data_4O9G # _model_server_result.job_id laWBf_HJ-MqqOvqYdgDB7Q _model_server_result.datetime_utc '2024-11-30 05:07:01' _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 4o9g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 4O9G # _exptl.entry_id 4O9G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 546.314 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description dTDP-4-keto-6-deoxyglucose _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 90 _cell.angle_gamma 90 _cell.entry_id 4O9G _cell.length_a 95.396 _cell.length_b 95.396 _cell.length_c 94.643 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4O9G _symmetry.cell_setting ? _symmetry.Int_Tables_number 90 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 4 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 # 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 D N N # _chem_comp.formula 'C16 H24 N2 O15 P2' _chem_comp.formula_weight 546.314 _chem_comp.id T46 _chem_comp.mon_nstd_flag . _chem_comp.name dTDP-4-keto-6-deoxyglucose _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 O3, C3, T46 sing 359 n n C3, C2, T46 sing 360 n n C3, C4, T46 sing 361 n n O1P P T46 doub 362 n n C2, C1, T46 sing 363 n n C4, C5, T46 sing 364 n n C4, O4, T46 sing 365 n n C5, O5, T46 sing 366 n n O5, P T46 sing 367 n n P O2P T46 sing 368 n n P OPP T46 sing 369 n n C1, O4, T46 sing 370 n n C1, N11 T46 sing 371 n n O3P P2 T46 doub 372 n n O21 C21 T46 doub 373 n n N11 C21 T46 sing 374 n n N11 C61 T46 sing 375 n n OPP P2 T46 sing 376 n n C21 N31 T46 sing 377 n n P2 O1 T46 sing 378 n n P2 O4P T46 sing 379 n n C61 C51 T46 doub 380 n n O2 C2 T46 sing 381 n n O1 C1 T46 sing 382 n n N31 C41 T46 sing 383 n n C51 C41 T46 sing 384 n n C51 C5A T46 sing 385 n n C41 O41 T46 doub 386 n n C3 C2 T46 sing 387 n n C3 O3 T46 sing 388 n n C3 C4 T46 sing 389 n n C2 C1 T46 sing 390 n n C1 O5 T46 sing 391 n n C4 C5 T46 sing 392 n n C4 O4 T46 doub 393 n n O5 C5 T46 sing 394 n n C5 C6 T46 sing 395 n n C5 H1 T46 sing 396 n n C6 H2 T46 sing 397 n n C6 H3 T46 sing 398 n n C6 H4 T46 sing 399 n n N31 H5 T46 sing 400 n n C5A H6 T46 sing 401 n n C5A H7 T46 sing 402 n n C5A H8 T46 sing 403 n n C61 H9 T46 sing 404 n n C1, H10 T46 sing 405 n n C2, H11 T46 sing 406 n n C2, H12 T46 sing 407 n n C3, H13 T46 sing 408 n n O3, H14 T46 sing 409 n n C4, H15 T46 sing 410 n n C5, H16 T46 sing 411 n n C5, H17 T46 sing 412 n n O2P H18 T46 sing 413 n n O4P H19 T46 sing 414 n n C1 H20 T46 sing 415 n n C2 H21 T46 sing 416 n n O2 H22 T46 sing 417 n n C3 H23 T46 sing 418 n n O3 H24 T46 sing 419 n n # _atom_sites.entry_id 4O9G _atom_sites.fract_transf_matrix[1][1] 0.010483 _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] 0.010483 _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] 0.010566 _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 T46 A 1 201 1 T46 LIG . D 2 T46 B 1 201 2 T46 LIG . E 3 EDO B 1 202 1 EDO EDO . F 4 4TD B 1 203 1 4TD X21 . G 5 HOH A 1 301 1 HOH HOH . G 5 HOH A 2 302 2 HOH HOH . G 5 HOH A 3 303 3 HOH HOH . G 5 HOH A 4 304 4 HOH HOH . G 5 HOH A 5 305 8 HOH HOH . G 5 HOH A 6 306 10 HOH HOH . G 5 HOH A 7 307 12 HOH HOH . G 5 HOH A 8 308 13 HOH HOH . G 5 HOH A 9 309 14 HOH HOH . G 5 HOH A 10 310 15 HOH HOH . G 5 HOH A 11 311 16 HOH HOH . G 5 HOH A 12 312 17 HOH HOH . G 5 HOH A 13 313 18 HOH HOH . G 5 HOH A 14 314 20 HOH HOH . G 5 HOH A 15 315 21 HOH HOH . G 5 HOH A 16 316 23 HOH HOH . G 5 HOH A 17 317 24 HOH HOH . G 5 HOH A 18 318 26 HOH HOH . G 5 HOH A 19 319 28 HOH HOH . G 5 HOH A 20 320 29 HOH HOH . G 5 HOH A 21 321 32 HOH HOH . G 5 HOH A 22 322 33 HOH HOH . G 5 HOH A 23 323 34 HOH HOH . G 5 HOH A 24 324 35 HOH HOH . G 5 HOH A 25 325 36 HOH HOH . G 5 HOH A 26 326 37 HOH HOH . G 5 HOH A 27 327 38 HOH HOH . G 5 HOH A 28 328 39 HOH HOH . G 5 HOH A 29 329 42 HOH HOH . G 5 HOH A 30 330 43 HOH HOH . G 5 HOH A 31 331 44 HOH HOH . G 5 HOH A 32 332 45 HOH HOH . G 5 HOH A 33 333 46 HOH HOH . G 5 HOH A 34 334 47 HOH HOH . G 5 HOH A 35 335 48 HOH HOH . G 5 HOH A 36 336 49 HOH HOH . G 5 HOH A 37 337 50 HOH HOH . G 5 HOH A 38 338 51 HOH HOH . G 5 HOH A 39 339 52 HOH HOH . G 5 HOH A 40 340 54 HOH HOH . G 5 HOH A 41 341 56 HOH HOH . G 5 HOH A 42 342 57 HOH HOH . G 5 HOH A 43 343 69 HOH HOH . G 5 HOH A 44 344 83 HOH HOH . G 5 HOH A 45 345 84 HOH HOH . G 5 HOH A 46 346 85 HOH HOH . G 5 HOH A 47 347 86 HOH HOH . G 5 HOH A 48 348 88 HOH HOH . G 5 HOH A 49 349 89 HOH HOH . G 5 HOH A 50 350 90 HOH HOH . G 5 HOH A 51 351 91 HOH HOH . G 5 HOH A 52 352 96 HOH HOH . G 5 HOH A 53 353 97 HOH HOH . G 5 HOH A 54 354 98 HOH HOH . G 5 HOH A 55 355 99 HOH HOH . G 5 HOH A 56 356 100 HOH HOH . G 5 HOH A 57 357 101 HOH HOH . G 5 HOH A 58 358 104 HOH HOH . G 5 HOH A 59 359 105 HOH HOH . G 5 HOH A 60 360 106 HOH HOH . G 5 HOH A 61 361 107 HOH HOH . G 5 HOH A 62 362 108 HOH HOH . G 5 HOH A 63 363 109 HOH HOH . G 5 HOH A 64 364 110 HOH HOH . G 5 HOH A 65 365 111 HOH HOH . G 5 HOH A 66 366 112 HOH HOH . G 5 HOH A 67 367 117 HOH HOH . G 5 HOH A 68 368 119 HOH HOH . G 5 HOH A 69 369 120 HOH HOH . G 5 HOH A 70 370 121 HOH HOH . G 5 HOH A 71 371 122 HOH HOH . G 5 HOH A 72 372 123 HOH HOH . G 5 HOH A 73 373 124 HOH HOH . G 5 HOH A 74 374 125 HOH HOH . G 5 HOH A 75 375 127 HOH HOH . G 5 HOH A 76 376 128 HOH HOH . G 5 HOH A 77 377 129 HOH HOH . G 5 HOH A 78 378 139 HOH HOH . G 5 HOH A 79 379 146 HOH HOH . G 5 HOH A 80 380 161 HOH HOH . G 5 HOH A 81 381 162 HOH HOH . G 5 HOH A 82 382 164 HOH HOH . G 5 HOH A 83 383 165 HOH HOH . G 5 HOH A 84 384 166 HOH HOH . G 5 HOH A 85 385 168 HOH HOH . G 5 HOH A 86 386 169 HOH HOH . G 5 HOH A 87 387 173 HOH HOH . G 5 HOH A 88 388 174 HOH HOH . G 5 HOH A 89 389 175 HOH HOH . G 5 HOH A 90 390 176 HOH HOH . G 5 HOH A 91 391 177 HOH HOH . G 5 HOH A 92 392 179 HOH HOH . G 5 HOH A 93 393 182 HOH HOH . G 5 HOH A 94 394 5 HOH HOH . G 5 HOH A 95 395 134 HOH HOH . G 5 HOH A 96 396 135 HOH HOH . H 5 HOH B 1 301 6 HOH HOH . H 5 HOH B 2 302 9 HOH HOH . H 5 HOH B 3 303 11 HOH HOH . H 5 HOH B 4 304 19 HOH HOH . H 5 HOH B 5 305 22 HOH HOH . H 5 HOH B 6 306 25 HOH HOH . H 5 HOH B 7 307 27 HOH HOH . H 5 HOH B 8 308 31 HOH HOH . H 5 HOH B 9 309 40 HOH HOH . H 5 HOH B 10 310 41 HOH HOH . H 5 HOH B 11 311 53 HOH HOH . H 5 HOH B 12 312 58 HOH HOH . H 5 HOH B 13 313 59 HOH HOH . H 5 HOH B 14 314 60 HOH HOH . H 5 HOH B 15 315 61 HOH HOH . H 5 HOH B 16 316 62 HOH HOH . H 5 HOH B 17 317 63 HOH HOH . H 5 HOH B 18 318 64 HOH HOH . H 5 HOH B 19 319 65 HOH HOH . H 5 HOH B 20 320 66 HOH HOH . H 5 HOH B 21 321 67 HOH HOH . H 5 HOH B 22 322 68 HOH HOH . H 5 HOH B 23 323 70 HOH HOH . H 5 HOH B 24 324 71 HOH HOH . H 5 HOH B 25 325 72 HOH HOH . H 5 HOH B 26 326 73 HOH HOH . H 5 HOH B 27 327 74 HOH HOH . H 5 HOH B 28 328 75 HOH HOH . H 5 HOH B 29 329 76 HOH HOH . H 5 HOH B 30 330 77 HOH HOH . H 5 HOH B 31 331 78 HOH HOH . H 5 HOH B 32 332 80 HOH HOH . H 5 HOH B 33 333 81 HOH HOH . H 5 HOH B 34 334 82 HOH HOH . H 5 HOH B 35 335 87 HOH HOH . H 5 HOH B 36 336 92 HOH HOH . H 5 HOH B 37 337 93 HOH HOH . H 5 HOH B 38 338 94 HOH HOH . H 5 HOH B 39 339 95 HOH HOH . H 5 HOH B 40 340 102 HOH HOH . H 5 HOH B 41 341 103 HOH HOH . H 5 HOH B 42 342 113 HOH HOH . H 5 HOH B 43 343 114 HOH HOH . H 5 HOH B 44 344 115 HOH HOH . H 5 HOH B 45 345 116 HOH HOH . H 5 HOH B 46 346 118 HOH HOH . H 5 HOH B 47 347 130 HOH HOH . H 5 HOH B 48 348 131 HOH HOH . H 5 HOH B 49 349 132 HOH HOH . H 5 HOH B 50 350 133 HOH HOH . H 5 HOH B 51 351 136 HOH HOH . H 5 HOH B 52 352 137 HOH HOH . H 5 HOH B 53 353 140 HOH HOH . H 5 HOH B 54 354 141 HOH HOH . H 5 HOH B 55 355 143 HOH HOH . H 5 HOH B 56 356 144 HOH HOH . H 5 HOH B 57 357 145 HOH HOH . H 5 HOH B 58 358 147 HOH HOH . H 5 HOH B 59 359 148 HOH HOH . H 5 HOH B 60 360 149 HOH HOH . H 5 HOH B 61 361 150 HOH HOH . H 5 HOH B 62 362 151 HOH HOH . H 5 HOH B 63 363 152 HOH HOH . H 5 HOH B 64 364 153 HOH HOH . H 5 HOH B 65 365 154 HOH HOH . H 5 HOH B 66 366 155 HOH HOH . H 5 HOH B 67 367 156 HOH HOH . H 5 HOH B 68 368 157 HOH HOH . H 5 HOH B 69 369 158 HOH HOH . H 5 HOH B 70 370 159 HOH HOH . H 5 HOH B 71 371 160 HOH HOH . H 5 HOH B 72 372 167 HOH HOH . H 5 HOH B 73 373 170 HOH HOH . H 5 HOH B 74 374 171 HOH HOH . H 5 HOH B 75 375 172 HOH HOH . H 5 HOH B 76 376 180 HOH HOH . H 5 HOH B 77 377 181 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 C4 T46 . . . D 2 10.42 -24.734 35.723 1 18.22 ? C4 T46 201 B 1 HETATM 2 C C5 T46 . . . D 2 10.353 -23.28 35.344 1 17.47 ? C5 T46 201 B 1 HETATM 3 C C6 T46 . . . D 2 10.969 -23.063 33.979 1 17.86 ? C6 T46 201 B 1 HETATM 4 C C21 T46 . . . D 2 1.162 -26.337 38.488 1 26.59 ? C21 T46 201 B 1 HETATM 5 O O21 T46 . . . D 2 0.136 -26.494 39.171 1 27.13 ? O21 T46 201 B 1 HETATM 6 N N31 T46 . . . D 2 1.267 -27.028 37.328 1 26.37 ? N31 T46 201 B 1 HETATM 7 C C41 T46 . . . D 2 2.345 -26.866 36.549 1 24.53 ? C41 T46 201 B 1 HETATM 8 O O41 T46 . . . D 2 2.436 -27.523 35.481 1 24.82 ? O41 T46 201 B 1 HETATM 9 C C51 T46 . . . D 2 3.342 -25.979 36.951 1 24.14 ? C51 T46 201 B 1 HETATM 10 C C5A T46 . . . D 2 4.572 -25.764 36.114 1 18.78 ? C5A T46 201 B 1 HETATM 11 C C61 T46 . . . D 2 3.203 -25.287 38.141 1 27.14 ? C61 T46 201 B 1 HETATM 12 N N11 T46 . . . D 2 2.112 -25.478 38.894 1 25.96 ? N11 T46 201 B 1 HETATM 13 C C1, T46 . . . D 2 1.95 -24.703 40.145 1 27.24 ? C1, T46 201 B 1 HETATM 14 C C2, T46 . . . D 2 2.894 -25.162 41.237 1 25.24 ? C2, T46 201 B 1 HETATM 15 C C3, T46 . . . D 2 3.253 -23.876 41.965 1 26.51 ? C3, T46 201 B 1 HETATM 16 O O3, T46 . . . D 2 2.418 -23.796 43.107 1 27.48 ? O3, T46 201 B 1 HETATM 17 O O4, T46 . . . D 2 2.221 -23.306 39.922 1 27.36 ? O4, T46 201 B 1 HETATM 18 C C4, T46 . . . D 2 2.95 -22.74 41.009 1 23.02 ? C4, T46 201 B 1 HETATM 19 C C5, T46 . . . D 2 4.228 -22.127 40.476 1 22.94 ? C5, T46 201 B 1 HETATM 20 O O5, T46 . . . D 2 5.214 -23.127 40.313 1 21.38 ? O5, T46 201 B 1 HETATM 21 P P T46 . . . D 2 6.74 -22.738 40.27 1 23.99 ? P T46 201 B 1 HETATM 22 O O1P T46 . . . D 2 7.094 -21.914 41.493 1 28.26 ? O1P T46 201 B 1 HETATM 23 O O2P T46 . . . D 2 7.547 -23.976 40.082 1 22.14 ? O2P T46 201 B 1 HETATM 24 O OPP T46 . . . D 2 6.799 -21.774 39 1 18.74 ? OPP T46 201 B 1 HETATM 25 P P2 T46 . . . D 2 8.181 -21.263 38.367 1 22 ? P2 T46 201 B 1 HETATM 26 O O4P T46 . . . D 2 7.783 -20.303 37.302 1 19.22 ? O4P T46 201 B 1 HETATM 27 O O3P T46 . . . D 2 9.179 -20.869 39.444 1 24.06 ? O3P T46 201 B 1 HETATM 28 O O1 T46 . . . D 2 8.855 -22.572 37.682 1 23.17 ? O1 T46 201 B 1 HETATM 29 C C1 T46 . . . D 2 8.25 -23.102 36.491 1 20.15 ? C1 T46 201 B 1 HETATM 30 C C2 T46 . . . D 2 8.081 -24.619 36.542 1 17.85 ? C2 T46 201 B 1 HETATM 31 O O2 T46 . . . D 2 7.226 -25.002 37.631 1 17.67 ? O2 T46 201 B 1 HETATM 32 C C3 T46 . . . D 2 9.421 -25.32 36.65 1 16.73 ? C3 T46 201 B 1 HETATM 33 O O3 T46 . . . D 2 9.266 -26.721 36.38 1 18.13 ? O3 T46 201 B 1 HETATM 34 O O4 T46 . . . D 2 11.344 -25.424 35.323 1 19.18 ? O4 T46 201 B 1 HETATM 35 O O5 T46 . . . D 2 9.036 -22.75 35.353 1 18.95 ? O5 T46 201 B 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 22 _model_server_stats.element_count 35 #