data_8DDM # _model_server_result.job_id 6laaAS_I3nRWkcivtNKmbA _model_server_result.datetime_utc '2025-01-28 23:25:44' _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 8ddm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 8DDM # _exptl.entry_id 8DDM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 485.551 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1S,2S)-2-({N-[(benzyloxy)carbonyl]-L-leucyl}amino)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid' _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 102.12 _cell.angle_gamma 90 _cell.entry_id 8DDM _cell.length_a 113.931 _cell.length_b 53.401 _cell.length_c 46.482 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DDM _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # 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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 145 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 145 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C21 _struct_conn.ptnr2_label_comp_id K36 _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id K36 _struct_conn.ptnr2_auth_seq_id 401 _struct_conn.ptnr2_symmetry 1_555 _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 1.831 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C21 H31 N3 O8 S' _chem_comp.formula_weight 485.551 _chem_comp.id K36 _chem_comp.mon_nstd_flag . _chem_comp.name '(1S,2S)-2-({N-[(benzyloxy)carbonyl]-L-leucyl}amino)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid' _chem_comp.type peptide-like _chem_comp.pdbx_synonyms GC376 # 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 O22 C21 K36 sing 173 n n C21 C20 K36 sing 174 n n C20 C24 K36 sing 175 n n C20 N19 K36 sing 176 n n C24 C25 K36 sing 177 n n C26 C27 K36 sing 178 n n C26 C25 K36 sing 179 n n C27 N28 K36 sing 180 n n O18 C17 K36 doub 181 n n N19 C17 K36 sing 182 n n C25 C29 K36 sing 183 n n C29 N28 K36 sing 184 n n C29 O30 K36 doub 185 n n C17 C12 K36 sing 186 n n C13 C12 K36 sing 187 n n C13 C14 K36 sing 188 n n C12 N11 K36 sing 189 n n C15 C14 K36 sing 190 n n C14 C16 K36 sing 191 n n N11 C9 K36 sing 192 n n O10 C9 K36 doub 193 n n C9 O8 K36 sing 194 n n O8 C7 K36 sing 195 n n C7 H1 K36 sing 196 n n C7 H2 K36 sing 197 n n N11 H4 K36 sing 198 n n C12 H5 K36 sing 199 n n C13 H6 K36 sing 200 n n C13 H7 K36 sing 201 n n C14 H8 K36 sing 202 n n C15 H9 K36 sing 203 n n C15 H10 K36 sing 204 n n C15 H11 K36 sing 205 n n C16 H12 K36 sing 206 n n C16 H13 K36 sing 207 n n C16 H14 K36 sing 208 n n N19 H15 K36 sing 209 n n C20 H16 K36 sing 210 n n C21 H17 K36 sing 211 n n O22 H19 K36 sing 212 n n C24 H20 K36 sing 213 n n C24 H21 K36 sing 214 n n C25 H22 K36 sing 215 n n C26 H23 K36 sing 216 n n C26 H24 K36 sing 217 n n C27 H25 K36 sing 218 n n C27 H26 K36 sing 219 n n N28 H27 K36 sing 220 n n C7 C1 K36 sing 221 n n C1 C2 K36 sing 222 n y C2 C3 K36 doub 223 n y C3 C4 K36 sing 224 n y C4 C5 K36 doub 225 n y C5 C6 K36 sing 226 n y C6 C1 K36 doub 227 n y C21 S1 K36 sing 228 n n S1 O1 K36 doub 229 n n S1 O2 K36 doub 230 n n S1 O3 K36 sing 231 n n C2 H3 K36 sing 232 n n C3 H18 K36 sing 233 n n C4 H28 K36 sing 234 n n C5 H29 K36 sing 235 n n C6 H30 K36 sing 236 n n O3 H31 K36 sing 237 n n # _atom_sites.entry_id 8DDM _atom_sites.fract_transf_matrix[1][1] 0.008777 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001884 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018726 _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] 0.022004 _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 K36 A 1 401 401 K36 LIG . C 3 HOH A 1 501 18 HOH HOH . C 3 HOH A 2 502 6 HOH HOH . C 3 HOH A 3 503 1 HOH HOH . C 3 HOH A 4 504 13 HOH HOH . C 3 HOH A 5 505 5 HOH HOH . C 3 HOH A 6 506 12 HOH HOH . C 3 HOH A 7 507 3 HOH HOH . C 3 HOH A 8 508 16 HOH HOH . C 3 HOH A 9 509 19 HOH HOH . C 3 HOH A 10 510 14 HOH HOH . C 3 HOH A 11 511 15 HOH HOH . C 3 HOH A 12 512 4 HOH HOH . C 3 HOH A 13 513 20 HOH HOH . C 3 HOH A 14 514 8 HOH HOH . C 3 HOH A 15 515 2 HOH HOH . C 3 HOH A 16 516 17 HOH HOH . C 3 HOH A 17 517 11 HOH HOH . C 3 HOH A 18 518 9 HOH HOH . C 3 HOH A 19 519 7 HOH HOH . C 3 HOH A 20 520 10 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 C7 K36 . . . B 2 9.37 3.947 22.432 1 46.93 ? C7 K36 401 A 1 HETATM 2 O O8 K36 . . . B 2 10.112 2.872 22.921 1 44.91 ? O8 K36 401 A 1 HETATM 3 C C9 K36 . . . B 2 10.028 1.685 22.196 1 41.18 ? C9 K36 401 A 1 HETATM 4 O O10 K36 . . . B 2 9.716 1.682 21.062 1 40.67 ? O10 K36 401 A 1 HETATM 5 C C1 K36 . . . B 2 7.887 3.832 22.786 1 52.27 ? C1 K36 401 A 1 HETATM 6 C C2 K36 . . . B 2 7.332 2.634 23.203 1 52.79 ? C2 K36 401 A 1 HETATM 7 C C3 K36 . . . B 2 5.989 2.556 23.509 1 52.9 ? C3 K36 401 A 1 HETATM 8 C C4 K36 . . . B 2 5.191 3.678 23.4 1 53.3 ? C4 K36 401 A 1 HETATM 9 C C5 K36 . . . B 2 5.737 4.877 22.985 1 51.92 ? C5 K36 401 A 1 HETATM 10 C C6 K36 . . . B 2 7.082 4.951 22.68 1 52.47 ? C6 K36 401 A 1 HETATM 11 N N11 K36 . . . B 2 10.313 0.446 22.868 1 38.37 ? N11 K36 401 A 1 HETATM 12 C C12 K36 . . . B 2 10.413 -0.776 22.121 1 38.01 ? C12 K36 401 A 1 HETATM 13 C C17 K36 . . . B 2 9.027 -1.318 21.832 1 38.62 ? C17 K36 401 A 1 HETATM 14 O O18 K36 . . . B 2 8.324 -1.621 22.728 1 37.14 ? O18 K36 401 A 1 HETATM 15 C C13 K36 . . . B 2 11.135 -1.795 22.984 1 39.18 ? C13 K36 401 A 1 HETATM 16 C C14 K36 . . . B 2 12.538 -1.296 23.289 1 40.54 ? C14 K36 401 A 1 HETATM 17 C C15 K36 . . . B 2 13.156 -2.178 24.366 1 43.04 ? C15 K36 401 A 1 HETATM 18 C C16 K36 . . . B 2 13.376 -1.395 22.021 1 40.94 ? C16 K36 401 A 1 HETATM 19 N N19 K36 . . . B 2 8.58 -1.464 20.464 1 39.64 ? N19 K36 401 A 1 HETATM 20 C C20 K36 . . . B 2 7.27 -2 20.173 1 40.74 ? C20 K36 401 A 1 HETATM 21 C C21 K36 . . . B 2 7.491 -3.444 19.746 1 40.48 ? C21 K36 401 A 1 HETATM 22 O O22 K36 . . . B 2 6.273 -3.872 19.158 1 44.94 ? O22 K36 401 A 1 HETATM 23 C C24 K36 . . . B 2 6.634 -1.215 19.034 1 38.64 ? C24 K36 401 A 1 HETATM 24 C C25 K36 . . . B 2 6.589 0.295 19.388 1 39.1 ? C25 K36 401 A 1 HETATM 25 C C26 K36 . . . B 2 5.602 0.481 20.48 1 40.68 ? C26 K36 401 A 1 HETATM 26 C C27 K36 . . . B 2 4.801 1.738 20.112 1 41.75 ? C27 K36 401 A 1 HETATM 27 N N28 K36 . . . B 2 5.036 1.971 18.628 1 41.08 ? N28 K36 401 A 1 HETATM 28 C C29 K36 . . . B 2 6.131 1.082 18.201 1 41.29 ? C29 K36 401 A 1 HETATM 29 O O30 K36 . . . B 2 6.562 1.017 17.111 1 45.23 ? O30 K36 401 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #