data_5LLM # _model_server_result.job_id N2ghptj5JD6xPTM_Dr78kg _model_server_result.datetime_utc '2024-11-21 14:20:34' _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 5llm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":603}' # _entry.id 5LLM # _exptl.entry_id 5LLM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 422.475 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-Amino-5,6,7,8-tetrahydro-4-(4-methoxyphenyl)-7-(naphthalen-1-yl)-5-oxo-4H-chromene-3-carbonitrile _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 5LLM _cell.length_a 123.27 _cell.length_b 123.27 _cell.length_c 89.87 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LLM _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63' # _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,D _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 4 _struct_asym.id D _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 O THR 376 A THR 376 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc2 A O SER 417 A SER 417 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.261 ? metalc ? metalc3 A O ALA 420 A ALA 420 1_555 B NA NA . A NA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? # _chem_comp.formula 'C27 H22 N2 O3' _chem_comp.formula_weight 422.475 _chem_comp.id 6Z6 _chem_comp.mon_nstd_flag . _chem_comp.name 2-Amino-5,6,7,8-tetrahydro-4-(4-methoxyphenyl)-7-(naphthalen-1-yl)-5-oxo-4H-chromene-3-carbonitrile _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 C O 6Z6 sing 1 n n O C1 6Z6 sing 2 n n C1 C2 6Z6 doub 3 n y C1 C6 6Z6 sing 4 n y C2 C3 6Z6 sing 5 n y C6 C5 6Z6 doub 6 n y C3 C4 6Z6 doub 7 n y C5 C4 6Z6 sing 8 n y C4 C7 6Z6 sing 9 n n N1 C16 6Z6 trip 10 n n C16 C15 6Z6 sing 11 n n C7 C15 6Z6 sing 12 n n C7 C8 6Z6 sing 13 n n O1 C9 6Z6 doub 14 n n C15 C14 6Z6 doub 15 n n C8 C9 6Z6 sing 16 n n C8 C13 6Z6 doub 17 n n C9 C10 6Z6 sing 18 n n C14 N 6Z6 sing 19 n n C14 O2 6Z6 sing 20 n n C24 C25 6Z6 doub 21 n y C24 C23 6Z6 sing 22 n y C13 O2 6Z6 sing 23 n n C13 C12 6Z6 sing 24 n n C10 C11 6Z6 sing 25 n n C25 C26 6Z6 sing 26 n y C23 C22 6Z6 doub 27 n y C12 C11 6Z6 sing 28 n n C11 C17 6Z6 sing 29 n n C26 C17 6Z6 doub 30 n y C26 C21 6Z6 sing 31 n y C17 C18 6Z6 sing 32 n y C22 C21 6Z6 sing 33 n y C21 C20 6Z6 doub 34 n y C18 C19 6Z6 doub 35 n y C20 C19 6Z6 sing 36 n y C2 H1 6Z6 sing 37 n n C5 H2 6Z6 sing 38 n n C6 H3 6Z6 sing 39 n n N H4 6Z6 sing 40 n n N H5 6Z6 sing 41 n n C3 H6 6Z6 sing 42 n n C H7 6Z6 sing 43 n n C H8 6Z6 sing 44 n n C H9 6Z6 sing 45 n n C10 H10 6Z6 sing 46 n n C10 H11 6Z6 sing 47 n n C11 H12 6Z6 sing 48 n n C12 H13 6Z6 sing 49 n n C12 H14 6Z6 sing 50 n n C18 H15 6Z6 sing 51 n n C19 H16 6Z6 sing 52 n n C20 H17 6Z6 sing 53 n n C22 H18 6Z6 sing 54 n n C23 H19 6Z6 sing 55 n n C24 H20 6Z6 sing 56 n n C25 H21 6Z6 sing 57 n n C7 H22 6Z6 sing 58 n n # _atom_sites.entry_id 5LLM _atom_sites.fract_transf_matrix[1][1] 0.008112 _atom_sites.fract_transf_matrix[1][2] 0.004684 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009367 _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] 0.011127 _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 NA A 1 601 501 NA NA . C 3 ASP A 1 602 502 ASP ASP . D 4 6Z6 A 1 603 503 6Z6 UCP . # 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 6Z6 . . . D 4 -39.159 451.841 3.924 1 109.78 ? N1 6Z6 603 A 1 HETATM 2 C C2 6Z6 . . . D 4 -37.389 455.401 0.379 1 116.09 ? C2 6Z6 603 A 1 HETATM 3 O O2 6Z6 . . . D 4 -40.046 456.009 5.952 1 106.32 ? O2 6Z6 603 A 1 HETATM 4 C C4 6Z6 . . . D 4 -38.001 455.631 2.707 1 111.99 ? C4 6Z6 603 A 1 HETATM 5 C C5 6Z6 . . . D 4 -38.832 456.689 2.356 1 113.29 ? C5 6Z6 603 A 1 HETATM 6 C C6 6Z6 . . . D 4 -38.953 457.103 1.04 1 115.13 ? C6 6Z6 603 A 1 HETATM 7 O O1 6Z6 . . . D 4 -35.5 456.633 4.871 1 106.01 ? O1 6Z6 603 A 1 HETATM 8 C C9 6Z6 . . . D 4 -36.589 457.134 5.154 1 105.89 ? C9 6Z6 603 A 1 HETATM 9 C C8 6Z6 . . . D 4 -37.83 456.347 5.107 1 106.65 ? C8 6Z6 603 A 1 HETATM 10 C C13 6Z6 . . . D 4 -38.873 456.729 5.867 1 105.07 ? C13 6Z6 603 A 1 HETATM 11 C C14 6Z6 . . . D 4 -40.134 454.808 5.295 1 106.84 ? C14 6Z6 603 A 1 HETATM 12 N N 6Z6 . . . D 4 -41.262 454.184 5.644 1 106.27 ? N 6Z6 603 A 1 HETATM 13 C C15 6Z6 . . . D 4 -39.112 454.327 4.545 1 108.07 ? C15 6Z6 603 A 1 HETATM 14 C C16 6Z6 . . . D 4 -39.118 452.955 4.185 1 109.05 ? C16 6Z6 603 A 1 HETATM 15 C C7 6Z6 . . . D 4 -37.904 455.163 4.158 1 108.8 ? C7 6Z6 603 A 1 HETATM 16 C C3 6Z6 . . . D 4 -37.283 454.996 1.7 1 114.24 ? C3 6Z6 603 A 1 HETATM 17 C C1 6Z6 . . . D 4 -38.226 456.463 0.048 1 117.27 ? C1 6Z6 603 A 1 HETATM 18 O O 6Z6 . . . D 4 -38.416 457.075 -1.166 1 119.94 ? O 6Z6 603 A 1 HETATM 19 C C 6Z6 . . . D 4 -37.626 456.648 -2.276 1 121.56 ? C 6Z6 603 A 1 HETATM 20 C C10 6Z6 . . . D 4 -36.694 458.581 5.562 1 104.35 ? C10 6Z6 603 A 1 HETATM 21 C C11 6Z6 . . . D 4 -37.597 458.711 6.782 1 103.05 ? C11 6Z6 603 A 1 HETATM 22 C C12 6Z6 . . . D 4 -38.942 457.991 6.657 1 103.17 ? C12 6Z6 603 A 1 HETATM 23 C C17 6Z6 . . . D 4 -37.603 460.062 7.481 1 102.97 ? C17 6Z6 603 A 1 HETATM 24 C C18 6Z6 . . . D 4 -36.771 460.271 8.551 1 103.29 ? C18 6Z6 603 A 1 HETATM 25 C C19 6Z6 . . . D 4 -36.837 461.424 9.319 1 102.89 ? C19 6Z6 603 A 1 HETATM 26 C C20 6Z6 . . . D 4 -37.742 462.401 9.029 1 102.27 ? C20 6Z6 603 A 1 HETATM 27 C C21 6Z6 . . . D 4 -38.621 462.264 7.928 1 102.16 ? C21 6Z6 603 A 1 HETATM 28 C C26 6Z6 . . . D 4 -38.547 461.085 7.121 1 102.5 ? C26 6Z6 603 A 1 HETATM 29 C C22 6Z6 . . . D 4 -39.579 463.261 7.607 1 102.02 ? C22 6Z6 603 A 1 HETATM 30 C C23 6Z6 . . . D 4 -40.418 463.108 6.54 1 102.43 ? C23 6Z6 603 A 1 HETATM 31 C C24 6Z6 . . . D 4 -40.341 461.979 5.739 1 103.19 ? C24 6Z6 603 A 1 HETATM 32 C C25 6Z6 . . . D 4 -39.43 460.991 6.009 1 102.98 ? C25 6Z6 603 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 387 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #