data_8FYZ # _model_server_result.job_id IfXqiz_DpOxRhMG8spvi_A _model_server_result.datetime_utc '2024-11-04 22:51:11' _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 8fyz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":1203}' # _entry.id 8FYZ # _exptl.entry_id 8FYZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 455.393 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2P)-2-{3-[(4R)-3-(trifluoromethyl)-5,6-dihydro[1,2,4]triazolo[4,3-a]pyrazine-7(8H)-carbonyl]phenyl}-1H-benzimidazole-4-carboxamide _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 8FYZ _cell.length_a 95.881 _cell.length_b 95.881 _cell.length_c 130.711 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FYZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # 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 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,F,G,K 1 1 B,C,H,I,J,L 2 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 ? 5 G N N ? 5 J N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 1 _pdbx_entity_branch_link.entity_branch_list_num_2 2 _pdbx_entity_branch_link.comp_id_1 GLC _pdbx_entity_branch_link.comp_id_2 FRU _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C GLC 1 D 1 GLC B 1101 SUC 2 n C FRU 2 D 2 FRU B 1101 SUC # 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 disulf ? disulf1 A SG CYS 104 A CYS 845 1_555 B SG CYS 104 B CYS 845 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 C C1 GLC . D GLC 1 1_555 C O2 FRU . D FRU 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.417 ? # _chem_comp.formula 'C21 H16 F3 N7 O2' _chem_comp.formula_weight 455.393 _chem_comp.id YNQ _chem_comp.mon_nstd_flag . _chem_comp.name (2P)-2-{3-[(4R)-3-(trifluoromethyl)-5,6-dihydro[1,2,4]triazolo[4,3-a]pyrazine-7(8H)-carbonyl]phenyl}-1H-benzimidazole-4-carboxamide _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 F2 C19 YNQ sing 453 n n F C19 YNQ sing 454 n n C19 F1 YNQ sing 455 n n C19 C18 YNQ sing 456 n n C16 C15 YNQ sing 457 n n C16 N4 YNQ sing 458 n n C15 N3 YNQ sing 459 n n C18 N4 YNQ sing 460 n y C18 N6 YNQ doub 461 n y N4 C17 YNQ sing 462 n y N6 N5 YNQ sing 463 n y N3 C14 YNQ sing 464 n n N3 C20 YNQ sing 465 n n C11 C12 YNQ doub 466 n y C11 C10 YNQ sing 467 n y C12 C13 YNQ sing 468 n y C17 N5 YNQ doub 469 n y C17 C20 YNQ sing 470 n n C14 C10 YNQ sing 471 n n C14 O1 YNQ doub 472 n n C10 C9 YNQ doub 473 n y C13 C8 YNQ doub 474 n y C9 C8 YNQ sing 475 n y C8 C3 YNQ sing 476 n n C3 N1 YNQ doub 477 n y C3 N2 YNQ sing 478 n y N1 C2 YNQ sing 479 n y N2 C4 YNQ sing 480 n y C2 C4 YNQ doub 481 n y C2 C1 YNQ sing 482 n y C4 C5 YNQ sing 483 n y N C YNQ sing 484 n n C O YNQ doub 485 n n C C1 YNQ sing 486 n n C1 C7 YNQ doub 487 n y C5 C6 YNQ doub 488 n y C7 C6 YNQ sing 489 n y C7 H2 YNQ sing 490 n n N2 H3 YNQ sing 491 n n C9 H4 YNQ sing 492 n n C5 H5 YNQ sing 493 n n C6 H6 YNQ sing 494 n n N H7 YNQ sing 495 n n N H8 YNQ sing 496 n n C11 H9 YNQ sing 497 n n C12 H10 YNQ sing 498 n n C13 H11 YNQ sing 499 n n C15 H12 YNQ sing 500 n n C15 H13 YNQ sing 501 n n C16 H14 YNQ sing 502 n n C16 H15 YNQ sing 503 n n C20 H16 YNQ sing 504 n n C20 H17 YNQ sing 505 n n # _atom_sites.entry_id 8FYZ _atom_sites.fract_transf_matrix[1][1] 0.01043 _atom_sites.fract_transf_matrix[1][2] 0.006022 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012043 _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] 0.00765 _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 D 3 DMS A 1 1101 1101 DMS DMS . E 3 DMS A 1 1102 1201 DMS DMS . F 4 CIT A 1 1103 1401 CIT CIT . G 5 YNQ A 1 1104 1501 YNQ XXX . H 3 DMS B 1 1201 1201 DMS DMS . I 3 DMS B 1 1202 1301 DMS DMS . J 5 YNQ B 1 1203 1501 YNQ XXX . K 6 HOH A 1 1201 7 HOH HOH . K 6 HOH A 2 1202 11 HOH HOH . K 6 HOH A 3 1203 8 HOH HOH . K 6 HOH A 4 1204 3 HOH HOH . L 6 HOH B 1 1301 10 HOH HOH . L 6 HOH B 2 1302 6 HOH HOH . L 6 HOH B 3 1303 4 HOH HOH . L 6 HOH B 4 1304 13 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 YNQ . . . J 5 3.217 39.187 -31.193 1 69.51 ? N1 YNQ 1203 B 1 HETATM 2 C C7 YNQ . . . J 5 4.31 36.256 -33.244 1 37.58 ? C7 YNQ 1203 B 1 HETATM 3 C C8 YNQ . . . J 5 1.356 40.271 -29.973 1 65.81 ? C8 YNQ 1203 B 1 HETATM 4 N N2 YNQ . . . J 5 1.222 38.182 -31.335 1 77.57 ? N2 YNQ 1203 B 1 HETATM 5 C C9 YNQ . . . J 5 2.01 41.493 -29.841 1 95.53 ? C9 YNQ 1203 B 1 HETATM 6 O O1 YNQ . . . J 5 1.734 44.766 -29.177 1 121.27 ? O1 YNQ 1203 B 1 HETATM 7 C C1 YNQ . . . J 5 4.471 37.461 -32.554 1 63.37 ? C1 YNQ 1203 B 1 HETATM 8 C C5 YNQ . . . J 5 1.944 36.195 -32.736 1 73.73 ? C5 YNQ 1203 B 1 HETATM 9 C C6 YNQ . . . J 5 3.067 35.636 -33.332 1 70.5 ? C6 YNQ 1203 B 1 HETATM 10 N N3 YNQ . . . J 5 3.501 43.762 -28.22 1 178.56 ? N3 YNQ 1203 B 1 HETATM 11 C C4 YNQ . . . J 5 2.108 37.392 -32.05 1 49.98 ? C4 YNQ 1203 B 1 HETATM 12 C C3 YNQ . . . J 5 1.936 39.232 -30.842 1 73.3 ? C3 YNQ 1203 B 1 HETATM 13 C C2 YNQ . . . J 5 3.342 38.029 -31.95 1 53.92 ? C2 YNQ 1203 B 1 HETATM 14 N N4 YNQ . . . J 5 5.807 43.406 -26.67 1 194.65 ? N4 YNQ 1203 B 1 HETATM 15 N N YNQ . . . J 5 5.897 39.328 -31.979 1 68.41 ? N YNQ 1203 B 1 HETATM 16 C C YNQ . . . J 5 5.824 38.094 -32.465 1 76.96 ? C YNQ 1203 B 1 HETATM 17 O O YNQ . . . J 5 6.822 37.466 -32.836 1 63.55 ? O YNQ 1203 B 1 HETATM 18 C C10 YNQ . . . J 5 1.558 42.441 -28.927 1 110.28 ? C10 YNQ 1203 B 1 HETATM 19 C C11 YNQ . . . J 5 0.43 42.165 -28.16 1 107.11 ? C11 YNQ 1203 B 1 HETATM 20 C C12 YNQ . . . J 5 -0.238 40.961 -28.309 1 80.56 ? C12 YNQ 1203 B 1 HETATM 21 C C13 YNQ . . . J 5 0.22 40.018 -29.213 1 59.82 ? C13 YNQ 1203 B 1 HETATM 22 C C14 YNQ . . . J 5 2.272 43.748 -28.784 1 148.46 ? C14 YNQ 1203 B 1 HETATM 23 C C15 YNQ . . . J 5 3.791 44.651 -27.087 1 139.48 ? C15 YNQ 1203 B 1 HETATM 24 C C16 YNQ . . . J 5 4.591 43.921 -26.022 1 155.96 ? C16 YNQ 1203 B 1 HETATM 25 C C17 YNQ . . . J 5 5.843 42.985 -27.969 1 158.06 ? C17 YNQ 1203 B 1 HETATM 26 C C18 YNQ . . . J 5 7.101 43.249 -26.229 1 170.81 ? C18 YNQ 1203 B 1 HETATM 27 C C19 YNQ . . . J 5 7.604 43.549 -24.844 1 136.48 ? C19 YNQ 1203 B 1 HETATM 28 C C20 YNQ . . . J 5 4.588 42.949 -28.771 1 147.41 ? C20 YNQ 1203 B 1 HETATM 29 F F YNQ . . . J 5 7.538 44.844 -24.563 1 109.03 ? F YNQ 1203 B 1 HETATM 30 F F1 YNQ . . . J 5 6.902 42.915 -23.915 1 108.19 ? F1 YNQ 1203 B 1 HETATM 31 F F2 YNQ . . . J 5 8.867 43.179 -24.685 1 115.25 ? F2 YNQ 1203 B 1 HETATM 32 N N5 YNQ . . . J 5 7.054 42.614 -28.31 1 134.85 ? N5 YNQ 1203 B 1 HETATM 33 N N6 YNQ . . . J 5 7.869 42.781 -27.188 1 142.26 ? N6 YNQ 1203 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 33 #