data_2ZO9 # _model_server_result.job_id shsBzw5UGS7ZMLxkPbHVWA _model_server_result.datetime_utc '2025-08-30 16:25:09' _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 2zo9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":277}' # _entry.id 2ZO9 # _exptl.entry_id 2ZO9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 102.046 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'MALONATE ION' _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 2ZO9 _cell.length_a 164.159 _cell.length_b 164.159 _cell.length_c 164.159 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ZO9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 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 hexameric 6 author_and_software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J 1 1,2,3 A,B,C,D,E,F,G,H,I,J 2 1 # 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' 6_555 z+1/2,-x+1/2,-y 0 0 1 -1 0 0 0 -1 0 82.0795 82.0795 0 3 'crystal symmetry operation' 12_554 -y+1/2,-z,x-1/2 0 -1 0 0 0 -1 1 0 0 82.0795 0 -82.0795 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 H N 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 disulf ? disulf1 A SG CYS 54 B CYS 54 1_555 B SG CYS 269 C CYS 269 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? disulf ? disulf2 A SG CYS 269 B CYS 269 1_555 B SG CYS 54 C CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc1 A OD1 ASN 80 B ASN 80 1_555 D FE FE2 . B FE2 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc2 B OD1 ASN 80 C ASN 80 1_555 G FE FE2 . C FE2 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? # _chem_comp.formula 'C3 H2 O4 -2' _chem_comp.formula_weight 102.046 _chem_comp.id MLI _chem_comp.mon_nstd_flag . _chem_comp.name 'MALONATE ION' _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 MLI sing 237 n n C1 C3 MLI sing 238 n n C1 H11 MLI sing 239 n n C1 H12 MLI sing 240 n n C2 O6 MLI doub 241 n n C2 O7 MLI sing 242 n n C3 O8 MLI doub 243 n n C3 O9 MLI sing 244 n n # _atom_sites.entry_id 2ZO9 _atom_sites.fract_transf_matrix[1][1] 0.006092 _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] 0.006092 _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] 0.006092 _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 FE2 B 1 275 272 FE2 FE . D 2 FE2 B 1 276 273 FE2 FE . E 3 MLI B 1 277 274 MLI MLI . F 2 FE2 C 1 275 273 FE2 FE . G 2 FE2 C 1 276 272 FE2 FE . H 3 MLI C 1 277 274 MLI MLI . I 4 HOH B 1 278 2 HOH HOH . I 4 HOH B 2 279 8 HOH HOH . I 4 HOH B 3 280 9 HOH HOH . I 4 HOH B 4 281 11 HOH HOH . I 4 HOH B 5 282 12 HOH HOH . I 4 HOH B 6 283 16 HOH HOH . I 4 HOH B 7 284 18 HOH HOH . I 4 HOH B 8 285 23 HOH HOH . I 4 HOH B 9 286 24 HOH HOH . I 4 HOH B 10 287 25 HOH HOH . I 4 HOH B 11 288 29 HOH HOH . I 4 HOH B 12 289 30 HOH HOH . I 4 HOH B 13 290 31 HOH HOH . I 4 HOH B 14 291 33 HOH HOH . I 4 HOH B 15 292 37 HOH HOH . I 4 HOH B 16 293 38 HOH HOH . I 4 HOH B 17 294 42 HOH HOH . I 4 HOH B 18 295 43 HOH HOH . I 4 HOH B 19 296 46 HOH HOH . I 4 HOH B 20 297 47 HOH HOH . I 4 HOH B 21 298 50 HOH HOH . I 4 HOH B 22 299 53 HOH HOH . I 4 HOH B 23 300 56 HOH HOH . I 4 HOH B 24 301 57 HOH HOH . I 4 HOH B 25 302 61 HOH HOH . I 4 HOH B 26 303 63 HOH HOH . I 4 HOH B 27 304 64 HOH HOH . I 4 HOH B 28 305 65 HOH HOH . I 4 HOH B 29 306 66 HOH HOH . I 4 HOH B 30 307 71 HOH HOH . I 4 HOH B 31 308 78 HOH HOH . I 4 HOH B 32 309 79 HOH HOH . I 4 HOH B 33 310 80 HOH HOH . I 4 HOH B 34 311 85 HOH HOH . I 4 HOH B 35 312 86 HOH HOH . I 4 HOH B 36 313 88 HOH HOH . I 4 HOH B 37 314 90 HOH HOH . I 4 HOH B 38 315 98 HOH HOH . I 4 HOH B 39 316 99 HOH HOH . I 4 HOH B 40 317 100 HOH HOH . I 4 HOH B 41 318 104 HOH HOH . I 4 HOH B 42 319 105 HOH HOH . I 4 HOH B 43 320 108 HOH HOH . I 4 HOH B 44 321 110 HOH HOH . I 4 HOH B 45 322 111 HOH HOH . I 4 HOH B 46 323 113 HOH HOH . I 4 HOH B 47 324 117 HOH HOH . I 4 HOH B 48 325 118 HOH HOH . I 4 HOH B 49 326 119 HOH HOH . I 4 HOH B 50 327 120 HOH HOH . I 4 HOH B 51 328 124 HOH HOH . I 4 HOH B 52 329 130 HOH HOH . I 4 HOH B 53 330 132 HOH HOH . I 4 HOH B 54 331 134 HOH HOH . I 4 HOH B 55 332 135 HOH HOH . I 4 HOH B 56 333 137 HOH HOH . I 4 HOH B 57 334 139 HOH HOH . I 4 HOH B 58 335 141 HOH HOH . I 4 HOH B 59 336 142 HOH HOH . I 4 HOH B 60 337 143 HOH HOH . I 4 HOH B 61 338 145 HOH HOH . I 4 HOH B 62 339 146 HOH HOH . I 4 HOH B 63 340 147 HOH HOH . I 4 HOH B 64 341 148 HOH HOH . I 4 HOH B 65 342 149 HOH HOH . I 4 HOH B 66 343 150 HOH HOH . I 4 HOH B 67 344 152 HOH HOH . I 4 HOH B 68 345 155 HOH HOH . I 4 HOH B 69 346 156 HOH HOH . I 4 HOH B 70 347 157 HOH HOH . I 4 HOH B 71 348 162 HOH HOH . I 4 HOH B 72 349 166 HOH HOH . I 4 HOH B 73 350 170 HOH HOH . I 4 HOH B 74 351 173 HOH HOH . I 4 HOH B 75 352 175 HOH HOH . I 4 HOH B 76 353 176 HOH HOH . I 4 HOH B 77 354 179 HOH HOH . I 4 HOH B 78 355 181 HOH HOH . I 4 HOH B 79 356 182 HOH HOH . I 4 HOH B 80 357 183 HOH HOH . J 4 HOH C 1 278 1 HOH HOH . J 4 HOH C 2 279 3 HOH HOH . J 4 HOH C 3 280 4 HOH HOH . J 4 HOH C 4 281 5 HOH HOH . J 4 HOH C 5 282 6 HOH HOH . J 4 HOH C 6 283 7 HOH HOH . J 4 HOH C 7 284 10 HOH HOH . J 4 HOH C 8 285 14 HOH HOH . J 4 HOH C 9 286 15 HOH HOH . J 4 HOH C 10 287 17 HOH HOH . J 4 HOH C 11 288 19 HOH HOH . J 4 HOH C 12 289 21 HOH HOH . J 4 HOH C 13 290 22 HOH HOH . J 4 HOH C 14 291 26 HOH HOH . J 4 HOH C 15 292 27 HOH HOH . J 4 HOH C 16 293 28 HOH HOH . J 4 HOH C 17 294 32 HOH HOH . J 4 HOH C 18 295 34 HOH HOH . J 4 HOH C 19 296 35 HOH HOH . J 4 HOH C 20 297 36 HOH HOH . J 4 HOH C 21 298 39 HOH HOH . J 4 HOH C 22 299 44 HOH HOH . J 4 HOH C 23 300 45 HOH HOH . J 4 HOH C 24 301 48 HOH HOH . J 4 HOH C 25 302 49 HOH HOH . J 4 HOH C 26 303 51 HOH HOH . J 4 HOH C 27 304 52 HOH HOH . J 4 HOH C 28 305 54 HOH HOH . J 4 HOH C 29 306 55 HOH HOH . J 4 HOH C 30 307 58 HOH HOH . J 4 HOH C 31 308 59 HOH HOH . J 4 HOH C 32 309 62 HOH HOH . J 4 HOH C 33 310 67 HOH HOH . J 4 HOH C 34 311 68 HOH HOH . J 4 HOH C 35 312 69 HOH HOH . J 4 HOH C 36 313 70 HOH HOH . J 4 HOH C 37 314 73 HOH HOH . J 4 HOH C 38 315 74 HOH HOH . J 4 HOH C 39 316 76 HOH HOH . J 4 HOH C 40 317 81 HOH HOH . J 4 HOH C 41 318 82 HOH HOH . J 4 HOH C 42 319 83 HOH HOH . J 4 HOH C 43 320 84 HOH HOH . J 4 HOH C 44 321 87 HOH HOH . J 4 HOH C 45 322 89 HOH HOH . J 4 HOH C 46 323 91 HOH HOH . J 4 HOH C 47 324 94 HOH HOH . J 4 HOH C 48 325 95 HOH HOH . J 4 HOH C 49 326 96 HOH HOH . J 4 HOH C 50 327 101 HOH HOH . J 4 HOH C 51 328 102 HOH HOH . J 4 HOH C 52 329 103 HOH HOH . J 4 HOH C 53 330 106 HOH HOH . J 4 HOH C 54 331 107 HOH HOH . J 4 HOH C 55 332 109 HOH HOH . J 4 HOH C 56 333 112 HOH HOH . J 4 HOH C 57 334 114 HOH HOH . J 4 HOH C 58 335 115 HOH HOH . J 4 HOH C 59 336 121 HOH HOH . J 4 HOH C 60 337 122 HOH HOH . J 4 HOH C 61 338 123 HOH HOH . J 4 HOH C 62 339 125 HOH HOH . J 4 HOH C 63 340 127 HOH HOH . J 4 HOH C 64 341 128 HOH HOH . J 4 HOH C 65 342 131 HOH HOH . J 4 HOH C 66 343 133 HOH HOH . J 4 HOH C 67 344 138 HOH HOH . J 4 HOH C 68 345 154 HOH HOH . J 4 HOH C 69 346 158 HOH HOH . J 4 HOH C 70 347 159 HOH HOH . J 4 HOH C 71 348 160 HOH HOH . J 4 HOH C 72 349 163 HOH HOH . J 4 HOH C 73 350 164 HOH HOH . J 4 HOH C 74 351 165 HOH HOH . J 4 HOH C 75 352 169 HOH HOH . J 4 HOH C 76 353 171 HOH HOH . J 4 HOH C 77 354 174 HOH HOH . J 4 HOH C 78 355 177 HOH HOH . J 4 HOH C 79 356 178 HOH HOH . J 4 HOH C 80 357 180 HOH HOH . J 4 HOH C 81 358 184 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 MLI . . . H 3 37.04 35.347 -12.116 0.65 62.94 ? C1 MLI 277 C 1 HETATM 2 C C2 MLI . . . H 3 36.584 36.772 -12.313 0.65 63.49 ? C2 MLI 277 C 1 HETATM 3 C C3 MLI . . . H 3 36.811 34.555 -13.379 0.65 63.66 ? C3 MLI 277 C 1 HETATM 4 O O6 MLI . . . H 3 37.368 37.678 -11.943 0.65 63.44 ? O6 MLI 277 C 1 HETATM 5 O O7 MLI . . . H 3 35.456 36.984 -12.825 0.65 61.93 ? O7 MLI 277 C 1 HETATM 6 O O8 MLI . . . H 3 36.011 33.587 -13.335 0.65 63.43 ? O8 MLI 277 C 1 HETATM 7 O O9 MLI . . . H 3 37.429 34.889 -14.415 0.65 61.44 ? O9 MLI 277 C 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 681 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 7 #