data_3NOJ # _model_server_result.job_id HuW8rzN8YHhYD0Vmq-Eqyg _model_server_result.datetime_utc '2024-11-05 01:24:46' _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 3noj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":240}' # _entry.id 3NOJ # _exptl.entry_id 3NOJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 88.062 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PYRUVIC ACID' _entity.pdbx_number_of_molecules 1 _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 3NOJ _cell.length_a 111.18 _cell.length_b 111.18 _cell.length_c 139.273 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NOJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? hexameric 6 author_defined_assembly 1 PISA trimeric 3 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 1 1,2,3,4,5,6 A,B,C,D,E,F 2 1,2,3 # 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' 3_555 -x+y,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_556 y,x,-z+1 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 139.273 5 'crystal symmetry operation' 5_556 x-y,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 139.273 6 'crystal symmetry operation' 6_556 -x,-x+y,-z+1 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 139.273 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 A OD2 ASP 124 A ASP 124 1_555 B MG MG . A MG 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc2 B MG MG . A MG 239 1_555 C O3 PYR . A PYR 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc3 B MG MG . A MG 239 1_555 C OXT PYR . A PYR 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.121 ? metalc ? metalc4 B MG MG . A MG 239 1_555 F O HOH . A HOH 243 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? metalc ? metalc5 B MG MG . A MG 239 1_555 F O HOH . A HOH 258 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.091 ? metalc ? metalc6 B MG MG . A MG 239 1_555 F O HOH . A HOH 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? # _chem_comp.formula 'C3 H4 O3' _chem_comp.formula_weight 88.062 _chem_comp.id PYR _chem_comp.mon_nstd_flag . _chem_comp.name 'PYRUVIC ACID' _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 C O PYR doub 307 n n C OXT PYR sing 308 n n C CA PYR sing 309 n n OXT HXT PYR sing 310 n n CA O3 PYR doub 311 n n CA CB PYR sing 312 n n CB HB1 PYR sing 313 n n CB HB2 PYR sing 314 n n CB HB3 PYR sing 315 n n # _atom_sites.entry_id 3NOJ _atom_sites.fract_transf_matrix[1][1] 0.008994 _atom_sites.fract_transf_matrix[1][2] 0.005193 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010386 _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] 0.00718 _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 B 2 MG A 1 239 1 MG MG . C 3 PYR A 1 240 2 PYR PYR . D 4 PG4 A 1 241 3 PG4 PG4 . E 4 PG4 A 1 242 4 PG4 PG4 . F 5 HOH A 1 243 2 HOH HOH . F 5 HOH A 2 244 3 HOH HOH . F 5 HOH A 3 245 4 HOH HOH . F 5 HOH A 4 246 5 HOH HOH . F 5 HOH A 5 247 6 HOH HOH . F 5 HOH A 6 248 7 HOH HOH . F 5 HOH A 7 249 8 HOH HOH . F 5 HOH A 8 250 9 HOH HOH . F 5 HOH A 9 251 10 HOH HOH . F 5 HOH A 10 252 11 HOH HOH . F 5 HOH A 11 253 12 HOH HOH . F 5 HOH A 12 254 13 HOH HOH . F 5 HOH A 13 255 14 HOH HOH . F 5 HOH A 14 256 15 HOH HOH . F 5 HOH A 15 257 16 HOH HOH . F 5 HOH A 16 258 17 HOH HOH . F 5 HOH A 17 259 18 HOH HOH . F 5 HOH A 18 260 19 HOH HOH . F 5 HOH A 19 261 20 HOH HOH . F 5 HOH A 20 262 22 HOH HOH . F 5 HOH A 21 263 23 HOH HOH . F 5 HOH A 22 264 25 HOH HOH . F 5 HOH A 23 265 26 HOH HOH . F 5 HOH A 24 266 27 HOH HOH . F 5 HOH A 25 267 28 HOH HOH . F 5 HOH A 26 268 29 HOH HOH . F 5 HOH A 27 269 30 HOH HOH . F 5 HOH A 28 270 31 HOH HOH . F 5 HOH A 29 271 32 HOH HOH . F 5 HOH A 30 272 33 HOH HOH . F 5 HOH A 31 273 34 HOH HOH . F 5 HOH A 32 274 35 HOH HOH . F 5 HOH A 33 275 36 HOH HOH . F 5 HOH A 34 276 37 HOH HOH . F 5 HOH A 35 277 38 HOH HOH . F 5 HOH A 36 278 39 HOH HOH . F 5 HOH A 37 279 40 HOH HOH . F 5 HOH A 38 280 41 HOH HOH . F 5 HOH A 39 281 42 HOH HOH . F 5 HOH A 40 282 45 HOH HOH . F 5 HOH A 41 283 46 HOH HOH . F 5 HOH A 42 284 47 HOH HOH . F 5 HOH A 43 285 48 HOH HOH . F 5 HOH A 44 286 49 HOH HOH . F 5 HOH A 45 287 50 HOH HOH . F 5 HOH A 46 288 51 HOH HOH . F 5 HOH A 47 289 52 HOH HOH . F 5 HOH A 48 290 53 HOH HOH . F 5 HOH A 49 291 54 HOH HOH . F 5 HOH A 50 292 55 HOH HOH . F 5 HOH A 51 293 56 HOH HOH . F 5 HOH A 52 294 58 HOH HOH . F 5 HOH A 53 295 59 HOH HOH . F 5 HOH A 54 296 60 HOH HOH . F 5 HOH A 55 297 62 HOH HOH . F 5 HOH A 56 298 63 HOH HOH . F 5 HOH A 57 299 64 HOH HOH . F 5 HOH A 58 300 65 HOH HOH . F 5 HOH A 59 301 66 HOH HOH . F 5 HOH A 60 302 67 HOH HOH . F 5 HOH A 61 303 68 HOH HOH . F 5 HOH A 62 304 70 HOH HOH . F 5 HOH A 63 305 71 HOH HOH . F 5 HOH A 64 306 72 HOH HOH . F 5 HOH A 65 307 74 HOH HOH . F 5 HOH A 66 308 75 HOH HOH . F 5 HOH A 67 309 76 HOH HOH . F 5 HOH A 68 310 77 HOH HOH . F 5 HOH A 69 311 78 HOH HOH . F 5 HOH A 70 312 79 HOH HOH . F 5 HOH A 71 313 80 HOH HOH . F 5 HOH A 72 314 82 HOH HOH . F 5 HOH A 73 315 83 HOH HOH . F 5 HOH A 74 316 84 HOH HOH . F 5 HOH A 75 317 85 HOH HOH . F 5 HOH A 76 318 86 HOH HOH . F 5 HOH A 77 319 87 HOH HOH . F 5 HOH A 78 320 88 HOH HOH . F 5 HOH A 79 321 90 HOH HOH . F 5 HOH A 80 322 91 HOH HOH . F 5 HOH A 81 323 92 HOH HOH . F 5 HOH A 82 324 93 HOH HOH . F 5 HOH A 83 325 94 HOH HOH . F 5 HOH A 84 326 95 HOH HOH . F 5 HOH A 85 327 97 HOH HOH . F 5 HOH A 86 328 99 HOH HOH . F 5 HOH A 87 329 101 HOH HOH . F 5 HOH A 88 330 102 HOH HOH . F 5 HOH A 89 331 103 HOH HOH . F 5 HOH A 90 332 105 HOH HOH . F 5 HOH A 91 333 107 HOH HOH . F 5 HOH A 92 334 109 HOH HOH . F 5 HOH A 93 335 110 HOH HOH . F 5 HOH A 94 336 111 HOH HOH . F 5 HOH A 95 337 112 HOH HOH . F 5 HOH A 96 338 115 HOH HOH . F 5 HOH A 97 339 117 HOH HOH . F 5 HOH A 98 340 118 HOH HOH . F 5 HOH A 99 341 119 HOH HOH . F 5 HOH A 100 342 121 HOH HOH . F 5 HOH A 101 343 122 HOH HOH . F 5 HOH A 102 344 123 HOH HOH . F 5 HOH A 103 345 124 HOH HOH . F 5 HOH A 104 346 125 HOH HOH . F 5 HOH A 105 347 127 HOH HOH . F 5 HOH A 106 348 132 HOH HOH . F 5 HOH A 107 349 136 HOH HOH . F 5 HOH A 108 350 137 HOH HOH . F 5 HOH A 109 351 144 HOH HOH . F 5 HOH A 110 352 150 HOH HOH . F 5 HOH A 111 353 151 HOH HOH . F 5 HOH A 112 354 153 HOH HOH . F 5 HOH A 113 355 156 HOH HOH . F 5 HOH A 114 356 159 HOH HOH . F 5 HOH A 115 357 160 HOH HOH . F 5 HOH A 116 358 161 HOH HOH . F 5 HOH A 117 359 162 HOH HOH . F 5 HOH A 118 360 163 HOH HOH . F 5 HOH A 119 361 165 HOH HOH . F 5 HOH A 120 362 166 HOH HOH . F 5 HOH A 121 363 167 HOH HOH . F 5 HOH A 122 364 168 HOH HOH . F 5 HOH A 123 365 169 HOH HOH . F 5 HOH A 124 366 170 HOH HOH . F 5 HOH A 125 367 171 HOH HOH . F 5 HOH A 126 368 172 HOH HOH . F 5 HOH A 127 369 173 HOH HOH . F 5 HOH A 128 370 174 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 C PYR . . . C 3 11.665 18.46 52.383 1 26.82 ? C PYR 240 A 1 HETATM 2 O O PYR . . . C 3 12.915 18.075 52.334 1 26.27 ? O PYR 240 A 1 HETATM 3 O OXT PYR . . . C 3 11.028 18.797 51.297 1 27.54 ? OXT PYR 240 A 1 HETATM 4 C CA PYR . . . C 3 10.952 18.458 53.584 1 26.69 ? CA PYR 240 A 1 HETATM 5 O O3 PYR . . . C 3 9.66 18.686 53.579 1 25 ? O3 PYR 240 A 1 HETATM 6 C CB PYR . . . C 3 11.657 18.17 54.851 1 24.26 ? CB PYR 240 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 6 #