data_7UUK # _model_server_result.job_id 8-eVNoQogw_SQ7XAn9ABAw _model_server_result.datetime_utc '2024-11-08 03:47:48' _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 7uuk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":301}' # _entry.id 7UUK # _exptl.entry_id 7UUK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 467.514 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description TOBRAMYCIN _entity.pdbx_number_of_molecules 3 _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 7UUK _cell.length_a 62.146 _cell.length_b 107.405 _cell.length_c 134.976 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7UUK _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,K,L _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 D N N ? 2 F N N ? 2 H N N # _chem_comp.formula 'C18 H37 N5 O9' _chem_comp.formula_weight 467.514 _chem_comp.id TOY _chem_comp.mon_nstd_flag . _chem_comp.name TOBRAMYCIN _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 4-AMINO-2-[4,6-DIAMINO-3-(3-AMINO-6-AMINOMETHYL-5-HYDROXY-TETRAHYDRO-PYRAN-2-YLOXY)-2-HYDROXY-CYCLOHEXYLOXY]-6-HYDROXYMETHYL-TETRAHYDRO-PYRAN-3,5-DIOL # 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 C11 O11 TOY sing 306 n n C11 C21 TOY sing 307 n n C11 O51 TOY sing 308 n n C11 H11 TOY sing 309 n n O11 C42 TOY sing 310 n n C21 N21 TOY sing 311 n n C21 C31 TOY sing 312 n n C21 H21 TOY sing 313 n n N21 HN21 TOY sing 314 n n N21 HN22 TOY sing 315 n n C31 C41 TOY sing 316 n n C31 H311 TOY sing 317 n n C31 H312 TOY sing 318 n n C41 O41 TOY sing 319 n n C41 C51 TOY sing 320 n n C41 H41 TOY sing 321 n n O41 H41O TOY sing 322 n n C51 O51 TOY sing 323 n n C51 C61 TOY sing 324 n n C51 H51 TOY sing 325 n n C61 N61 TOY sing 326 n n C61 H611 TOY sing 327 n n C61 H612 TOY sing 328 n n N61 HN61 TOY sing 329 n n N61 HN62 TOY sing 330 n n C12 N12 TOY sing 331 n n C12 C22 TOY sing 332 n n C12 C62 TOY sing 333 n n C12 H12 TOY sing 334 n n N12 HN11 TOY sing 335 n n N12 HN12 TOY sing 336 n n C22 C32 TOY sing 337 n n C22 H221 TOY sing 338 n n C22 H222 TOY sing 339 n n C32 N32 TOY sing 340 n n C32 C42 TOY sing 341 n n C32 H32 TOY sing 342 n n N32 HN1 TOY sing 343 n n N32 HN2 TOY sing 344 n n C42 C52 TOY sing 345 n n C42 H42 TOY sing 346 n n C52 O52 TOY sing 347 n n C52 C62 TOY sing 348 n n C52 H52 TOY sing 349 n n O52 H52O TOY sing 350 n n C62 O62 TOY sing 351 n n C62 H62 TOY sing 352 n n O62 C13 TOY sing 353 n n C13 C23 TOY sing 354 n n C13 O53 TOY sing 355 n n C13 H13 TOY sing 356 n n C23 O23 TOY sing 357 n n C23 C33 TOY sing 358 n n C23 H23 TOY sing 359 n n O23 H23O TOY sing 360 n n C33 N33 TOY sing 361 n n C33 C43 TOY sing 362 n n C33 H33 TOY sing 363 n n N33 HN31 TOY sing 364 n n N33 HN32 TOY sing 365 n n C43 O43 TOY sing 366 n n C43 C53 TOY sing 367 n n C43 H43 TOY sing 368 n n O43 H43O TOY sing 369 n n C53 O53 TOY sing 370 n n C53 C63 TOY sing 371 n n C53 H53 TOY sing 372 n n C63 O63 TOY sing 373 n n C63 H631 TOY sing 374 n n C63 H632 TOY sing 375 n n O63 H63O TOY sing 376 n n # _atom_sites.entry_id 7UUK _atom_sites.fract_transf_matrix[1][1] 0.016091 _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] 0.009311 _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] 0.007409 _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 D 2 TOY A 1 301 3 TOY TOY . E 3 CL A 1 302 2 CL CL . F 2 TOY B 1 301 2 TOY TOY . G 3 CL B 1 302 1 CL CL . H 2 TOY C 1 301 1 TOY TOY . I 3 CL C 1 302 3 CL CL . J 4 HOH A 1 401 73 HOH HOH . J 4 HOH A 2 402 62 HOH HOH . J 4 HOH A 3 403 21 HOH HOH . J 4 HOH A 4 404 29 HOH HOH . J 4 HOH A 5 405 43 HOH HOH . J 4 HOH A 6 406 74 HOH HOH . J 4 HOH A 7 407 1 HOH HOH . J 4 HOH A 8 408 135 HOH HOH . J 4 HOH A 9 409 38 HOH HOH . J 4 HOH A 10 410 95 HOH HOH . J 4 HOH A 11 411 18 HOH HOH . J 4 HOH A 12 412 97 HOH HOH . J 4 HOH A 13 413 75 HOH HOH . J 4 HOH A 14 414 84 HOH HOH . J 4 HOH A 15 415 8 HOH HOH . J 4 HOH A 16 416 58 HOH HOH . J 4 HOH A 17 417 35 HOH HOH . J 4 HOH A 18 418 109 HOH HOH . J 4 HOH A 19 419 138 HOH HOH . J 4 HOH A 20 420 102 HOH HOH . J 4 HOH A 21 421 88 HOH HOH . J 4 HOH A 22 422 64 HOH HOH . J 4 HOH A 23 423 42 HOH HOH . J 4 HOH A 24 424 71 HOH HOH . J 4 HOH A 25 425 99 HOH HOH . J 4 HOH A 26 426 13 HOH HOH . J 4 HOH A 27 427 129 HOH HOH . J 4 HOH A 28 428 51 HOH HOH . J 4 HOH A 29 429 141 HOH HOH . J 4 HOH A 30 430 39 HOH HOH . J 4 HOH A 31 431 131 HOH HOH . J 4 HOH A 32 432 180 HOH HOH . J 4 HOH A 33 433 94 HOH HOH . J 4 HOH A 34 434 46 HOH HOH . J 4 HOH A 35 435 7 HOH HOH . J 4 HOH A 36 436 90 HOH HOH . J 4 HOH A 37 437 174 HOH HOH . J 4 HOH A 38 438 5 HOH HOH . J 4 HOH A 39 439 122 HOH HOH . J 4 HOH A 40 440 172 HOH HOH . J 4 HOH A 41 441 170 HOH HOH . J 4 HOH A 42 442 93 HOH HOH . J 4 HOH A 43 443 118 HOH HOH . J 4 HOH A 44 444 171 HOH HOH . J 4 HOH A 45 445 98 HOH HOH . J 4 HOH A 46 446 136 HOH HOH . J 4 HOH A 47 447 187 HOH HOH . J 4 HOH A 48 448 139 HOH HOH . J 4 HOH A 49 449 137 HOH HOH . J 4 HOH A 50 450 177 HOH HOH . J 4 HOH A 51 451 125 HOH HOH . J 4 HOH A 52 452 158 HOH HOH . J 4 HOH A 53 453 60 HOH HOH . J 4 HOH A 54 454 85 HOH HOH . J 4 HOH A 55 455 176 HOH HOH . J 4 HOH A 56 456 201 HOH HOH . J 4 HOH A 57 457 130 HOH HOH . J 4 HOH A 58 458 61 HOH HOH . J 4 HOH A 59 459 140 HOH HOH . J 4 HOH A 60 460 121 HOH HOH . J 4 HOH A 61 461 96 HOH HOH . J 4 HOH A 62 462 106 HOH HOH . J 4 HOH A 63 463 173 HOH HOH . J 4 HOH A 64 464 162 HOH HOH . J 4 HOH A 65 465 205 HOH HOH . J 4 HOH A 66 466 206 HOH HOH . K 4 HOH B 1 401 20 HOH HOH . K 4 HOH B 2 402 4 HOH HOH . K 4 HOH B 3 403 116 HOH HOH . K 4 HOH B 4 404 26 HOH HOH . K 4 HOH B 5 405 24 HOH HOH . K 4 HOH B 6 406 59 HOH HOH . K 4 HOH B 7 407 45 HOH HOH . K 4 HOH B 8 408 15 HOH HOH . K 4 HOH B 9 409 86 HOH HOH . K 4 HOH B 10 410 55 HOH HOH . K 4 HOH B 11 411 108 HOH HOH . K 4 HOH B 12 412 77 HOH HOH . K 4 HOH B 13 413 23 HOH HOH . K 4 HOH B 14 414 2 HOH HOH . K 4 HOH B 15 415 6 HOH HOH . K 4 HOH B 16 416 11 HOH HOH . K 4 HOH B 17 417 183 HOH HOH . K 4 HOH B 18 418 28 HOH HOH . K 4 HOH B 19 419 199 HOH HOH . K 4 HOH B 20 420 76 HOH HOH . K 4 HOH B 21 421 9 HOH HOH . K 4 HOH B 22 422 182 HOH HOH . K 4 HOH B 23 423 47 HOH HOH . K 4 HOH B 24 424 128 HOH HOH . K 4 HOH B 25 425 148 HOH HOH . K 4 HOH B 26 426 69 HOH HOH . K 4 HOH B 27 427 65 HOH HOH . K 4 HOH B 28 428 53 HOH HOH . K 4 HOH B 29 429 132 HOH HOH . K 4 HOH B 30 430 27 HOH HOH . K 4 HOH B 31 431 142 HOH HOH . K 4 HOH B 32 432 79 HOH HOH . K 4 HOH B 33 433 68 HOH HOH . K 4 HOH B 34 434 143 HOH HOH . K 4 HOH B 35 435 14 HOH HOH . K 4 HOH B 36 436 145 HOH HOH . K 4 HOH B 37 437 196 HOH HOH . K 4 HOH B 38 438 3 HOH HOH . K 4 HOH B 39 439 157 HOH HOH . K 4 HOH B 40 440 127 HOH HOH . K 4 HOH B 41 441 186 HOH HOH . K 4 HOH B 42 442 117 HOH HOH . K 4 HOH B 43 443 52 HOH HOH . K 4 HOH B 44 444 175 HOH HOH . K 4 HOH B 45 445 150 HOH HOH . K 4 HOH B 46 446 114 HOH HOH . K 4 HOH B 47 447 110 HOH HOH . K 4 HOH B 48 448 89 HOH HOH . K 4 HOH B 49 449 153 HOH HOH . K 4 HOH B 50 450 181 HOH HOH . K 4 HOH B 51 451 184 HOH HOH . K 4 HOH B 52 452 134 HOH HOH . K 4 HOH B 53 453 66 HOH HOH . K 4 HOH B 54 454 152 HOH HOH . K 4 HOH B 55 455 179 HOH HOH . K 4 HOH B 56 456 151 HOH HOH . K 4 HOH B 57 457 120 HOH HOH . K 4 HOH B 58 458 155 HOH HOH . K 4 HOH B 59 459 144 HOH HOH . K 4 HOH B 60 460 149 HOH HOH . K 4 HOH B 61 461 156 HOH HOH . K 4 HOH B 62 462 185 HOH HOH . K 4 HOH B 63 463 169 HOH HOH . L 4 HOH C 1 401 146 HOH HOH . L 4 HOH C 2 402 104 HOH HOH . L 4 HOH C 3 403 194 HOH HOH . L 4 HOH C 4 404 50 HOH HOH . L 4 HOH C 5 405 41 HOH HOH . L 4 HOH C 6 406 10 HOH HOH . L 4 HOH C 7 407 17 HOH HOH . L 4 HOH C 8 408 31 HOH HOH . L 4 HOH C 9 409 87 HOH HOH . L 4 HOH C 10 410 92 HOH HOH . L 4 HOH C 11 411 56 HOH HOH . L 4 HOH C 12 412 22 HOH HOH . L 4 HOH C 13 413 190 HOH HOH . L 4 HOH C 14 414 32 HOH HOH . L 4 HOH C 15 415 111 HOH HOH . L 4 HOH C 16 416 57 HOH HOH . L 4 HOH C 17 417 54 HOH HOH . L 4 HOH C 18 418 30 HOH HOH . L 4 HOH C 19 419 49 HOH HOH . L 4 HOH C 20 420 82 HOH HOH . L 4 HOH C 21 421 81 HOH HOH . L 4 HOH C 22 422 133 HOH HOH . L 4 HOH C 23 423 25 HOH HOH . L 4 HOH C 24 424 36 HOH HOH . L 4 HOH C 25 425 16 HOH HOH . L 4 HOH C 26 426 67 HOH HOH . L 4 HOH C 27 427 83 HOH HOH . L 4 HOH C 28 428 40 HOH HOH . L 4 HOH C 29 429 19 HOH HOH . L 4 HOH C 30 430 70 HOH HOH . L 4 HOH C 31 431 112 HOH HOH . L 4 HOH C 32 432 193 HOH HOH . L 4 HOH C 33 433 80 HOH HOH . L 4 HOH C 34 434 101 HOH HOH . L 4 HOH C 35 435 195 HOH HOH . L 4 HOH C 36 436 72 HOH HOH . L 4 HOH C 37 437 160 HOH HOH . L 4 HOH C 38 438 168 HOH HOH . L 4 HOH C 39 439 126 HOH HOH . L 4 HOH C 40 440 33 HOH HOH . L 4 HOH C 41 441 166 HOH HOH . L 4 HOH C 42 442 203 HOH HOH . L 4 HOH C 43 443 164 HOH HOH . L 4 HOH C 44 444 78 HOH HOH . L 4 HOH C 45 445 113 HOH HOH . L 4 HOH C 46 446 200 HOH HOH . L 4 HOH C 47 447 191 HOH HOH . L 4 HOH C 48 448 159 HOH HOH . L 4 HOH C 49 449 198 HOH HOH . L 4 HOH C 50 450 188 HOH HOH . L 4 HOH C 51 451 161 HOH HOH . L 4 HOH C 52 452 63 HOH HOH . L 4 HOH C 53 453 192 HOH HOH . L 4 HOH C 54 454 107 HOH HOH . L 4 HOH C 55 455 124 HOH HOH . L 4 HOH C 56 456 197 HOH HOH . L 4 HOH C 57 457 167 HOH HOH . L 4 HOH C 58 458 202 HOH HOH . L 4 HOH C 59 459 165 HOH HOH . L 4 HOH C 60 460 154 HOH HOH . L 4 HOH C 61 461 204 HOH HOH . L 4 HOH C 62 462 91 HOH HOH . L 4 HOH C 63 463 189 HOH HOH . L 4 HOH C 64 464 163 HOH HOH . L 4 HOH C 65 465 147 HOH HOH . L 4 HOH C 66 466 12 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 C11 TOY . . . H 2 5.249 7.12 0.259 1 33.27 ? C11 TOY 301 C 1 HETATM 2 O O11 TOY . . . H 2 4.17 6.747 1.152 1 30.51 ? O11 TOY 301 C 1 HETATM 3 C C21 TOY . . . H 2 6.504 7.411 1.08 1 36.41 ? C21 TOY 301 C 1 HETATM 4 N N21 TOY . . . H 2 6.889 6.212 1.84 1 33.87 ? N21 TOY 301 C 1 HETATM 5 C C31 TOY . . . H 2 6.226 8.616 1.978 1 35.45 ? C31 TOY 301 C 1 HETATM 6 C C41 TOY . . . H 2 5.842 9.788 1.078 1 33.94 ? C41 TOY 301 C 1 HETATM 7 O O41 TOY . . . H 2 5.582 10.954 1.88 1 32.52 ? O41 TOY 301 C 1 HETATM 8 C C51 TOY . . . H 2 4.601 9.443 0.269 1 32.63 ? C51 TOY 301 C 1 HETATM 9 O O51 TOY . . . H 2 4.889 8.287 -0.536 1 34.83 ? O51 TOY 301 C 1 HETATM 10 C C61 TOY . . . H 2 4.288 10.593 -0.688 1 31.41 ? C61 TOY 301 C 1 HETATM 11 N N61 TOY . . . H 2 3.131 10.291 -1.55 1 32.02 ? N61 TOY 301 C 1 HETATM 12 C C12 TOY . . . H 2 0.607 4.613 0.042 1 30.37 ? C12 TOY 301 C 1 HETATM 13 N N12 TOY . . . H 2 -0.715 4.24 -0.491 1 35.9 ? N12 TOY 301 C 1 HETATM 14 C C22 TOY . . . H 2 0.475 5.834 0.896 1 29.64 ? C22 TOY 301 C 1 HETATM 15 C C32 TOY . . . H 2 1.802 6.163 1.58 1 32.84 ? C32 TOY 301 C 1 HETATM 16 N N32 TOY . . . H 2 1.667 7.275 2.532 1 33.52 ? N32 TOY 301 C 1 HETATM 17 C C42 TOY . . . H 2 2.886 6.42 0.513 1 32.74 ? C42 TOY 301 C 1 HETATM 18 C C52 TOY . . . H 2 3 5.17 -0.405 1 30.3 ? C52 TOY 301 C 1 HETATM 19 O O52 TOY . . . H 2 3.894 5.35 -1.515 1 30.23 ? O52 TOY 301 C 1 HETATM 20 C C62 TOY . . . H 2 1.679 4.858 -1.038 1 29.55 ? C62 TOY 301 C 1 HETATM 21 O O62 TOY . . . H 2 1.831 3.684 -1.886 1 33.52 ? O62 TOY 301 C 1 HETATM 22 C C13 TOY . . . H 2 0.971 3.509 -3.012 1 34.53 ? C13 TOY 301 C 1 HETATM 23 C C23 TOY . . . H 2 0.456 2.094 -3.079 1 32.43 ? C23 TOY 301 C 1 HETATM 24 O O23 TOY . . . H 2 -0.28 1.799 -1.898 1 36.81 ? O23 TOY 301 C 1 HETATM 25 C C33 TOY . . . H 2 1.631 1.126 -3.138 1 35.14 ? C33 TOY 301 C 1 HETATM 26 N N33 TOY . . . H 2 1.187 -0.276 -3.168 1 37.44 ? N33 TOY 301 C 1 HETATM 27 C C43 TOY . . . H 2 2.42 1.415 -4.363 1 35.51 ? C43 TOY 301 C 1 HETATM 28 O O43 TOY . . . H 2 3.54 0.54 -4.368 1 36.11 ? O43 TOY 301 C 1 HETATM 29 C C53 TOY . . . H 2 2.913 2.848 -4.281 1 32.96 ? C53 TOY 301 C 1 HETATM 30 O O53 TOY . . . H 2 1.794 3.759 -4.19 1 37.21 ? O53 TOY 301 C 1 HETATM 31 C C63 TOY . . . H 2 3.67 3.151 -5.569 1 31.13 ? C63 TOY 301 C 1 HETATM 32 O O63 TOY . . . H 2 4.139 4.493 -5.532 1 38.64 ? O63 TOY 301 C 1 # _model_server_stats.io_time_ms 100 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 267 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #