data_1AMK # _model_server_result.job_id oK8h3pSsQcHruXPbcRqjSw _model_server_result.datetime_utc '2025-07-07 17:15:22' _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 1amk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":600}' # _entry.id 1AMK # _exptl.entry_id 1AMK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 156.031 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description '2-PHOSPHOGLYCOLIC 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 118.13 _cell.angle_gamma 90 _cell.entry_id 1AMK _cell.length_a 99.09 _cell.length_b 52.94 _cell.length_c 58.85 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AMK _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C2 H5 O6 P' _chem_comp.formula_weight 156.031 _chem_comp.id PGA _chem_comp.mon_nstd_flag . _chem_comp.name '2-PHOSPHOGLYCOLIC 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 P O1P PGA sing 237 n n P O2P PGA doub 238 n n P O3P PGA sing 239 n n P O4P PGA sing 240 n n O1P C2 PGA sing 241 n n O3P HOP3 PGA sing 242 n n O4P HOP4 PGA sing 243 n n C2 C1 PGA sing 244 n n C2 H21 PGA sing 245 n n C2 H22 PGA sing 246 n n C1 O1 PGA doub 247 n n C1 O2 PGA sing 248 n n O2 HO2 PGA sing 249 n n # _atom_sites.entry_id 1AMK _atom_sites.fract_transf_matrix[1][1] 0.010092 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005395 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018889 _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] 0.019268 _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 PGA A 1 600 600 PGA PGA . C 3 HOH A 1 252 252 HOH HOH . C 3 HOH A 2 253 253 HOH HOH . C 3 HOH A 3 254 254 HOH HOH . C 3 HOH A 4 255 255 HOH HOH . C 3 HOH A 5 256 256 HOH HOH . C 3 HOH A 6 257 257 HOH HOH . C 3 HOH A 7 258 258 HOH HOH . C 3 HOH A 8 259 259 HOH HOH . C 3 HOH A 9 260 260 HOH HOH . C 3 HOH A 10 261 261 HOH HOH . C 3 HOH A 11 262 262 HOH HOH . C 3 HOH A 12 263 263 HOH HOH . C 3 HOH A 13 264 264 HOH HOH . C 3 HOH A 14 265 265 HOH HOH . C 3 HOH A 15 267 267 HOH HOH . C 3 HOH A 16 268 268 HOH HOH . C 3 HOH A 17 269 269 HOH HOH . C 3 HOH A 18 270 270 HOH HOH . C 3 HOH A 19 271 271 HOH HOH . C 3 HOH A 20 272 272 HOH HOH . C 3 HOH A 21 274 274 HOH HOH . C 3 HOH A 22 275 275 HOH HOH . C 3 HOH A 23 276 276 HOH HOH . C 3 HOH A 24 277 277 HOH HOH . C 3 HOH A 25 278 278 HOH HOH . C 3 HOH A 26 279 279 HOH HOH . C 3 HOH A 27 280 280 HOH HOH . C 3 HOH A 28 281 281 HOH HOH . C 3 HOH A 29 282 282 HOH HOH . C 3 HOH A 30 283 283 HOH HOH . C 3 HOH A 31 284 284 HOH HOH . C 3 HOH A 32 285 285 HOH HOH . C 3 HOH A 33 286 286 HOH HOH . C 3 HOH A 34 287 287 HOH HOH . C 3 HOH A 35 288 288 HOH HOH . C 3 HOH A 36 289 289 HOH HOH . C 3 HOH A 37 290 290 HOH HOH . C 3 HOH A 38 291 291 HOH HOH . C 3 HOH A 39 292 292 HOH HOH . C 3 HOH A 40 293 293 HOH HOH . C 3 HOH A 41 294 294 HOH HOH . C 3 HOH A 42 295 295 HOH HOH . C 3 HOH A 43 296 296 HOH HOH . C 3 HOH A 44 297 297 HOH HOH . C 3 HOH A 45 298 298 HOH HOH . C 3 HOH A 46 299 299 HOH HOH . C 3 HOH A 47 300 300 HOH HOH . C 3 HOH A 48 301 301 HOH HOH . C 3 HOH A 49 302 302 HOH HOH . C 3 HOH A 50 303 303 HOH HOH . C 3 HOH A 51 304 304 HOH HOH . C 3 HOH A 52 305 305 HOH HOH . C 3 HOH A 53 306 306 HOH HOH . C 3 HOH A 54 307 307 HOH HOH . C 3 HOH A 55 308 308 HOH HOH . C 3 HOH A 56 309 309 HOH HOH . C 3 HOH A 57 310 310 HOH HOH . C 3 HOH A 58 312 312 HOH HOH . C 3 HOH A 59 313 313 HOH HOH . C 3 HOH A 60 314 314 HOH HOH . C 3 HOH A 61 315 315 HOH HOH . C 3 HOH A 62 316 316 HOH HOH . C 3 HOH A 63 317 317 HOH HOH . C 3 HOH A 64 319 319 HOH HOH . C 3 HOH A 65 320 320 HOH HOH . C 3 HOH A 66 321 321 HOH HOH . C 3 HOH A 67 322 322 HOH HOH . C 3 HOH A 68 323 323 HOH HOH . C 3 HOH A 69 324 324 HOH HOH . C 3 HOH A 70 325 325 HOH HOH . C 3 HOH A 71 328 328 HOH HOH . C 3 HOH A 72 329 329 HOH HOH . C 3 HOH A 73 330 330 HOH HOH . C 3 HOH A 74 331 331 HOH HOH . C 3 HOH A 75 332 332 HOH HOH . C 3 HOH A 76 333 333 HOH HOH . C 3 HOH A 77 334 334 HOH HOH . C 3 HOH A 78 335 335 HOH HOH . C 3 HOH A 79 337 337 HOH HOH . C 3 HOH A 80 338 338 HOH HOH . C 3 HOH A 81 339 339 HOH HOH . C 3 HOH A 82 340 340 HOH HOH . C 3 HOH A 83 341 341 HOH HOH . C 3 HOH A 84 342 342 HOH HOH . C 3 HOH A 85 343 343 HOH HOH . C 3 HOH A 86 344 344 HOH HOH . C 3 HOH A 87 345 345 HOH HOH . C 3 HOH A 88 346 346 HOH HOH . C 3 HOH A 89 347 347 HOH HOH . C 3 HOH A 90 348 348 HOH HOH . C 3 HOH A 91 349 349 HOH HOH . C 3 HOH A 92 350 350 HOH HOH . C 3 HOH A 93 352 352 HOH HOH . C 3 HOH A 94 353 353 HOH HOH . C 3 HOH A 95 355 355 HOH HOH . C 3 HOH A 96 357 357 HOH HOH . C 3 HOH A 97 358 358 HOH HOH . C 3 HOH A 98 359 359 HOH HOH . C 3 HOH A 99 360 360 HOH HOH . C 3 HOH A 100 361 361 HOH HOH . C 3 HOH A 101 362 362 HOH HOH . C 3 HOH A 102 363 363 HOH HOH . C 3 HOH A 103 364 364 HOH HOH . C 3 HOH A 104 365 365 HOH HOH . C 3 HOH A 105 366 366 HOH HOH . C 3 HOH A 106 367 367 HOH HOH . C 3 HOH A 107 368 368 HOH HOH . C 3 HOH A 108 369 369 HOH HOH . C 3 HOH A 109 401 401 HOH HOH . C 3 HOH A 110 402 402 HOH HOH . C 3 HOH A 111 403 403 HOH HOH . C 3 HOH A 112 404 404 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 P P PGA . . . B 2 8.094 -1.735 18.446 1 11.48 ? P PGA 600 A 1 HETATM 2 O O1P PGA . . . B 2 7.931 -2.097 16.886 1 9.46 ? O1P PGA 600 A 1 HETATM 3 O O2P PGA . . . B 2 8.942 -0.509 18.723 1 14.48 ? O2P PGA 600 A 1 HETATM 4 O O3P PGA . . . B 2 8.469 -3.108 18.908 1 7.91 ? O3P PGA 600 A 1 HETATM 5 O O4P PGA . . . B 2 6.541 -1.381 18.575 1 6.09 ? O4P PGA 600 A 1 HETATM 6 C C2 PGA . . . B 2 9.167 -2.415 16.289 1 4.78 ? C2 PGA 600 A 1 HETATM 7 C C1 PGA . . . B 2 8.907 -2.451 14.791 1 9.44 ? C1 PGA 600 A 1 HETATM 8 O O1 PGA . . . B 2 9.892 -2.135 13.999 1 14.36 ? O1 PGA 600 A 1 HETATM 9 O O2 PGA . . . B 2 7.838 -2.815 14.318 1 4.79 ? O2 PGA 600 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 9 #