data_7UUO # _model_server_result.job_id Q0WL5OmWnBcR2-UhckYbyg _model_server_result.datetime_utc '2024-11-28 06:22:08' _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 7uuo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 7UUO # _exptl.entry_id 7UUO _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 120 _cell.entry_id 7UUO _cell.length_a 108.292 _cell.length_b 108.292 _cell.length_c 87.726 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7UUO _symmetry.cell_setting ? _symmetry.Int_Tables_number 143 _symmetry.space_group_name_Hall 'P 3' _symmetry.space_group_name_H-M 'P 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 author_and_software_defined_assembly 2 PISA trimeric 3 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,E,I 1 1,2,5 B,F,G,J 2 1,3,6 C,H,K 3 1,4,7 # 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 -y,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 0 0 0 3 'crystal symmetry operation' 2_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 54.146 -93.783623 0 4 'crystal symmetry operation' 2_445 -y-1,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -54.146 -93.783623 0 5 'crystal symmetry operation' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 6 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 108.292 0 0 7 'crystal symmetry operation' 3_545 -x+y,-x-1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 54.146 -93.783623 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 401 n n C11 C21 TOY sing 402 n n C11 O51 TOY sing 403 n n C11 H11 TOY sing 404 n n O11 C42 TOY sing 405 n n C21 N21 TOY sing 406 n n C21 C31 TOY sing 407 n n C21 H21 TOY sing 408 n n N21 HN21 TOY sing 409 n n N21 HN22 TOY sing 410 n n C31 C41 TOY sing 411 n n C31 H311 TOY sing 412 n n C31 H312 TOY sing 413 n n C41 O41 TOY sing 414 n n C41 C51 TOY sing 415 n n C41 H41 TOY sing 416 n n O41 H41O TOY sing 417 n n C51 O51 TOY sing 418 n n C51 C61 TOY sing 419 n n C51 H51 TOY sing 420 n n C61 N61 TOY sing 421 n n C61 H611 TOY sing 422 n n C61 H612 TOY sing 423 n n N61 HN61 TOY sing 424 n n N61 HN62 TOY sing 425 n n C12 N12 TOY sing 426 n n C12 C22 TOY sing 427 n n C12 C62 TOY sing 428 n n C12 H12 TOY sing 429 n n N12 HN11 TOY sing 430 n n N12 HN12 TOY sing 431 n n C22 C32 TOY sing 432 n n C22 H221 TOY sing 433 n n C22 H222 TOY sing 434 n n C32 N32 TOY sing 435 n n C32 C42 TOY sing 436 n n C32 H32 TOY sing 437 n n N32 HN1 TOY sing 438 n n N32 HN2 TOY sing 439 n n C42 C52 TOY sing 440 n n C42 H42 TOY sing 441 n n C52 O52 TOY sing 442 n n C52 C62 TOY sing 443 n n C52 H52 TOY sing 444 n n O52 H52O TOY sing 445 n n C62 O62 TOY sing 446 n n C62 H62 TOY sing 447 n n O62 C13 TOY sing 448 n n C13 C23 TOY sing 449 n n C13 O53 TOY sing 450 n n C13 H13 TOY sing 451 n n C23 O23 TOY sing 452 n n C23 C33 TOY sing 453 n n C23 H23 TOY sing 454 n n O23 H23O TOY sing 455 n n C33 N33 TOY sing 456 n n C33 C43 TOY sing 457 n n C33 H33 TOY sing 458 n n N33 HN31 TOY sing 459 n n N33 HN32 TOY sing 460 n n C43 O43 TOY sing 461 n n C43 C53 TOY sing 462 n n C43 H43 TOY sing 463 n n O43 H43O TOY sing 464 n n C53 O53 TOY sing 465 n n C53 C63 TOY sing 466 n n C53 H53 TOY sing 467 n n C63 O63 TOY sing 468 n n C63 H631 TOY sing 469 n n C63 H632 TOY sing 470 n n O63 H63O TOY sing 471 n n # _atom_sites.entry_id 7UUO _atom_sites.fract_transf_matrix[1][1] 0.009234 _atom_sites.fract_transf_matrix[1][2] 0.005331 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010663 _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] 0.011399 _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 1 301 301 TOY TOY . E 3 EDO A 1 302 1 EDO EDO . F 2 TOY B 1 301 301 TOY TOY . G 4 COA B 1 302 401 COA COA . H 2 TOY C 1 301 301 TOY TOY . I 5 HOH A 1 401 24 HOH HOH . I 5 HOH A 2 402 11 HOH HOH . I 5 HOH A 3 403 3 HOH HOH . I 5 HOH A 4 404 21 HOH HOH . I 5 HOH A 5 405 5 HOH HOH . I 5 HOH A 6 406 7 HOH HOH . I 5 HOH A 7 407 10 HOH HOH . I 5 HOH A 8 408 13 HOH HOH . I 5 HOH A 9 409 9 HOH HOH . I 5 HOH A 10 410 19 HOH HOH . I 5 HOH A 11 411 12 HOH HOH . I 5 HOH A 12 412 8 HOH HOH . I 5 HOH A 13 413 22 HOH HOH . J 5 HOH B 1 401 17 HOH HOH . J 5 HOH B 2 402 14 HOH HOH . J 5 HOH B 3 403 27 HOH HOH . J 5 HOH B 4 404 6 HOH HOH . J 5 HOH B 5 405 16 HOH HOH . J 5 HOH B 6 406 4 HOH HOH . J 5 HOH B 7 407 15 HOH HOH . J 5 HOH B 8 408 26 HOH HOH . J 5 HOH B 9 409 20 HOH HOH . K 5 HOH C 1 401 25 HOH HOH . K 5 HOH C 2 402 18 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 . . . D 2 -7.299 -13.963 29.887 1 66.28 ? C11 TOY 301 A 1 HETATM 2 O O11 TOY . . . D 2 -8.5 -14.358 30.599 1 64.87 ? O11 TOY 301 A 1 HETATM 3 C C21 TOY . . . D 2 -7.417 -14.382 28.425 1 77.75 ? C21 TOY 301 A 1 HETATM 4 N N21 TOY . . . D 2 -8.577 -13.738 27.798 1 83.12 ? N21 TOY 301 A 1 HETATM 5 C C31 TOY . . . D 2 -7.54 -15.906 28.35 1 82.75 ? C31 TOY 301 A 1 HETATM 6 C C41 TOY . . . D 2 -6.32 -16.528 29.006 1 69.78 ? C41 TOY 301 A 1 HETATM 7 O O41 TOY . . . D 2 -6.423 -17.96 28.984 1 90.07 ? O41 TOY 301 A 1 HETATM 8 C C51 TOY . . . D 2 -6.259 -16.091 30.447 1 77.04 ? C51 TOY 301 A 1 HETATM 9 O O51 TOY . . . D 2 -6.156 -14.633 30.5 1 82.24 ? O51 TOY 301 A 1 HETATM 10 C C61 TOY . . . D 2 -5.122 -16.833 31.161 1 71.09 ? C61 TOY 301 A 1 HETATM 11 N N61 TOY . . . D 2 -5.088 -16.496 32.591 1 70.86 ? N61 TOY 301 A 1 HETATM 12 C C12 TOY . . . D 2 -9.798 -13.03 34.516 1 83.67 ? C12 TOY 301 A 1 HETATM 13 N N12 TOY . . . D 2 -9.821 -12.798 35.969 1 92.48 ? N12 TOY 301 A 1 HETATM 14 C C22 TOY . . . D 2 -9.462 -14.473 34.244 1 84.02 ? C22 TOY 301 A 1 HETATM 15 C C32 TOY . . . D 2 -9.518 -14.869 32.783 1 74.73 ? C32 TOY 301 A 1 HETATM 16 N N32 TOY . . . D 2 -9.222 -16.3 32.62 1 80.75 ? N32 TOY 301 A 1 HETATM 17 C C42 TOY . . . D 2 -8.506 -14.01 32.03 1 78.57 ? C42 TOY 301 A 1 HETATM 18 C C52 TOY . . . D 2 -8.783 -12.479 32.272 1 78.83 ? C52 TOY 301 A 1 HETATM 19 O O52 TOY . . . D 2 -7.785 -11.64 31.661 1 82.57 ? O52 TOY 301 A 1 HETATM 20 C C62 TOY . . . D 2 -8.789 -12.134 33.762 1 81.9 ? C62 TOY 301 A 1 HETATM 21 O O62 TOY . . . D 2 -9.053 -10.696 33.991 1 84.65 ? O62 TOY 301 A 1 HETATM 22 C C13 TOY . . . D 2 -8.277 -10.193 35.113 1 80.14 ? C13 TOY 301 A 1 HETATM 23 C C23 TOY . . . D 2 -8.836 -8.882 35.673 1 69.73 ? C23 TOY 301 A 1 HETATM 24 O O23 TOY . . . D 2 -10.173 -9.057 36.14 1 61.78 ? O23 TOY 301 A 1 HETATM 25 C C33 TOY . . . D 2 -8.919 -7.85 34.566 1 77.5 ? C33 TOY 301 A 1 HETATM 26 N N33 TOY . . . D 2 -9.502 -6.592 35.06 1 67.58 ? N33 TOY 301 A 1 HETATM 27 C C43 TOY . . . D 2 -7.547 -7.622 34.029 1 53.25 ? C43 TOY 301 A 1 HETATM 28 O O43 TOY . . . D 2 -7.647 -6.668 32.976 1 45.3 ? O43 TOY 301 A 1 HETATM 29 C C53 TOY . . . D 2 -7.004 -8.945 33.483 1 70.77 ? C53 TOY 301 A 1 HETATM 30 O O53 TOY . . . D 2 -6.961 -9.93 34.551 1 61.07 ? O53 TOY 301 A 1 HETATM 31 C C63 TOY . . . D 2 -5.594 -8.745 32.923 1 74.42 ? C63 TOY 301 A 1 HETATM 32 O O63 TOY . . . D 2 -4.728 -8.289 33.968 1 77.7 ? O63 TOY 301 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #