data_9UPD # _model_server_result.job_id hC3uf1aa19xTpPtk-4TXJg _model_server_result.datetime_utc '2025-07-22 05:51:06' _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 9upd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 9UPD # _exptl.entry_id 9UPD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 317.423 _entity.id 2 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description '(2R)-3-phenyl-2-[(4-propan-2-ylcyclohexyl)carbonylamino]propanoic 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 105.64 _cell.angle_gamma 90 _cell.entry_id 9UPD _cell.length_a 59.45 _cell.length_b 180.8 _cell.length_c 60.29 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9UPD _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D 1 1 B,E,F 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 ? 2 C N N ? 2 E 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 disulf ? disulf1 A SG CYS 53 A CYS 53 1_555 A SG CYS 62 A CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 A SG CYS 75 A CYS 75 1_555 A SG CYS 91 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 90 A CYS 90 1_555 A SG CYS 101 A CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 A SG CYS 124 A CYS 124 1_555 A SG CYS 169 A CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 A SG CYS 168 A CYS 168 1_555 A SG CYS 177 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf6 A SG CYS 200 A CYS 200 1_555 A SG CYS 246 A CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 A SG CYS 245 A CYS 245 1_555 A SG CYS 253 A CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 A SG CYS 265 A CYS 265 1_555 A SG CYS 279 A CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf9 A SG CYS 278 A CYS 278 1_555 A SG CYS 289 A CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 A SG CYS 316 A CYS 316 1_555 A SG CYS 361 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 A SG CYS 360 A CYS 360 1_555 A SG CYS 369 A CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 A SG CYS 392 A CYS 392 1_555 A SG CYS 438 A CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf13 A SG CYS 437 A CYS 437 1_555 A SG CYS 448 A CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf14 A SG CYS 461 A CYS 461 1_555 A SG CYS 477 A CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf15 A SG CYS 476 A CYS 476 1_555 A SG CYS 487 A CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf16 A SG CYS 514 A CYS 514 1_555 A SG CYS 559 A CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf17 B SG CYS 53 B CYS 53 1_555 B SG CYS 62 B CYS 62 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf18 B SG CYS 75 B CYS 75 1_555 B SG CYS 91 B CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf19 B SG CYS 90 B CYS 90 1_555 B SG CYS 101 B CYS 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf20 B SG CYS 124 B CYS 124 1_555 B SG CYS 169 B CYS 169 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf21 B SG CYS 168 B CYS 168 1_555 B SG CYS 177 B CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf22 B SG CYS 200 B CYS 200 1_555 B SG CYS 246 B CYS 246 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf23 B SG CYS 245 B CYS 245 1_555 B SG CYS 253 B CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf24 B SG CYS 265 B CYS 265 1_555 B SG CYS 279 B CYS 279 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf25 B SG CYS 278 B CYS 278 1_555 B SG CYS 289 B CYS 289 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf26 B SG CYS 316 B CYS 316 1_555 B SG CYS 361 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf27 B SG CYS 360 B CYS 360 1_555 B SG CYS 369 B CYS 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf28 B SG CYS 392 B CYS 392 1_555 B SG CYS 438 B CYS 438 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf29 B SG CYS 437 B CYS 437 1_555 B SG CYS 448 B CYS 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf30 B SG CYS 461 B CYS 461 1_555 B SG CYS 477 B CYS 477 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf31 B SG CYS 476 B CYS 476 1_555 B SG CYS 487 B CYS 487 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf32 B SG CYS 514 B CYS 514 1_555 B SG CYS 559 B CYS 559 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? # _chem_comp.formula 'C19 H27 N O3' _chem_comp.formula_weight 317.423 _chem_comp.id A1L9H _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-3-phenyl-2-[(4-propan-2-ylcyclohexyl)carbonylamino]propanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms nateglinide # 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 C02 C01 A1L9H sing 1 n n C03 C02 A1L9H sing 2 n n C04 C02 A1L9H sing 3 n n C05 C04 A1L9H sing 4 n n C06 C05 A1L9H sing 5 n n C07 C06 A1L9H sing 6 n n C09 C08 A1L9H sing 7 n n C08 C07 A1L9H sing 8 n n C10 C07 A1L9H sing 9 n n O11 C10 A1L9H doub 10 n n N12 C10 A1L9H sing 11 n n C13 N12 A1L9H sing 12 n n C15 C14 A1L9H sing 13 n n C16 C15 A1L9H doub 14 n y C17 C16 A1L9H sing 15 n y C18 C17 A1L9H doub 16 n y C19 C18 A1L9H sing 17 n y C20 C19 A1L9H doub 18 n y C14 C13 A1L9H sing 19 n n C21 C13 A1L9H sing 20 n n O22 C21 A1L9H sing 21 n n O23 C21 A1L9H doub 22 n n C04 C09 A1L9H sing 23 n n C15 C20 A1L9H sing 24 n y N12 H121 A1L9H sing 25 n n C13 H131 A1L9H sing 26 n n C17 H171 A1L9H sing 27 n n C20 H201 A1L9H sing 28 n n C01 H011 A1L9H sing 29 n n C01 H012 A1L9H sing 30 n n C01 H013 A1L9H sing 31 n n C02 H021 A1L9H sing 32 n n C03 H033 A1L9H sing 33 n n C03 H031 A1L9H sing 34 n n C03 H032 A1L9H sing 35 n n C04 H041 A1L9H sing 36 n n C05 H052 A1L9H sing 37 n n C05 H051 A1L9H sing 38 n n C06 H062 A1L9H sing 39 n n C06 H061 A1L9H sing 40 n n C07 H071 A1L9H sing 41 n n C08 H081 A1L9H sing 42 n n C08 H082 A1L9H sing 43 n n C09 H092 A1L9H sing 44 n n C09 H091 A1L9H sing 45 n n C14 H142 A1L9H sing 46 n n C14 H141 A1L9H sing 47 n n C16 H161 A1L9H sing 48 n n C18 H181 A1L9H sing 49 n n C19 H191 A1L9H sing 50 n n O22 H1 A1L9H sing 51 n n # _atom_sites.entry_id 9UPD _atom_sites.fract_transf_matrix[1][1] 0.016821 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004709 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005531 _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] 0.017224 _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 A1L9H A 1 601 1 A1L9H LIG . D 3 PO4 A 1 602 11 PO4 PO4 . E 2 A1L9H B 1 601 2 A1L9H LIG . F 3 PO4 B 1 602 12 PO4 PO4 . # 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 C10 A1L9H . . . C 2 -0.076 4.435 30.647 1 93.52 ? C10 A1L9H 601 A 1 HETATM 2 N N12 A1L9H . . . C 2 0.207 3.342 29.818 1 93.69 ? N12 A1L9H 601 A 1 HETATM 3 C C13 A1L9H . . . C 2 0.674 2.035 30.376 1 93.99 ? C13 A1L9H 601 A 1 HETATM 4 C C15 A1L9H . . . C 2 2.788 0.699 29.654 1 98.33 ? C15 A1L9H 601 A 1 HETATM 5 C C17 A1L9H . . . C 2 4.222 -0.763 30.982 1 99.7 ? C17 A1L9H 601 A 1 HETATM 6 C C20 A1L9H . . . C 2 3.95 1.194 29.049 1 101.44 ? C20 A1L9H 601 A 1 HETATM 7 C C21 A1L9H . . . C 2 -0.493 1.133 30.933 1 90.35 ? C21 A1L9H 601 A 1 HETATM 8 C C01 A1L9H . . . C 2 -1.631 10.097 28.04 1 91.68 ? C01 A1L9H 601 A 1 HETATM 9 C C02 A1L9H . . . C 2 -1.966 8.896 27.146 1 90.13 ? C02 A1L9H 601 A 1 HETATM 10 C C03 A1L9H . . . C 2 -3.475 8.817 26.881 1 90.11 ? C03 A1L9H 601 A 1 HETATM 11 C C04 A1L9H . . . C 2 -1.387 7.575 27.714 1 87.73 ? C04 A1L9H 601 A 1 HETATM 12 C C05 A1L9H . . . C 2 -0.078 7.769 28.503 1 88.9 ? C05 A1L9H 601 A 1 HETATM 13 C C06 A1L9H . . . C 2 0.452 6.514 29.188 1 89.95 ? C06 A1L9H 601 A 1 HETATM 14 C C07 A1L9H . . . C 2 -0.568 5.787 30.072 1 89.74 ? C07 A1L9H 601 A 1 HETATM 15 C C08 A1L9H . . . C 2 -1.828 5.564 29.228 1 87.56 ? C08 A1L9H 601 A 1 HETATM 16 C C09 A1L9H . . . C 2 -2.392 6.829 28.601 1 87.8 ? C09 A1L9H 601 A 1 HETATM 17 C C14 A1L9H . . . C 2 1.404 1.2 29.283 1 92.79 ? C14 A1L9H 601 A 1 HETATM 18 C C16 A1L9H . . . C 2 2.96 -0.288 30.627 1 98.06 ? C16 A1L9H 601 A 1 HETATM 19 C C18 A1L9H . . . C 2 5.363 -0.261 30.37 1 102.75 ? C18 A1L9H 601 A 1 HETATM 20 C C19 A1L9H . . . C 2 5.217 0.721 29.398 1 102.08 ? C19 A1L9H 601 A 1 HETATM 21 O O11 A1L9H . . . C 2 0.054 4.357 31.87 1 96.53 ? O11 A1L9H 601 A 1 HETATM 22 O O22 A1L9H . . . C 2 -0.843 1.329 32.125 1 90.05 -1 O22 A1L9H 601 A 1 HETATM 23 O O23 A1L9H . . . C 2 -0.975 0.306 30.144 1 86.77 ? O23 A1L9H 601 A 1 # _model_server_stats.io_time_ms 30 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 23 #