data_3NW9 # _model_server_result.job_id uTVV2R6a6_eXGKZvN2aXxg _model_server_result.datetime_utc '2024-11-22 13:55:22' _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 3nw9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":228}' # _entry.id 3NW9 # _exptl.entry_id 3NW9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 521.497 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[(E)-3-[(2R,3S,4R,5R)-3,4-dihydroxy-5-(6-methylpurin-9-yl)oxolan-2-yl]prop-2-enyl]-5-(4-fluorophenyl)-2,3-dihydroxy-benzamide _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 3NW9 _cell.length_a 49.507 _cell.length_b 53.861 _cell.length_c 80.257 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NW9 _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 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,E,F,G,H,I _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 5 _struct_asym.id H _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 OD1 ASP 141 A ASP 141 1_555 B MG MG . A MG 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc2 A OD2 ASP 169 A ASP 169 1_555 B MG MG . A MG 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? metalc ? metalc3 A OD1 ASN 170 A ASN 170 1_555 B MG MG . A MG 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc4 B MG MG . A MG 222 1_555 H O32 637 . A 637 228 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? metalc ? metalc5 B MG MG . A MG 222 1_555 H O34 637 . A 637 228 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc6 B MG MG . A MG 222 1_555 I O HOH . A HOH 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? # _chem_comp.formula 'C26 H24 F N5 O6' _chem_comp.formula_weight 521.497 _chem_comp.id 637 _chem_comp.mon_nstd_flag . _chem_comp.name N-[(E)-3-[(2R,3S,4R,5R)-3,4-dihydroxy-5-(6-methylpurin-9-yl)oxolan-2-yl]prop-2-enyl]-5-(4-fluorophenyl)-2,3-dihydroxy-benzamide _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 C1 C2 637 sing 1 n n C1 N10 637 sing 2 n n C1 O13 637 sing 3 n n C2 O3 637 sing 4 n n C2 C4 637 sing 5 n n C4 O5 637 sing 6 n n C4 C6 637 sing 7 n n C6 O13 637 sing 8 n n C6 C14 637 sing 9 n n C7 C35 637 sing 10 n n N8 C9 637 doub 11 n y N8 C12 637 sing 12 n y C9 N10 637 sing 13 n y N10 C11 637 sing 14 n y C11 C12 637 doub 15 n y C11 N40 637 sing 16 n y C12 C35 637 sing 17 n y C14 C15 637 doub 18 n n C15 C16 637 sing 19 n n C16 N17 637 sing 20 n n N17 C18 637 sing 21 n n C18 O19 637 doub 22 n n C18 C20 637 sing 23 n n C20 C21 637 doub 24 n y C20 C31 637 sing 25 n y C21 C22 637 sing 26 n y C22 C23 637 doub 27 n y C22 C24 637 sing 28 e y C23 C33 637 sing 29 n y C24 C25 637 doub 30 n y C24 C27 637 sing 31 n y C25 C26 637 sing 32 n y C26 C29 637 doub 33 n y C27 C28 637 doub 34 n y C28 C29 637 sing 35 n y C29 F30 637 sing 36 n n C31 O32 637 sing 37 n n C31 C33 637 doub 38 n y C33 O34 637 sing 39 n n C35 N38 637 doub 40 n y N38 C39 637 sing 41 n y C39 N40 637 doub 42 n y C1 H1 637 sing 43 n n C2 H2 637 sing 44 n n O3 HO3 637 sing 45 n n C4 H4 637 sing 46 n n O5 HO5 637 sing 47 n n C6 H6 637 sing 48 n n C7 H7 637 sing 49 n n C7 H7A 637 sing 50 n n C7 H7B 637 sing 51 n n C9 H9 637 sing 52 n n C14 H14 637 sing 53 n n C15 H15 637 sing 54 n n C16 H16 637 sing 55 n n C16 H16A 637 sing 56 n n N17 HN17 637 sing 57 n n C21 H21 637 sing 58 n n C23 H23 637 sing 59 n n C25 H25 637 sing 60 n n C26 H26 637 sing 61 n n C27 H27 637 sing 62 n n C28 H28 637 sing 63 n n O32 HO32 637 sing 64 n n O34 HO34 637 sing 65 n n C39 H39 637 sing 66 n n # _atom_sites.entry_id 3NW9 _atom_sites.fract_transf_matrix[1][1] 0.020199 _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] 0.018566 _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] 0.01246 _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 MG A 1 222 1 MG MG . C 3 CL A 1 223 1 CL CL . D 3 CL A 1 224 2 CL CL . E 3 CL A 1 225 3 CL CL . F 3 CL A 1 226 4 CL CL . G 4 NHE A 1 227 1 NHE LIG . H 5 637 A 1 228 1 637 637 . I 6 HOH A 1 229 1 HOH HOH . I 6 HOH A 2 230 2 HOH HOH . I 6 HOH A 3 231 3 HOH HOH . I 6 HOH A 4 232 4 HOH HOH . I 6 HOH A 5 233 5 HOH HOH . I 6 HOH A 6 234 6 HOH HOH . I 6 HOH A 7 235 7 HOH HOH . I 6 HOH A 8 236 8 HOH HOH . I 6 HOH A 9 237 9 HOH HOH . I 6 HOH A 10 238 10 HOH HOH . I 6 HOH A 11 239 11 HOH HOH . I 6 HOH A 12 240 12 HOH HOH . I 6 HOH A 13 241 13 HOH HOH . I 6 HOH A 14 242 14 HOH HOH . I 6 HOH A 15 243 15 HOH HOH . I 6 HOH A 16 244 16 HOH HOH . I 6 HOH A 17 245 17 HOH HOH . I 6 HOH A 18 246 18 HOH HOH . I 6 HOH A 19 247 19 HOH HOH . I 6 HOH A 20 248 20 HOH HOH . I 6 HOH A 21 249 21 HOH HOH . I 6 HOH A 22 250 22 HOH HOH . I 6 HOH A 23 251 23 HOH HOH . I 6 HOH A 24 252 24 HOH HOH . I 6 HOH A 25 253 25 HOH HOH . I 6 HOH A 26 254 26 HOH HOH . I 6 HOH A 27 255 27 HOH HOH . I 6 HOH A 28 256 28 HOH HOH . I 6 HOH A 29 257 29 HOH HOH . I 6 HOH A 30 258 30 HOH HOH . I 6 HOH A 31 259 31 HOH HOH . I 6 HOH A 32 260 32 HOH HOH . I 6 HOH A 33 261 33 HOH HOH . I 6 HOH A 34 262 34 HOH HOH . I 6 HOH A 35 263 35 HOH HOH . I 6 HOH A 36 264 36 HOH HOH . I 6 HOH A 37 265 37 HOH HOH . I 6 HOH A 38 266 38 HOH HOH . I 6 HOH A 39 267 39 HOH HOH . I 6 HOH A 40 268 40 HOH HOH . I 6 HOH A 41 269 41 HOH HOH . I 6 HOH A 42 270 42 HOH HOH . I 6 HOH A 43 271 43 HOH HOH . I 6 HOH A 44 272 44 HOH HOH . I 6 HOH A 45 273 45 HOH HOH . I 6 HOH A 46 274 46 HOH HOH . I 6 HOH A 47 275 47 HOH HOH . I 6 HOH A 48 276 48 HOH HOH . I 6 HOH A 49 277 49 HOH HOH . I 6 HOH A 50 278 50 HOH HOH . I 6 HOH A 51 279 51 HOH HOH . I 6 HOH A 52 280 52 HOH HOH . I 6 HOH A 53 281 53 HOH HOH . I 6 HOH A 54 282 54 HOH HOH . I 6 HOH A 55 283 55 HOH HOH . I 6 HOH A 56 284 56 HOH HOH . I 6 HOH A 57 285 57 HOH HOH . I 6 HOH A 58 286 58 HOH HOH . I 6 HOH A 59 287 59 HOH HOH . I 6 HOH A 60 288 60 HOH HOH . I 6 HOH A 61 289 61 HOH HOH . I 6 HOH A 62 290 62 HOH HOH . I 6 HOH A 63 291 63 HOH HOH . I 6 HOH A 64 292 64 HOH HOH . I 6 HOH A 65 293 65 HOH HOH . I 6 HOH A 66 294 66 HOH HOH . I 6 HOH A 67 295 67 HOH HOH . I 6 HOH A 68 296 68 HOH HOH . I 6 HOH A 69 297 69 HOH HOH . I 6 HOH A 70 298 70 HOH HOH . I 6 HOH A 71 299 71 HOH HOH . I 6 HOH A 72 300 72 HOH HOH . I 6 HOH A 73 301 73 HOH HOH . I 6 HOH A 74 302 74 HOH HOH . I 6 HOH A 75 303 75 HOH HOH . I 6 HOH A 76 304 76 HOH HOH . I 6 HOH A 77 305 77 HOH HOH . I 6 HOH A 78 306 78 HOH HOH . I 6 HOH A 79 307 79 HOH HOH . I 6 HOH A 80 308 80 HOH HOH . I 6 HOH A 81 309 81 HOH HOH . I 6 HOH A 82 310 82 HOH HOH . I 6 HOH A 83 311 83 HOH HOH . I 6 HOH A 84 312 84 HOH HOH . I 6 HOH A 85 313 85 HOH HOH . I 6 HOH A 86 314 86 HOH HOH . I 6 HOH A 87 315 87 HOH HOH . I 6 HOH A 88 316 88 HOH HOH . I 6 HOH A 89 317 89 HOH HOH . I 6 HOH A 90 318 90 HOH HOH . I 6 HOH A 91 319 91 HOH HOH . I 6 HOH A 92 320 92 HOH HOH . I 6 HOH A 93 321 93 HOH HOH . I 6 HOH A 94 322 94 HOH HOH . I 6 HOH A 95 323 95 HOH HOH . I 6 HOH A 96 324 96 HOH HOH . I 6 HOH A 97 325 97 HOH HOH . I 6 HOH A 98 326 98 HOH HOH . I 6 HOH A 99 327 99 HOH HOH . I 6 HOH A 100 328 100 HOH HOH . I 6 HOH A 101 329 101 HOH HOH . I 6 HOH A 102 330 102 HOH HOH . I 6 HOH A 103 331 103 HOH HOH . I 6 HOH A 104 332 104 HOH HOH . I 6 HOH A 105 333 105 HOH HOH . I 6 HOH A 106 334 106 HOH HOH . I 6 HOH A 107 335 107 HOH HOH . I 6 HOH A 108 336 108 HOH HOH . I 6 HOH A 109 337 109 HOH HOH . I 6 HOH A 110 338 110 HOH HOH . I 6 HOH A 111 339 111 HOH HOH . I 6 HOH A 112 340 112 HOH HOH . I 6 HOH A 113 341 113 HOH HOH . I 6 HOH A 114 342 114 HOH HOH . I 6 HOH A 115 343 115 HOH HOH . I 6 HOH A 116 344 116 HOH HOH . I 6 HOH A 117 345 117 HOH HOH . I 6 HOH A 118 346 118 HOH HOH . I 6 HOH A 119 347 119 HOH HOH . I 6 HOH A 120 348 120 HOH HOH . I 6 HOH A 121 349 121 HOH HOH . I 6 HOH A 122 350 122 HOH HOH . I 6 HOH A 123 351 123 HOH HOH . I 6 HOH A 124 352 124 HOH HOH . I 6 HOH A 125 353 125 HOH HOH . I 6 HOH A 126 354 126 HOH HOH . I 6 HOH A 127 355 127 HOH HOH . I 6 HOH A 128 356 128 HOH HOH . I 6 HOH A 129 357 129 HOH HOH . I 6 HOH A 130 358 130 HOH HOH . I 6 HOH A 131 359 131 HOH HOH . I 6 HOH A 132 360 132 HOH HOH . I 6 HOH A 133 361 133 HOH HOH . I 6 HOH A 134 362 134 HOH HOH . I 6 HOH A 135 363 135 HOH HOH . I 6 HOH A 136 364 136 HOH HOH . I 6 HOH A 137 365 137 HOH HOH . I 6 HOH A 138 366 138 HOH HOH . I 6 HOH A 139 367 139 HOH HOH . I 6 HOH A 140 368 140 HOH HOH . I 6 HOH A 141 369 141 HOH HOH . I 6 HOH A 142 370 142 HOH HOH . I 6 HOH A 143 371 143 HOH HOH . I 6 HOH A 144 372 144 HOH HOH . I 6 HOH A 145 373 145 HOH HOH . I 6 HOH A 146 374 146 HOH HOH . I 6 HOH A 147 375 147 HOH HOH . I 6 HOH A 148 376 148 HOH HOH . I 6 HOH A 149 377 149 HOH HOH . I 6 HOH A 150 378 150 HOH HOH . I 6 HOH A 151 379 151 HOH HOH . I 6 HOH A 152 380 152 HOH HOH . I 6 HOH A 153 381 153 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 C1 637 . . . H 5 -4.552 21.358 13.87 1 21.01 ? C1 637 228 A 1 HETATM 2 C C2 637 . . . H 5 -4.964 20.793 15.238 1 19.66 ? C2 637 228 A 1 HETATM 3 O O3 637 . . . H 5 -5.694 21.802 15.952 1 19.59 ? O3 637 228 A 1 HETATM 4 C C4 637 . . . H 5 -3.608 20.467 15.868 1 22.98 ? C4 637 228 A 1 HETATM 5 O O5 637 . . . H 5 -2.875 21.638 16.256 1 23.96 ? O5 637 228 A 1 HETATM 6 C C6 637 . . . H 5 -2.91 19.912 14.636 1 20.23 ? C6 637 228 A 1 HETATM 7 C C7 637 . . . H 5 -8.735 21.63 9.28 1 19.53 ? C7 637 228 A 1 HETATM 8 N N8 637 . . . H 5 -7.07 20.157 11.508 1 17.18 ? N8 637 228 A 1 HETATM 9 C C9 637 . . . H 5 -6.249 19.983 12.492 1 19.47 ? C9 637 228 A 1 HETATM 10 N N10 637 . . . H 5 -5.617 21.197 12.862 1 16.45 ? N10 637 228 A 1 HETATM 11 C C11 637 . . . H 5 -6.12 22.15 11.997 1 15.36 ? C11 637 228 A 1 HETATM 12 C C12 637 . . . H 5 -6.988 21.464 11.167 1 16.6 ? C12 637 228 A 1 HETATM 13 O O13 637 . . . H 5 -3.399 20.623 13.449 1 22.59 ? O13 637 228 A 1 HETATM 14 C C14 637 . . . H 5 -3.26 18.453 14.548 1 20.58 ? C14 637 228 A 1 HETATM 15 C C15 637 . . . H 5 -2.571 17.695 13.734 1 21.34 ? C15 637 228 A 1 HETATM 16 C C16 637 . . . H 5 -2.896 16.262 13.559 1 20.35 ? C16 637 228 A 1 HETATM 17 N N17 637 . . . H 5 -1.576 15.645 13.68 1 16.82 ? N17 637 228 A 1 HETATM 18 C C18 637 . . . H 5 -1.605 14.383 14.203 1 16.39 ? C18 637 228 A 1 HETATM 19 O O19 637 . . . H 5 -2.665 13.892 14.602 1 23.2 ? O19 637 228 A 1 HETATM 20 C C20 637 . . . H 5 -0.316 13.73 14.441 1 14.38 ? C20 637 228 A 1 HETATM 21 C C21 637 . . . H 5 -0.328 12.535 15.186 1 14.71 ? C21 637 228 A 1 HETATM 22 C C22 637 . . . H 5 0.853 11.832 15.424 1 13.63 ? C22 637 228 A 1 HETATM 23 C C23 637 . . . H 5 2.097 12.292 14.948 1 14.3 ? C23 637 228 A 1 HETATM 24 C C24 637 . . . H 5 0.763 10.578 16.232 1 12.17 ? C24 637 228 A 1 HETATM 25 C C25 637 . . . H 5 -0.14 10.537 17.275 1 17.28 ? C25 637 228 A 1 HETATM 26 C C26 637 . . . H 5 -0.185 9.364 18.023 1 18.49 ? C26 637 228 A 1 HETATM 27 C C27 637 . . . H 5 1.605 9.548 15.874 1 17.39 ? C27 637 228 A 1 HETATM 28 C C28 637 . . . H 5 1.596 8.367 16.628 1 16.66 ? C28 637 228 A 1 HETATM 29 C C29 637 . . . H 5 0.669 8.332 17.638 1 17.03 ? C29 637 228 A 1 HETATM 30 F F30 637 . . . H 5 0.71 7.128 18.345 1 21.79 ? F30 637 228 A 1 HETATM 31 C C31 637 . . . H 5 0.898 14.165 13.915 1 12.86 ? C31 637 228 A 1 HETATM 32 O O32 637 . . . H 5 1.02 15.321 13.211 1 15.25 ? O32 637 228 A 1 HETATM 33 C C33 637 . . . H 5 2.078 13.483 14.213 1 12.75 ? C33 637 228 A 1 HETATM 34 O O34 637 . . . H 5 3.302 13.958 13.73 1 13.14 ? O34 637 228 A 1 HETATM 35 C C35 637 . . . H 5 -7.678 22.213 10.196 1 14.8 ? C35 637 228 A 1 HETATM 36 N N38 637 . . . H 5 -7.392 23.52 10.117 1 17.97 ? N38 637 228 A 1 HETATM 37 C C39 637 . . . H 5 -6.484 24.112 10.96 1 16.86 ? C39 637 228 A 1 HETATM 38 N N40 637 . . . H 5 -5.81 23.456 11.905 1 17.04 ? N40 637 228 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 38 #