data_2PO0 # _model_server_result.job_id XUJI13HFDDy1QcNgg45IEA _model_server_result.datetime_utc '2024-11-23 16:17:18' _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 2po0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":300}' # _entry.id 2PO0 # _exptl.entry_id 2PO0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 2PO0 _cell.length_a 94.2 _cell.length_b 94.2 _cell.length_c 127.7 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2PO0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -47.1 81.579593 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -94.2 0 0 # _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 # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 2PO0 _atom_sites.fract_transf_matrix[1][1] 0.010616 _atom_sites.fract_transf_matrix[1][2] 0.006129 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012258 _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] 0.007831 _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 3 ADP A 1 300 300 ADP ADP . D 4 MPD A 1 250 250 MPD MPD . E 4 MPD B 1 280 280 MPD MPD . F 4 MPD B 1 281 281 MPD MPD . G 5 HOH A 1 301 246 HOH HOH . G 5 HOH A 2 302 247 HOH HOH . G 5 HOH A 3 303 248 HOH HOH . G 5 HOH A 4 304 9 HOH HOH . G 5 HOH A 5 305 10 HOH HOH . G 5 HOH A 6 306 11 HOH HOH . G 5 HOH A 7 307 13 HOH HOH . G 5 HOH A 8 308 16 HOH HOH . G 5 HOH A 9 309 20 HOH HOH . G 5 HOH A 10 310 22 HOH HOH . G 5 HOH A 11 311 27 HOH HOH . G 5 HOH A 12 312 29 HOH HOH . G 5 HOH A 13 313 32 HOH HOH . G 5 HOH A 14 314 36 HOH HOH . G 5 HOH A 15 315 37 HOH HOH . G 5 HOH A 16 316 39 HOH HOH . G 5 HOH A 17 317 41 HOH HOH . G 5 HOH A 18 318 46 HOH HOH . G 5 HOH A 19 319 48 HOH HOH . G 5 HOH A 20 320 50 HOH HOH . G 5 HOH A 21 321 51 HOH HOH . G 5 HOH A 22 322 52 HOH HOH . G 5 HOH A 23 323 56 HOH HOH . G 5 HOH A 24 324 59 HOH HOH . G 5 HOH A 25 325 63 HOH HOH . G 5 HOH A 26 326 69 HOH HOH . G 5 HOH A 27 327 71 HOH HOH . G 5 HOH A 28 328 72 HOH HOH . G 5 HOH A 29 329 80 HOH HOH . G 5 HOH A 30 330 82 HOH HOH . G 5 HOH A 31 331 85 HOH HOH . G 5 HOH A 32 332 86 HOH HOH . G 5 HOH A 33 333 87 HOH HOH . G 5 HOH A 34 334 90 HOH HOH . G 5 HOH A 35 335 93 HOH HOH . G 5 HOH A 36 336 97 HOH HOH . G 5 HOH A 37 337 99 HOH HOH . G 5 HOH A 38 338 108 HOH HOH . G 5 HOH A 39 339 109 HOH HOH . G 5 HOH A 40 340 110 HOH HOH . G 5 HOH A 41 341 111 HOH HOH . G 5 HOH A 42 342 115 HOH HOH . G 5 HOH A 43 343 116 HOH HOH . G 5 HOH A 44 344 120 HOH HOH . G 5 HOH A 45 345 121 HOH HOH . G 5 HOH A 46 346 122 HOH HOH . G 5 HOH A 47 347 123 HOH HOH . G 5 HOH A 48 348 124 HOH HOH . G 5 HOH A 49 349 125 HOH HOH . G 5 HOH A 50 350 126 HOH HOH . G 5 HOH A 51 351 139 HOH HOH . G 5 HOH A 52 352 140 HOH HOH . G 5 HOH A 53 353 144 HOH HOH . G 5 HOH A 54 354 145 HOH HOH . G 5 HOH A 55 355 146 HOH HOH . G 5 HOH A 56 356 147 HOH HOH . G 5 HOH A 57 357 148 HOH HOH . G 5 HOH A 58 358 149 HOH HOH . G 5 HOH A 59 359 160 HOH HOH . H 5 HOH B 1 282 1 HOH HOH . H 5 HOH B 2 283 2 HOH HOH . H 5 HOH B 3 284 3 HOH HOH . H 5 HOH B 4 285 4 HOH HOH . H 5 HOH B 5 286 5 HOH HOH . H 5 HOH B 6 287 6 HOH HOH . H 5 HOH B 7 288 7 HOH HOH . H 5 HOH B 8 289 8 HOH HOH . H 5 HOH B 9 290 12 HOH HOH . H 5 HOH B 10 291 14 HOH HOH . H 5 HOH B 11 292 15 HOH HOH . H 5 HOH B 12 293 18 HOH HOH . H 5 HOH B 13 294 19 HOH HOH . H 5 HOH B 14 295 21 HOH HOH . H 5 HOH B 15 296 23 HOH HOH . H 5 HOH B 16 297 24 HOH HOH . H 5 HOH B 17 298 25 HOH HOH . H 5 HOH B 18 299 26 HOH HOH . H 5 HOH B 19 300 28 HOH HOH . H 5 HOH B 20 301 30 HOH HOH . H 5 HOH B 21 302 31 HOH HOH . H 5 HOH B 22 303 33 HOH HOH . H 5 HOH B 23 304 34 HOH HOH . H 5 HOH B 24 305 35 HOH HOH . H 5 HOH B 25 306 38 HOH HOH . H 5 HOH B 26 307 40 HOH HOH . H 5 HOH B 27 308 42 HOH HOH . H 5 HOH B 28 309 45 HOH HOH . H 5 HOH B 29 310 47 HOH HOH . H 5 HOH B 30 311 49 HOH HOH . H 5 HOH B 31 312 53 HOH HOH . H 5 HOH B 32 313 54 HOH HOH . H 5 HOH B 33 314 55 HOH HOH . H 5 HOH B 34 315 57 HOH HOH . H 5 HOH B 35 316 58 HOH HOH . H 5 HOH B 36 317 60 HOH HOH . H 5 HOH B 37 318 61 HOH HOH . H 5 HOH B 38 319 62 HOH HOH . H 5 HOH B 39 320 64 HOH HOH . H 5 HOH B 40 321 66 HOH HOH . H 5 HOH B 41 322 67 HOH HOH . H 5 HOH B 42 323 68 HOH HOH . H 5 HOH B 43 324 70 HOH HOH . H 5 HOH B 44 325 73 HOH HOH . H 5 HOH B 45 326 74 HOH HOH . H 5 HOH B 46 327 75 HOH HOH . H 5 HOH B 47 328 76 HOH HOH . H 5 HOH B 48 329 81 HOH HOH . H 5 HOH B 49 330 83 HOH HOH . H 5 HOH B 50 331 88 HOH HOH . H 5 HOH B 51 332 91 HOH HOH . H 5 HOH B 52 333 92 HOH HOH . H 5 HOH B 53 334 94 HOH HOH . H 5 HOH B 54 335 95 HOH HOH . H 5 HOH B 55 336 96 HOH HOH . H 5 HOH B 56 337 98 HOH HOH . H 5 HOH B 57 338 101 HOH HOH . H 5 HOH B 58 339 102 HOH HOH . H 5 HOH B 59 340 103 HOH HOH . H 5 HOH B 60 341 106 HOH HOH . H 5 HOH B 61 342 107 HOH HOH . H 5 HOH B 62 343 112 HOH HOH . H 5 HOH B 63 344 113 HOH HOH . H 5 HOH B 64 345 114 HOH HOH . H 5 HOH B 65 346 117 HOH HOH . H 5 HOH B 66 347 118 HOH HOH . H 5 HOH B 67 348 119 HOH HOH . H 5 HOH B 68 349 127 HOH HOH . H 5 HOH B 69 350 128 HOH HOH . H 5 HOH B 70 351 129 HOH HOH . H 5 HOH B 71 352 130 HOH HOH . H 5 HOH B 72 353 131 HOH HOH . H 5 HOH B 73 354 132 HOH HOH . H 5 HOH B 74 355 133 HOH HOH . H 5 HOH B 75 356 134 HOH HOH . H 5 HOH B 76 357 135 HOH HOH . H 5 HOH B 77 358 136 HOH HOH . H 5 HOH B 78 359 137 HOH HOH . H 5 HOH B 79 360 138 HOH HOH . H 5 HOH B 80 361 141 HOH HOH . H 5 HOH B 81 362 142 HOH HOH . H 5 HOH B 82 363 143 HOH HOH . H 5 HOH B 83 364 150 HOH HOH . H 5 HOH B 84 365 151 HOH HOH . H 5 HOH B 85 366 152 HOH HOH . H 5 HOH B 86 367 153 HOH HOH . H 5 HOH B 87 368 154 HOH HOH . H 5 HOH B 88 369 155 HOH HOH . H 5 HOH B 89 370 156 HOH HOH . H 5 HOH B 90 371 157 HOH HOH . H 5 HOH B 91 372 158 HOH HOH . H 5 HOH B 92 373 159 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 PB ADP . A . C 3 -22.35 18.266 27.12 0.6 45.26 ? PB ADP 300 A 1 HETATM 2 P PB ADP . B . C 3 -21.272 22.18 30.003 0.4 28.43 ? PB ADP 300 A 1 HETATM 3 O O1B ADP . A . C 3 -23.511 18.602 26.246 0.6 33.44 ? O1B ADP 300 A 1 HETATM 4 O O1B ADP . B . C 3 -20.295 21.403 29.185 0.4 30.23 ? O1B ADP 300 A 1 HETATM 5 O O2B ADP . A . C 3 -22.637 17.29 28.214 0.6 39.22 ? O2B ADP 300 A 1 HETATM 6 O O2B ADP . B . C 3 -21.254 21.756 31.395 0.4 28.49 ? O2B ADP 300 A 1 HETATM 7 O O3B ADP . A . C 3 -21.11 17.999 26.308 0.6 40.65 ? O3B ADP 300 A 1 HETATM 8 O O3B ADP . B . C 3 -21.293 23.638 29.735 0.4 29.38 ? O3B ADP 300 A 1 HETATM 9 P PA ADP . A . C 3 -22.688 20.939 28.305 0.4 46.3 ? PA ADP 300 A 1 HETATM 10 P PA ADP . B . C 3 -22.868 20.814 28.12 0.6 38.17 ? PA ADP 300 A 1 HETATM 11 O O1A ADP . A . C 3 -21.991 21.684 29.46 0.4 41.45 ? O1A ADP 300 A 1 HETATM 12 O O1A ADP . B . C 3 -24.279 20.332 28.008 0.6 34.52 ? O1A ADP 300 A 1 HETATM 13 O O2A ADP . A . C 3 -24.094 20.482 28.337 0.4 44.6 ? O2A ADP 300 A 1 HETATM 14 O O2A ADP . B . C 3 -21.873 19.709 28.044 0.6 36.54 ? O2A ADP 300 A 1 HETATM 15 O O3A ADP . A . C 3 -21.899 19.577 27.969 0.4 42.43 ? O3A ADP 300 A 1 HETATM 16 O O3A ADP . B . C 3 -22.671 21.671 29.444 0.6 31.05 ? O3A ADP 300 A 1 HETATM 17 O O5' ADP . A . C 3 -22.721 21.803 26.977 0.4 43.42 ? O5' ADP 300 A 1 HETATM 18 O O5' ADP . B . C 3 -22.778 21.854 26.932 0.6 36.65 ? O5' ADP 300 A 1 HETATM 19 C C5' ADP . A . C 3 -21.61 22.469 26.423 0.4 42.98 ? C5' ADP 300 A 1 HETATM 20 C C5' ADP . B . C 3 -21.618 22.475 26.441 0.6 38.39 ? C5' ADP 300 A 1 HETATM 21 C C4' ADP . A . C 3 -21.992 23.802 25.816 0.4 43.27 ? C4' ADP 300 A 1 HETATM 22 C C4' ADP . B . C 3 -21.974 23.805 25.816 0.6 40.31 ? C4' ADP 300 A 1 HETATM 23 O O4' ADP . A . C 3 -23.054 23.732 24.886 0.45 43.88 ? O4' ADP 300 A 1 HETATM 24 O O4' ADP . B . C 3 -23.042 23.732 24.891 0.55 41.51 ? O4' ADP 300 A 1 HETATM 25 C C3' ADP . A . C 3 -22.413 24.864 26.786 0.4 40.97 ? C3' ADP 300 A 1 HETATM 26 C C3' ADP . B . C 3 -22.404 24.867 26.783 0.6 38.67 ? C3' ADP 300 A 1 HETATM 27 O O3' ADP . A . C 3 -21.385 25.495 27.518 0.4 40.55 ? O3' ADP 300 A 1 HETATM 28 O O3' ADP . B . C 3 -21.382 25.5 27.522 0.6 38.63 ? O3' ADP 300 A 1 HETATM 29 C C2' ADP . A . C 3 -22.993 25.851 25.84 0.4 43.49 ? C2' ADP 300 A 1 HETATM 30 C C2' ADP . B . C 3 -22.988 25.852 25.839 0.6 41.64 ? C2' ADP 300 A 1 HETATM 31 O O2' ADP . A . C 3 -21.98 26.619 25.228 0.4 44.23 ? O2' ADP 300 A 1 HETATM 32 O O2' ADP . B . C 3 -21.978 26.623 25.224 0.6 42.32 ? O2' ADP 300 A 1 HETATM 33 C C1' ADP . A . C 3 -23.642 25.012 24.781 0.45 46.33 ? C1' ADP 300 A 1 HETATM 34 C C1' ADP . B . C 3 -23.635 25.009 24.782 0.55 44.88 ? C1' ADP 300 A 1 HETATM 35 N N9 ADP . A . C 3 -25.059 25.09 25.169 0.45 45.84 ? N9 ADP 300 A 1 HETATM 36 N N9 ADP . B . C 3 -25.052 25.087 25.169 0.55 44.62 ? N9 ADP 300 A 1 HETATM 37 C C8 ADP . A . C 3 -25.604 24.521 26.239 0.45 44.66 ? C8 ADP 300 A 1 HETATM 38 C C8 ADP . B . C 3 -25.599 24.519 26.239 0.55 43.58 ? C8 ADP 300 A 1 HETATM 39 N N7 ADP . A . C 3 -26.9 24.797 26.34 0.45 44.86 ? N7 ADP 300 A 1 HETATM 40 N N7 ADP . B . C 3 -26.895 24.795 26.34 0.55 43.72 ? N7 ADP 300 A 1 HETATM 41 C C5 ADP . A . C 3 -27.217 25.575 25.315 0.45 47.07 ? C5 ADP 300 A 1 HETATM 42 C C5 ADP . B . C 3 -27.212 25.573 25.315 0.55 46.14 ? C5 ADP 300 A 1 HETATM 43 C C6 ADP . A . C 3 -28.436 26.229 24.826 0.45 47.69 ? C6 ADP 300 A 1 HETATM 44 C C6 ADP . B . C 3 -28.431 26.227 24.826 0.55 46.54 ? C6 ADP 300 A 1 HETATM 45 N N6 ADP . A . C 3 -29.593 26.088 25.481 0.45 47.21 ? N6 ADP 300 A 1 HETATM 46 N N6 ADP . B . C 3 -29.589 26.087 25.48 0.55 46.23 ? N6 ADP 300 A 1 HETATM 47 N N1 ADP . A . C 3 -28.343 26.954 23.701 0.45 49.73 ? N1 ADP 300 A 1 HETATM 48 N N1 ADP . B . C 3 -28.337 26.953 23.701 0.55 48.69 ? N1 ADP 300 A 1 HETATM 49 C C2 ADP . A . C 3 -27.193 27.1 23.038 0.45 49.74 ? C2 ADP 300 A 1 HETATM 50 C C2 ADP . B . C 3 -27.188 27.099 23.038 0.55 48.69 ? C2 ADP 300 A 1 HETATM 51 N N3 ADP . A . C 3 -26.051 26.54 23.431 0.45 48.93 ? N3 ADP 300 A 1 HETATM 52 N N3 ADP . B . C 3 -26.045 26.538 23.432 0.55 47.91 ? N3 ADP 300 A 1 HETATM 53 C C4 ADP . A . C 3 -25.996 25.776 24.54 0.45 47.58 ? C4 ADP 300 A 1 HETATM 54 C C4 ADP . B . C 3 -25.991 25.774 24.54 0.55 46.52 ? C4 ADP 300 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 239 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 54 #