data_5KMO # _model_server_result.job_id At7Q1tO9E3yL8Y6gGqiWYQ _model_server_result.datetime_utc '2025-08-31 17:49:57' _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 5kmo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":901}' # _entry.id 5KMO # _exptl.entry_id 5KMO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 305.334 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-(2-methyl-4-phenyl-pyrimidin-5-yl)-3-pyridin-2-yl-urea _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 5KMO _cell.length_a 51.81 _cell.length_b 51.81 _cell.length_c 229.55 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5KMO _symmetry.cell_setting ? _symmetry.Int_Tables_number 151 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 1 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 _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C17 H15 N5 O' _chem_comp.formula_weight 305.334 _chem_comp.id 6UM _chem_comp.mon_nstd_flag . _chem_comp.name 1-(2-methyl-4-phenyl-pyrimidin-5-yl)-3-pyridin-2-yl-urea _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 C8 C9 6UM doub 1 n y C8 C7 6UM sing 2 n y C9 C10 6UM sing 3 n y C7 N4 6UM doub 4 n y C10 C6 6UM doub 5 n y C14 C13 6UM doub 6 n y C14 C15 6UM sing 7 n y C13 C12 6UM sing 8 n y N4 C6 6UM sing 9 n y C6 N3 6UM sing 10 n n C15 C16 6UM doub 11 n y C12 C11 6UM doub 12 n y N3 C5 6UM sing 13 n n C16 C11 6UM sing 14 n y C11 C 6UM sing 15 n n N2 C5 6UM sing 16 n n N2 C1 6UM sing 17 n n C5 O 6UM doub 18 n n C C1 6UM doub 19 n y C N1 6UM sing 20 n y C1 C2 6UM sing 21 n y N1 C3 6UM doub 22 n y C2 N 6UM doub 23 n y C3 N 6UM sing 24 n y C3 C4 6UM sing 25 n n C2 H1 6UM sing 26 n n C7 H2 6UM sing 27 n n C9 H3 6UM sing 28 n n C10 H4 6UM sing 29 n n C12 H5 6UM sing 30 n n C13 H6 6UM sing 31 n n C15 H7 6UM sing 32 n n N3 H8 6UM sing 33 n n C8 H9 6UM sing 34 n n N2 H10 6UM sing 35 n n C4 H11 6UM sing 36 n n C4 H12 6UM sing 37 n n C4 H13 6UM sing 38 n n C16 H14 6UM sing 39 n n C14 H15 6UM sing 40 n n # _atom_sites.entry_id 5KMO _atom_sites.fract_transf_matrix[1][1] 0.019301 _atom_sites.fract_transf_matrix[1][2] 0.011144 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022287 _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] 0.004356 _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 6UM A 1 901 1 6UM MRK . C 3 HOH A 1 1001 21 HOH HOH . C 3 HOH A 2 1002 14 HOH HOH . C 3 HOH A 3 1003 11 HOH HOH . C 3 HOH A 4 1004 22 HOH HOH . C 3 HOH A 5 1005 7 HOH HOH . C 3 HOH A 6 1006 8 HOH HOH . C 3 HOH A 7 1007 10 HOH HOH . C 3 HOH A 8 1008 3 HOH HOH . C 3 HOH A 9 1009 1 HOH HOH . C 3 HOH A 10 1010 18 HOH HOH . C 3 HOH A 11 1011 16 HOH HOH . C 3 HOH A 12 1012 9 HOH HOH . C 3 HOH A 13 1013 12 HOH HOH . C 3 HOH A 14 1014 4 HOH HOH . C 3 HOH A 15 1015 17 HOH HOH . C 3 HOH A 16 1016 20 HOH HOH . C 3 HOH A 17 1017 19 HOH HOH . C 3 HOH A 18 1018 2 HOH HOH . C 3 HOH A 19 1019 13 HOH HOH . C 3 HOH A 20 1020 15 HOH HOH . C 3 HOH A 21 1021 6 HOH HOH . C 3 HOH A 22 1022 5 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 C2 6UM . . . B 2 -16.72 -3.967 -9.709 1 30.6 ? C2 6UM 901 A 1 HETATM 2 C C3 6UM . . . B 2 -15.095 -2.493 -9.074 1 30.26 ? C3 6UM 901 A 1 HETATM 3 N N4 6UM . . . B 2 -18.122 -3.283 -14.665 1 22.88 ? N4 6UM 901 A 1 HETATM 4 C C5 6UM . . . B 2 -18.475 -4.796 -12.092 1 25.06 ? C5 6UM 901 A 1 HETATM 5 C C7 6UM . . . B 2 -18.04 -2.681 -15.862 1 25.25 ? C7 6UM 901 A 1 HETATM 6 C C9 6UM . . . B 2 -19.642 -4.125 -16.83 1 20.34 ? C9 6UM 901 A 1 HETATM 7 C C10 6UM . . . B 2 -19.767 -4.766 -15.607 1 22.17 ? C10 6UM 901 A 1 HETATM 8 C C11 6UM . . . B 2 -15.465 -1.89 -12.631 1 32.64 ? C11 6UM 901 A 1 HETATM 9 C C12 6UM . . . B 2 -14.762 -2.572 -13.626 1 31.85 ? C12 6UM 901 A 1 HETATM 10 C C13 6UM . . . B 2 -14.566 -1.997 -14.871 1 30.85 ? C13 6UM 901 A 1 HETATM 11 C C15 6UM . . . B 2 -15.766 -0.048 -14.167 1 32.02 ? C15 6UM 901 A 1 HETATM 12 O O 6UM . . . B 2 -18.787 -5.425 -11.1 1 28.01 ? O 6UM 901 A 1 HETATM 13 N N3 6UM . . . B 2 -19.108 -4.957 -13.303 1 25.8 ? N3 6UM 901 A 1 HETATM 14 C C6 6UM . . . B 2 -18.979 -4.314 -14.544 1 23.06 ? C6 6UM 901 A 1 HETATM 15 C C8 6UM . . . B 2 -18.777 -3.066 -16.967 1 22.9 ? C8 6UM 901 A 1 HETATM 16 N N2 6UM . . . B 2 -17.472 -3.869 -12.096 1 22.93 ? N2 6UM 901 A 1 HETATM 17 C C1 6UM . . . B 2 -16.629 -3.488 -11.021 1 28 ? C1 6UM 901 A 1 HETATM 18 C C 6UM . . . B 2 -15.68 -2.503 -11.296 1 30.14 ? C 6UM 901 A 1 HETATM 19 N N1 6UM . . . B 2 -14.914 -2.017 -10.312 1 31.67 ? N1 6UM 901 A 1 HETATM 20 C C4 6UM . . . B 2 -14.346 -1.812 -7.971 1 24.1 ? C4 6UM 901 A 1 HETATM 21 N N 6UM . . . B 2 -15.948 -3.47 -8.726 1 31.77 ? N 6UM 901 A 1 HETATM 22 C C16 6UM . . . B 2 -15.97 -0.621 -12.92 1 31.66 ? C16 6UM 901 A 1 HETATM 23 C C14 6UM . . . B 2 -15.063 -0.733 -15.141 1 31.45 ? C14 6UM 901 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 333 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 23 #