C05 ZVR sing 434 n y N07 C06 ZVR sing 435 n y C05 C06 ZVR doub 436 n y C20 H1 ZVR sing 437 n n C29 H2 ZVR sing 438 n n C29 H3 ZVR sing 439 n n N19 H4 ZVR sing 440 n n C05 H5 ZVR sing 441 n n C06 H6 ZVR sing 442 n n C14 H7 ZVR sing 443 n n C15 H8 ZVR sing 444 n n C16 H9 ZVR sing 445 n n C21 H10 ZVR sing 446 n n C21 H11 ZVR sing 447 n n C22 H12 ZVR sing 448 n n C22 H13 ZVR sing 449 n n C30 H14 ZVR sing 450 n n C30 H15 ZVR sing 451 n n C31 H16 ZVR sing 452 n n C31 H17 ZVR sing 453 n n N03 H18 ZVR sing 454 n n N11 H19 ZVR sing 455 n n N11 H20 ZVR sing 456 n n O24 H21 ZVR sing 457 n n O28 H22 ZVR sing 458 n n # _atom_sites.entry_id 8GKY _atom_sites.fract_transf_matrix[1][1] 0.00633 _atom_sites.fract_transf_matrix[1][2] 0.003655 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00731 _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] 0.004844 _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 C 2 ZVR A 1 601 601 ZVR G59 . D 3 GLY A 1 602 602 GLY GLY . E 4 PLP A 1 603 280 PLP LLP . F 2 ZVR B 1 601 601 ZVR G59 . G 3 GLY B 1 602 602 GLY GLY . H 4 PLP B 1 603 280 PLP LLP . I 5 HOH A 1 701 1 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 C20 ZVR . . . F 2 -6.014 63.581 -10.877 1 101.69 ? C20 ZVR 601 B 1 HETATM 2 C C23 ZVR . . . F 2 -5.471 65.395 -14.135 1 99.03 ? C23 ZVR 601 B 1 HETATM 3 C C26 ZVR . . . F 2 -5.856 62.058 -10.796 1 114.15 ? C26 ZVR 601 B 1 HETATM 4 C C29 ZVR . . . F 2 -4.874 68.423 -1.647 1 54.78 ? C29 ZVR 601 B 1 HETATM 5 C C17 ZVR . . . F 2 -5.482 65.536 -9.253 1 89.06 ? C17 ZVR 601 B 1 HETATM 6 N N19 ZVR . . . F 2 -5.708 64.13 -9.559 1 93.43 ? N19 ZVR 601 B 1 HETATM 7 C C13 ZVR . . . F 2 -4.67 67.159 -7.459 1 89.17 ? C13 ZVR 601 B 1 HETATM 8 C C32 ZVR . . . F 2 -4.629 66.545 -5.119 1 59.54 ? C32 ZVR 601 B 1 HETATM 9 C C12 ZVR . . . F 2 -5.177 65.907 -7.784 1 79.56 ? C12 ZVR 601 B 1 HETATM 10 C C02 ZVR . . . F 2 -1.645 72.395 -2.547 1 53.04 ? C02 ZVR 601 B 1 HETATM 11 C C04 ZVR . . . F 2 -3.667 71.277 -2.576 1 65.07 ? C04 ZVR 601 B 1 HETATM 12 C C05 ZVR . . . F 2 -1.361 69.034 -1.008 1 55.43 ? C05 ZVR 601 B 1 HETATM 13 C C06 ZVR . . . F 2 -2.52 68.263 -0.969 1 61.92 ? C06 ZVR 601 B 1 HETATM 14 C C08 ZVR . . . F 2 -3.06 70.158 -1.934 1 61.7 ? C08 ZVR 601 B 1 HETATM 15 C C09 ZVR . . . F 2 -1.721 70.262 -1.635 1 56.35 ? C09 ZVR 601 B 1 HETATM 16 C C14 ZVR . . . F 2 -5.412 64.974 -6.78 1 62.28 ? C14 ZVR 601 B 1 HETATM 17 C C15 ZVR . . . F 2 -4.393 67.479 -6.125 1 73.95 ? C15 ZVR 601 B 1 HETATM 18 C C16 ZVR . . . F 2 -5.133 65.293 -5.447 1 58.2 ? C16 ZVR 601 B 1 HETATM 19 C C21 ZVR . . . F 2 -5.106 64.113 -11.977 1 96.69 ? C21 ZVR 601 B 1 HETATM 20 C C22 ZVR . . . F 2 -5.825 64.154 -13.32 1 93.94 ? C22 ZVR 601 B 1 HETATM 21 C C30 ZVR . . . F 2 -5.148 68.086 -3.129 1 51.52 ? C30 ZVR 601 B 1 HETATM 22 C C31 ZVR . . . F 2 -4.322 66.894 -3.64 1 49.98 ? C31 ZVR 601 B 1 HETATM 23 F F33 ZVR . . . F 2 -4.441 68.07 -8.45 1 104.93 ? F33 ZVR 601 B 1 HETATM 24 N N01 ZVR . . . F 2 -1.032 71.388 -1.95 1 60.88 ? N01 ZVR 601 B 1 HETATM 25 N N03 ZVR . . . F 2 -2.938 72.344 -2.855 1 58.38 ? N03 ZVR 601 B 1 HETATM 26 N N07 ZVR . . . F 2 -3.515 68.939 -1.514 1 63.07 ? N07 ZVR 601 B 1 HETATM 27 N N11 ZVR . . . F 2 -0.886 73.594 -2.874 1 53.7 ? N11 ZVR 601 B 1 HETATM 28 O O10 ZVR . . . F 2 -4.82 71.267 -2.864 1 61.92 ? O10 ZVR 601 B 1 HETATM 29 O O18 ZVR . . . F 2 -5.522 66.386 -10.085 1 89.13 ? O18 ZVR 601 B 1 HETATM 30 O O24 ZVR . . . F 2 -5.613 65.391 -15.387 1 98.2 ? O24 ZVR 601 B 1 HETATM 31 O O25 ZVR . . . F 2 -5.038 66.425 -13.553 1 98.65 ? O25 ZVR 601 B 1 HETATM 32 O O27 ZVR . . . F 2 -4.705 61.538 -10.78 1 117.89 ? O27 ZVR 601 B 1 HETATM 33 O O28 ZVR . . . F 2 -6.88 61.322 -10.741 1 114.15 ? O28 ZVR 601 B 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 33 #