data_7WJO # _model_server_result.job_id N5rZHEqtwcIFSyJdBozggQ _model_server_result.datetime_utc '2024-11-21 14:38:59' _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 7wjo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1001}' # _entry.id 7WJO # _exptl.entry_id 7WJO _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 495.44 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2S)-{[(2S,3S,4S)-2-amino-4-hydroxy-4-(5-hydroxypyridin-2-yl)-3-methylbutanoyl]amino}[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]acetic acid (non-preferred name)' _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 7WJO _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7WJO _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _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 _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 ? _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 'C20 H25 N5 O10' _chem_comp.formula_weight 495.44 _chem_comp.id BGI _chem_comp.mon_nstd_flag . _chem_comp.name '(2S)-{[(2S,3S,4S)-2-amino-4-hydroxy-4-(5-hydroxypyridin-2-yl)-3-methylbutanoyl]amino}[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxyoxolan-2-yl]acetic acid (non-preferred name)' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Nikkomycin Z' # 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 O29 C28 BGI doub 70 n n N27 C28 BGI sing 71 n n N27 C25 BGI sing 72 n n C28 N22 BGI sing 73 n n O26 C25 BGI doub 74 n n C25 C24 BGI sing 75 n n O30 C19 BGI sing 76 n n N22 C20 BGI sing 77 n n N22 C23 BGI sing 78 n n C20 C19 BGI sing 79 n n C20 O21 BGI sing 80 n n O31 C18 BGI sing 81 n n C24 C23 BGI doub 82 n n C19 C18 BGI sing 83 n n C18 C17 BGI sing 84 n n O21 C17 BGI sing 85 n n C17 C16 BGI sing 86 n n C16 C32 BGI sing 87 n n C16 N15 BGI sing 88 n n O34 C32 BGI doub 89 n n C32 O33 BGI sing 90 n n N15 C13 BGI sing 91 n n O14 C13 BGI doub 92 n n C13 C12 BGI sing 93 n n C12 N35 BGI sing 94 n n C12 C02 BGI sing 95 n n C02 C01 BGI sing 96 n n C02 C03 BGI sing 97 n n O11 C03 BGI sing 98 n n C03 C04 BGI sing 99 n n C09 C04 BGI doub 100 n y C09 C08 BGI sing 101 n y C04 N05 BGI sing 102 n y C08 C07 BGI doub 103 n y N05 C06 BGI doub 104 n y C07 C06 BGI sing 105 n y C07 O10 BGI sing 106 n n C17 H171 BGI sing 107 n n C20 H201 BGI sing 108 n n C24 H241 BGI sing 109 n n C01 H011 BGI sing 110 n n C01 H013 BGI sing 111 n n C01 H012 BGI sing 112 n n C02 H021 BGI sing 113 n n C03 H031 BGI sing 114 n n C06 H061 BGI sing 115 n n C08 H081 BGI sing 116 n n C09 H091 BGI sing 117 n n C12 H121 BGI sing 118 n n C16 H161 BGI sing 119 n n C18 H181 BGI sing 120 n n C19 H191 BGI sing 121 n n C23 H231 BGI sing 122 n n N15 H151 BGI sing 123 n n N27 H271 BGI sing 124 n n N35 H351 BGI sing 125 n n N35 H352 BGI sing 126 n n O10 H101 BGI sing 127 n n O11 H111 BGI sing 128 n n O30 H301 BGI sing 129 n n O31 H311 BGI sing 130 n n O33 H2 BGI sing 131 n n # _atom_sites.entry_id 7WJO _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 BGI A 1 1001 999 BGI NIK . D 2 BGI B 1 1001 999 BGI NIK . # 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 C13 BGI . . . C 2 21.936 10.327 16.012 1 42.43 ? C13 BGI 1001 A 1 HETATM 2 C C17 BGI . . . C 2 20.361 11.219 19.158 1 42.43 ? C17 BGI 1001 A 1 HETATM 3 C C20 BGI . . . C 2 18.923 11.334 21.017 1 42.43 ? C20 BGI 1001 A 1 HETATM 4 C C24 BGI . . . C 2 16.245 8.872 20.349 1 42.43 ? C24 BGI 1001 A 1 HETATM 5 C C28 BGI . . . C 2 16.876 10.753 22.161 1 42.43 ? C28 BGI 1001 A 1 HETATM 6 C C01 BGI . . . C 2 21.704 10.672 13.081 1 42.43 ? C01 BGI 1001 A 1 HETATM 7 C C02 BGI . . . C 2 22.623 11.564 13.927 1 42.43 ? C02 BGI 1001 A 1 HETATM 8 C C03 BGI . . . C 2 23.784 12.049 13.063 1 42.43 ? C03 BGI 1001 A 1 HETATM 9 C C04 BGI . . . C 2 23.266 13.176 12.19 1 42.43 ? C04 BGI 1001 A 1 HETATM 10 C C06 BGI . . . C 2 21.874 14.984 11.944 1 42.43 ? C06 BGI 1001 A 1 HETATM 11 C C07 BGI . . . C 2 22.318 15.197 10.645 1 42.43 ? C07 BGI 1001 A 1 HETATM 12 C C08 BGI . . . C 2 23.273 14.366 10.096 1 42.43 ? C08 BGI 1001 A 1 HETATM 13 C C09 BGI . . . C 2 23.751 13.331 10.903 1 42.43 ? C09 BGI 1001 A 1 HETATM 14 C C12 BGI . . . C 2 23.137 10.771 15.135 1 42.43 ? C12 BGI 1001 A 1 HETATM 15 C C16 BGI . . . C 2 20.093 10.915 17.695 1 42.43 ? C16 BGI 1001 A 1 HETATM 16 C C18 BGI . . . C 2 20.628 10.096 19.825 1 42.43 ? C18 BGI 1001 A 1 HETATM 17 C C19 BGI . . . C 2 20.169 10.414 21.22 1 42.43 ? C19 BGI 1001 A 1 HETATM 18 C C23 BGI . . . C 2 17.414 9.627 20.237 1 42.43 ? C23 BGI 1001 A 1 HETATM 19 C C25 BGI . . . C 2 15.413 9.124 21.432 1 42.43 ? C25 BGI 1001 A 1 HETATM 20 C C32 BGI . . . C 2 18.88 11.692 17.25 1 42.43 ? C32 BGI 1001 A 1 HETATM 21 N N05 BGI . . . C 2 22.356 13.99 12.672 1 42.43 ? N05 BGI 1001 A 1 HETATM 22 N N15 BGI . . . C 2 21.241 11.325 16.86 1 42.43 ? N15 BGI 1001 A 1 HETATM 23 N N22 BGI . . . C 2 17.697 10.545 21.143 1 42.43 ? N22 BGI 1001 A 1 HETATM 24 N N27 BGI . . . C 2 15.752 10.056 22.306 1 42.43 ? N27 BGI 1001 A 1 HETATM 25 N N35 BGI . . . C 2 23.893 9.639 14.716 1 42.43 ? N35 BGI 1001 A 1 HETATM 26 O O10 BGI . . . C 2 21.787 16.269 9.883 1 42.43 ? O10 BGI 1001 A 1 HETATM 27 O O11 BGI . . . C 2 24.82 12.53 13.883 1 42.43 ? O11 BGI 1001 A 1 HETATM 28 O O14 BGI . . . C 2 21.584 9.22 16.003 1 42.43 ? O14 BGI 1001 A 1 HETATM 29 O O21 BGI . . . C 2 19.034 11.832 19.821 1 42.43 ? O21 BGI 1001 A 1 HETATM 30 O O26 BGI . . . C 2 14.199 8.382 21.602 1 42.43 ? O26 BGI 1001 A 1 HETATM 31 O O29 BGI . . . C 2 17.149 11.588 22.972 1 42.43 ? O29 BGI 1001 A 1 HETATM 32 O O30 BGI . . . C 2 21.14 11.121 21.844 1 42.43 ? O30 BGI 1001 A 1 HETATM 33 O O31 BGI . . . C 2 22.098 9.823 19.842 1 42.43 ? O31 BGI 1001 A 1 HETATM 34 O O33 BGI . . . C 2 17.736 11.2 17.371 1 42.43 ? O33 BGI 1001 A 1 HETATM 35 O O34 BGI . . . C 2 19.021 12.827 16.76 1 42.43 ? O34 BGI 1001 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 35 #