data_3MXD # _model_server_result.job_id tdlvz3jJDmXL2wsj21BmZg _model_server_result.datetime_utc '2025-01-25 12:02:08' _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 3mxd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":200}' # _entry.id 3MXD # _exptl.entry_id 3MXD _exptl.method 'X-RAY DIFFRACTION' # _entity.details 'synthesized in the laboratory' _entity.formula_weight 625.689 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(5S)-N-{(1S,2R)-3-[(1,3-benzodioxol-5-ylsulfonyl)(2-methylpropyl)amino]-1-benzyl-2-hydroxypropyl}-3-(2-hydroxyphenyl)-2 -oxo-1,3-oxazolidine-5-carboxamide' _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 90 _cell.entry_id 3MXD _cell.length_a 50.674 _cell.length_b 57.858 _cell.length_c 61.914 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3MXD _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,D,E,F,G,H,I,J _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 C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C31 H35 N3 O9 S' _chem_comp.formula_weight 625.689 _chem_comp.id K53 _chem_comp.mon_nstd_flag . _chem_comp.name '(5S)-N-{(1S,2R)-3-[(1,3-benzodioxol-5-ylsulfonyl)(2-methylpropyl)amino]-1-benzyl-2-hydroxypropyl}-3-(2-hydroxyphenyl)-2 -oxo-1,3-oxazolidine-5-carboxamide' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '(5S)-N-[(1S,2R)-3-[(1,3-Benzodioxol-5-ylsulfonyl)(2-methylpropyl)amino]-2-hydroxy-1-(phenylmethyl)propyl]-3-(2-hydroxyp henyl)-2-oxooxazolidine-5-carboxamide' # 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 C2 C3 K53 doub 179 n y C2 C7 K53 sing 180 n y C2 O19 K53 sing 181 n n C3 C4 K53 sing 182 n y C3 O29 K53 sing 183 n n C4 C5 K53 doub 184 n y C5 C6 K53 sing 185 n y C5 S8 K53 sing 186 n n C6 C7 K53 doub 187 n y S8 O9 K53 doub 188 n n S8 O10 K53 doub 189 n n S8 N11 K53 sing 190 n n N11 C12 K53 sing 191 n n N11 C16 K53 sing 192 n n C12 C13 K53 sing 193 n n C13 C14 K53 sing 194 n n C13 C15 K53 sing 195 n n C16 C17 K53 sing 196 n n C17 O18 K53 sing 197 n n C17 C19 K53 sing 198 n n C18 O19 K53 sing 199 n n C18 O29 K53 sing 200 n n C19 N20 K53 sing 201 n n C19 C32 K53 sing 202 n n N20 C21 K53 sing 203 n n C21 O22 K53 doub 204 n n C21 C29 K53 sing 205 n n N24 C25 K53 sing 206 n n N24 C26 K53 sing 207 n n N24 C43 K53 sing 208 n n C25 C29 K53 sing 209 n n C26 O27 K53 doub 210 n n C26 O28 K53 sing 211 n n O28 C29 K53 sing 212 n n C32 C38 K53 sing 213 n n C33 C34 K53 doub 214 n y C33 C38 K53 sing 215 n y C34 C35 K53 sing 216 n y C35 C36 K53 doub 217 n y C36 C37 K53 sing 218 n y C37 C38 K53 doub 219 n y C40 C41 K53 doub 220 n y C40 C45 K53 sing 221 n y C41 C42 K53 sing 222 n y C42 C43 K53 doub 223 n y C42 O46 K53 sing 224 n n C43 C44 K53 sing 225 n y C44 C45 K53 doub 226 n y C4 H4 K53 sing 227 n n C6 H6 K53 sing 228 n n C7 H7 K53 sing 229 n n C12 H12 K53 sing 230 n n C12 H12A K53 sing 231 n n C13 H13 K53 sing 232 n n C14 H14 K53 sing 233 n n C14 H14A K53 sing 234 n n C14 H14B K53 sing 235 n n C15 H15 K53 sing 236 n n C15 H15A K53 sing 237 n n C15 H15B K53 sing 238 n n C16 H16 K53 sing 239 n n C16 H16A K53 sing 240 n n C17 H17 K53 sing 241 n n C18 H18 K53 sing 242 n n C18 H18A K53 sing 243 n n O18 HO18 K53 sing 244 n n C19 H19 K53 sing 245 n n N20 HN20 K53 sing 246 n n C25 H25 K53 sing 247 n n C25 H25A K53 sing 248 n n C29 H29 K53 sing 249 n n C32 H32 K53 sing 250 n n C32 H32A K53 sing 251 n n C33 H33 K53 sing 252 n n C34 H34 K53 sing 253 n n C35 H35 K53 sing 254 n n C36 H36 K53 sing 255 n n C37 H37 K53 sing 256 n n C40 H40 K53 sing 257 n n C41 H41 K53 sing 258 n n C44 H44 K53 sing 259 n n C45 H45 K53 sing 260 n n O46 HO46 K53 sing 261 n n # _atom_sites.entry_id 3MXD _atom_sites.fract_transf_matrix[1][1] 0.019734 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017284 _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] 0.016151 _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 K53 A 1 200 200 K53 K53 . D 3 PO4 A 1 501 501 PO4 PO4 . E 3 PO4 A 1 504 504 PO4 PO4 . F 4 ACT A 1 505 505 ACT ACT . G 3 PO4 B 1 502 502 PO4 PO4 . H 3 PO4 B 1 503 503 PO4 PO4 . I 5 HOH A 1 100 1 HOH HOH . I 5 HOH A 2 101 3 HOH HOH . I 5 HOH A 3 102 4 HOH HOH . I 5 HOH A 4 103 103 HOH HOH . I 5 HOH A 5 104 104 HOH HOH . I 5 HOH A 6 105 105 HOH HOH . I 5 HOH A 7 106 106 HOH HOH . I 5 HOH A 8 107 7 HOH HOH . I 5 HOH A 9 108 9 HOH HOH . I 5 HOH A 10 109 12 HOH HOH . I 5 HOH A 11 110 13 HOH HOH . I 5 HOH A 12 111 15 HOH HOH . I 5 HOH A 13 112 16 HOH HOH . I 5 HOH A 14 113 17 HOH HOH . I 5 HOH A 15 114 114 HOH HOH . I 5 HOH A 16 115 115 HOH HOH . I 5 HOH A 17 116 116 HOH HOH . I 5 HOH A 18 117 20 HOH HOH . I 5 HOH A 19 118 21 HOH HOH . I 5 HOH A 20 119 23 HOH HOH . I 5 HOH A 21 120 26 HOH HOH . I 5 HOH A 22 121 27 HOH HOH . I 5 HOH A 23 122 31 HOH HOH . I 5 HOH A 24 123 32 HOH HOH . I 5 HOH A 25 124 47 HOH HOH . I 5 HOH A 26 125 50 HOH HOH . I 5 HOH A 27 126 52 HOH HOH . I 5 HOH A 28 127 53 HOH HOH . I 5 HOH A 29 128 54 HOH HOH . I 5 HOH A 30 129 55 HOH HOH . I 5 HOH A 31 130 56 HOH HOH . I 5 HOH A 32 131 57 HOH HOH . I 5 HOH A 33 132 58 HOH HOH . I 5 HOH A 34 133 59 HOH HOH . I 5 HOH A 35 134 60 HOH HOH . I 5 HOH A 36 135 61 HOH HOH . I 5 HOH A 37 136 64 HOH HOH . I 5 HOH A 38 137 68 HOH HOH . I 5 HOH A 39 138 83 HOH HOH . I 5 HOH A 40 139 84 HOH HOH . I 5 HOH A 41 140 85 HOH HOH . I 5 HOH A 42 141 86 HOH HOH . I 5 HOH A 43 142 87 HOH HOH . I 5 HOH A 44 143 88 HOH HOH . I 5 HOH A 45 144 89 HOH HOH . I 5 HOH A 46 145 90 HOH HOH . I 5 HOH A 47 146 94 HOH HOH . I 5 HOH A 48 147 97 HOH HOH . J 5 HOH B 1 100 100 HOH HOH . J 5 HOH B 2 101 101 HOH HOH . J 5 HOH B 3 102 102 HOH HOH . J 5 HOH B 4 103 2 HOH HOH . J 5 HOH B 5 104 5 HOH HOH . J 5 HOH B 6 105 6 HOH HOH . J 5 HOH B 7 106 8 HOH HOH . J 5 HOH B 8 107 107 HOH HOH . J 5 HOH B 9 108 108 HOH HOH . J 5 HOH B 10 109 109 HOH HOH . J 5 HOH B 11 110 110 HOH HOH . J 5 HOH B 12 111 111 HOH HOH . J 5 HOH B 13 112 112 HOH HOH . J 5 HOH B 14 113 113 HOH HOH . J 5 HOH B 15 114 10 HOH HOH . J 5 HOH B 16 115 11 HOH HOH . J 5 HOH B 17 116 14 HOH HOH . J 5 HOH B 18 117 117 HOH HOH . J 5 HOH B 19 118 18 HOH HOH . J 5 HOH B 20 119 19 HOH HOH . J 5 HOH B 21 120 22 HOH HOH . J 5 HOH B 22 121 24 HOH HOH . J 5 HOH B 23 122 25 HOH HOH . J 5 HOH B 24 123 28 HOH HOH . J 5 HOH B 25 124 29 HOH HOH . J 5 HOH B 26 125 30 HOH HOH . J 5 HOH B 27 126 33 HOH HOH . J 5 HOH B 28 127 34 HOH HOH . J 5 HOH B 29 128 35 HOH HOH . J 5 HOH B 30 129 36 HOH HOH . J 5 HOH B 31 130 37 HOH HOH . J 5 HOH B 32 131 38 HOH HOH . J 5 HOH B 33 132 39 HOH HOH . J 5 HOH B 34 133 40 HOH HOH . J 5 HOH B 35 134 41 HOH HOH . J 5 HOH B 36 135 42 HOH HOH . J 5 HOH B 37 136 43 HOH HOH . J 5 HOH B 38 137 44 HOH HOH . J 5 HOH B 39 138 45 HOH HOH . J 5 HOH B 40 139 46 HOH HOH . J 5 HOH B 41 140 48 HOH HOH . J 5 HOH B 42 141 49 HOH HOH . J 5 HOH B 43 142 51 HOH HOH . J 5 HOH B 44 143 62 HOH HOH . J 5 HOH B 45 144 63 HOH HOH . J 5 HOH B 46 145 66 HOH HOH . J 5 HOH B 47 146 67 HOH HOH . J 5 HOH B 48 147 69 HOH HOH . J 5 HOH B 49 148 70 HOH HOH . J 5 HOH B 50 149 71 HOH HOH . J 5 HOH B 51 150 72 HOH HOH . J 5 HOH B 52 151 73 HOH HOH . J 5 HOH B 53 152 74 HOH HOH . J 5 HOH B 54 153 75 HOH HOH . J 5 HOH B 55 154 76 HOH HOH . J 5 HOH B 56 155 77 HOH HOH . J 5 HOH B 57 156 78 HOH HOH . J 5 HOH B 58 157 79 HOH HOH . J 5 HOH B 59 158 80 HOH HOH . J 5 HOH B 60 159 81 HOH HOH . J 5 HOH B 61 160 82 HOH HOH . J 5 HOH B 62 161 91 HOH HOH . J 5 HOH B 63 162 95 HOH HOH . J 5 HOH B 64 163 96 HOH HOH . J 5 HOH B 65 164 98 HOH HOH . J 5 HOH B 66 165 99 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 K53 . . . C 2 15.594 34.628 17.578 1 14.94 ? C2 K53 200 A 1 HETATM 2 C C3 K53 . . . C 2 16.583 35.27 16.893 1 14.54 ? C3 K53 200 A 1 HETATM 3 C C4 K53 . . . C 2 17.385 34.592 15.982 1 12 ? C4 K53 200 A 1 HETATM 4 C C5 K53 . . . C 2 17.188 33.22 15.769 1 12.29 ? C5 K53 200 A 1 HETATM 5 C C6 K53 . . . C 2 16.167 32.57 16.485 1 13.23 ? C6 K53 200 A 1 HETATM 6 C C7 K53 . . . C 2 15.359 33.275 17.4 1 14.3 ? C7 K53 200 A 1 HETATM 7 S S8 K53 . . . C 2 18.132 32.395 14.733 1 12.58 ? S8 K53 200 A 1 HETATM 8 O O9 K53 . . . C 2 17.407 31.306 14.144 1 11.96 ? O9 K53 200 A 1 HETATM 9 O O10 K53 . . . C 2 18.661 33.266 13.725 1 10.54 ? O10 K53 200 A 1 HETATM 10 N N11 K53 . . . C 2 19.417 31.728 15.468 1 11.94 ? N11 K53 200 A 1 HETATM 11 C C12 K53 . . . C 2 20.159 32.699 16.317 1 12.27 ? C12 K53 200 A 1 HETATM 12 C C13 K53 . . . C 2 21.666 32.411 16.299 1 12.68 ? C13 K53 200 A 1 HETATM 13 C C14 K53 . . . C 2 22.249 32.39 14.883 1 12.38 ? C14 K53 200 A 1 HETATM 14 C C15 K53 . . . C 2 22.409 33.418 17.183 1 14.62 ? C15 K53 200 A 1 HETATM 15 C C16 K53 . . . C 2 19.104 30.462 16.177 1 10.32 ? C16 K53 200 A 1 HETATM 16 C C17 K53 . . . C 2 20.024 29.367 15.618 1 10.27 ? C17 K53 200 A 1 HETATM 17 C C18 K53 . . . C 2 15.629 36.802 18.274 1 17.24 ? C18 K53 200 A 1 HETATM 18 O O18 K53 . . . C 2 19.974 28.215 16.476 1 9.03 ? O18 K53 200 A 1 HETATM 19 C C19 K53 . . . C 2 19.69 28.993 14.171 1 10.85 ? C19 K53 200 A 1 HETATM 20 O O19 K53 . . . C 2 14.979 35.516 18.407 1 17.77 ? O19 K53 200 A 1 HETATM 21 N N20 K53 . . . C 2 20.797 28.228 13.603 1 11.41 ? N20 K53 200 A 1 HETATM 22 C C21 K53 . . . C 2 21.554 28.634 12.573 1 12.81 ? C21 K53 200 A 1 HETATM 23 O O22 K53 . . . C 2 21.453 29.731 12.045 1 12.73 ? O22 K53 200 A 1 HETATM 24 N N24 K53 . . . C 2 22.54 26.159 10.24 1 17.83 ? N24 K53 200 A 1 HETATM 25 C C25 K53 . . . C 2 22.621 27.595 10.519 1 16.51 ? C25 K53 200 A 1 HETATM 26 C C26 K53 . . . C 2 22.3 25.465 11.338 1 16.34 ? C26 K53 200 A 1 HETATM 27 O O27 K53 . . . C 2 22.206 24.253 11.427 1 18.26 ? O27 K53 200 A 1 HETATM 28 O O28 K53 . . . C 2 22.22 26.324 12.474 1 15.99 ? O28 K53 200 A 1 HETATM 29 C C29 K53 . . . C 2 22.572 27.653 12.049 1 14.75 ? C29 K53 200 A 1 HETATM 30 O O29 K53 . . . C 2 16.605 36.594 17.246 1 15.65 ? O29 K53 200 A 1 HETATM 31 C C32 K53 . . . C 2 18.364 28.229 14.037 1 12.4 ? C32 K53 200 A 1 HETATM 32 C C33 K53 . . . C 2 18.527 26.604 12.123 1 14.01 ? C33 K53 200 A 1 HETATM 33 C C34 K53 . . . C 2 18.385 26.274 10.787 1 14.41 ? C34 K53 200 A 1 HETATM 34 C C35 K53 . . . C 2 17.868 27.209 9.9 1 15.94 ? C35 K53 200 A 1 HETATM 35 C C36 K53 . . . C 2 17.512 28.475 10.352 1 15.29 ? C36 K53 200 A 1 HETATM 36 C C37 K53 . . . C 2 17.654 28.802 11.692 1 13.92 ? C37 K53 200 A 1 HETATM 37 C C38 K53 . . . C 2 18.163 27.869 12.583 1 13.19 ? C38 K53 200 A 1 HETATM 38 C C40 K53 . . . C 2 23.292 24.437 6.516 1 23.72 ? C40 K53 200 A 1 HETATM 39 C C41 K53 . . . C 2 24.298 24.514 7.48 1 21.29 ? C41 K53 200 A 1 HETATM 40 C C42 K53 . . . C 2 24.032 25.1 8.718 1 19.74 ? C42 K53 200 A 1 HETATM 41 C C43 K53 . . . C 2 22.768 25.582 8.987 1 18.91 ? C43 K53 200 A 1 HETATM 42 C C44 K53 . . . C 2 21.759 25.51 8.027 1 20 ? C44 K53 200 A 1 HETATM 43 C C45 K53 . . . C 2 22.015 24.931 6.795 1 21.52 ? C45 K53 200 A 1 HETATM 44 O O46 K53 . . . C 2 25.007 25.183 9.675 1 19.6 ? O46 K53 200 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 44 #