data_4OZJ # _model_server_result.job_id n6jX2w782hqV1fi8g3Ra_Q _model_server_result.datetime_utc '2025-02-05 17:06:04' _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 4ozj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 4OZJ # _exptl.entry_id 4OZJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _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 4OZJ _cell.length_a 89.185 _cell.length_b 89.185 _cell.length_c 96.349 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4OZJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 1,2,3 # 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 # _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 '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 4OZJ _atom_sites.fract_transf_matrix[1][1] 0.011213 _atom_sites.fract_transf_matrix[1][2] 0.006474 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012947 _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] 0.010379 _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 ADP A 1 201 201 ADP ADP . C 3 HOH A 1 301 336 HOH HOH . C 3 HOH A 2 302 329 HOH HOH . C 3 HOH A 3 303 301 HOH HOH . C 3 HOH A 4 304 334 HOH HOH . C 3 HOH A 5 305 325 HOH HOH . C 3 HOH A 6 306 355 HOH HOH . C 3 HOH A 7 307 337 HOH HOH . C 3 HOH A 8 308 302 HOH HOH . C 3 HOH A 9 309 317 HOH HOH . C 3 HOH A 10 310 371 HOH HOH . C 3 HOH A 11 311 327 HOH HOH . C 3 HOH A 12 312 319 HOH HOH . C 3 HOH A 13 313 348 HOH HOH . C 3 HOH A 14 314 306 HOH HOH . C 3 HOH A 15 315 310 HOH HOH . C 3 HOH A 16 316 323 HOH HOH . C 3 HOH A 17 317 333 HOH HOH . C 3 HOH A 18 318 314 HOH HOH . C 3 HOH A 19 319 305 HOH HOH . C 3 HOH A 20 320 332 HOH HOH . C 3 HOH A 21 321 322 HOH HOH . C 3 HOH A 22 322 315 HOH HOH . C 3 HOH A 23 323 346 HOH HOH . C 3 HOH A 24 324 318 HOH HOH . C 3 HOH A 25 325 308 HOH HOH . C 3 HOH A 26 326 330 HOH HOH . C 3 HOH A 27 327 352 HOH HOH . C 3 HOH A 28 328 335 HOH HOH . C 3 HOH A 29 329 324 HOH HOH . C 3 HOH A 30 330 311 HOH HOH . C 3 HOH A 31 331 309 HOH HOH . C 3 HOH A 32 332 339 HOH HOH . C 3 HOH A 33 333 321 HOH HOH . C 3 HOH A 34 334 320 HOH HOH . C 3 HOH A 35 335 362 HOH HOH . C 3 HOH A 36 336 349 HOH HOH . C 3 HOH A 37 337 357 HOH HOH . C 3 HOH A 38 338 347 HOH HOH . C 3 HOH A 39 339 363 HOH HOH . C 3 HOH A 40 340 353 HOH HOH . C 3 HOH A 41 341 303 HOH HOH . C 3 HOH A 42 342 304 HOH HOH . C 3 HOH A 43 343 307 HOH HOH . C 3 HOH A 44 344 312 HOH HOH . C 3 HOH A 45 345 313 HOH HOH . C 3 HOH A 46 346 316 HOH HOH . C 3 HOH A 47 347 326 HOH HOH . C 3 HOH A 48 348 328 HOH HOH . C 3 HOH A 49 349 331 HOH HOH . C 3 HOH A 50 350 338 HOH HOH . C 3 HOH A 51 351 340 HOH HOH . C 3 HOH A 52 352 341 HOH HOH . C 3 HOH A 53 353 342 HOH HOH . C 3 HOH A 54 354 343 HOH HOH . C 3 HOH A 55 355 344 HOH HOH . C 3 HOH A 56 356 345 HOH HOH . C 3 HOH A 57 357 350 HOH HOH . C 3 HOH A 58 358 351 HOH HOH . C 3 HOH A 59 359 354 HOH HOH . C 3 HOH A 60 360 356 HOH HOH . C 3 HOH A 61 361 358 HOH HOH . C 3 HOH A 62 362 359 HOH HOH . C 3 HOH A 63 363 360 HOH HOH . C 3 HOH A 64 364 361 HOH HOH . C 3 HOH A 65 365 364 HOH HOH . C 3 HOH A 66 366 365 HOH HOH . C 3 HOH A 67 367 366 HOH HOH . C 3 HOH A 68 368 367 HOH HOH . C 3 HOH A 69 369 368 HOH HOH . C 3 HOH A 70 370 369 HOH HOH . C 3 HOH A 71 371 370 HOH HOH . C 3 HOH A 72 372 372 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 . . . B 2 -19.613 2.536 10.839 1 49.05 ? PB ADP 201 A 1 HETATM 2 O O1B ADP . . . B 2 -20.072 1.883 9.55 1 70.45 ? O1B ADP 201 A 1 HETATM 3 O O2B ADP . . . B 2 -19.799 1.652 12.074 1 63.11 ? O2B ADP 201 A 1 HETATM 4 O O3B ADP . . . B 2 -20.156 3.94 11.025 1 49.36 ? O3B ADP 201 A 1 HETATM 5 P PA ADP . . . B 2 -17.107 3.577 11.546 1 32.81 ? PA ADP 201 A 1 HETATM 6 O O1A ADP . . . B 2 -17.293 5.036 11.179 1 25.03 ? O1A ADP 201 A 1 HETATM 7 O O2A ADP . . . B 2 -17.377 3.072 12.946 1 41.07 ? O2A ADP 201 A 1 HETATM 8 O O3A ADP . . . B 2 -18.02 2.681 10.585 1 43.73 ? O3A ADP 201 A 1 HETATM 9 O O5' ADP . . . B 2 -15.683 3.111 11.132 1 26.5 ? O5' ADP 201 A 1 HETATM 10 C C5' ADP . . . B 2 -15.027 3.537 9.949 1 21.92 ? C5' ADP 201 A 1 HETATM 11 C C4' ADP . . . B 2 -13.716 2.761 9.888 1 18.89 ? C4' ADP 201 A 1 HETATM 12 O O4' ADP . . . B 2 -12.95 2.839 11.104 1 19.4 ? O4' ADP 201 A 1 HETATM 13 C C3' ADP . . . B 2 -13.926 1.265 9.65 1 19.48 ? C3' ADP 201 A 1 HETATM 14 O O3' ADP . . . B 2 -14.137 1.015 8.268 1 19.96 ? O3' ADP 201 A 1 HETATM 15 C C2' ADP . . . B 2 -12.637 0.666 10.192 1 19.28 ? C2' ADP 201 A 1 HETATM 16 O O2' ADP . . . B 2 -11.578 0.841 9.257 1 18.47 ? O2' ADP 201 A 1 HETATM 17 C C1' ADP . . . B 2 -12.37 1.557 11.382 1 19.09 ? C1' ADP 201 A 1 HETATM 18 N N9 ADP . . . B 2 -12.916 1.039 12.666 1 19.13 ? N9 ADP 201 A 1 HETATM 19 C C8 ADP . . . B 2 -14.066 1.428 13.275 1 20.74 ? C8 ADP 201 A 1 HETATM 20 N N7 ADP . . . B 2 -14.233 0.81 14.466 1 22.33 ? N7 ADP 201 A 1 HETATM 21 C C5 ADP . . . B 2 -13.156 -0.016 14.605 1 20.95 ? C5 ADP 201 A 1 HETATM 22 C C6 ADP . . . B 2 -12.7 -0.962 15.618 1 19.3 ? C6 ADP 201 A 1 HETATM 23 N N6 ADP . . . B 2 -13.427 -1.183 16.732 1 23.11 ? N6 ADP 201 A 1 HETATM 24 N N1 ADP . . . B 2 -11.523 -1.618 15.395 1 20.53 ? N1 ADP 201 A 1 HETATM 25 C C2 ADP . . . B 2 -10.795 -1.413 14.28 1 21.22 ? C2 ADP 201 A 1 HETATM 26 N N3 ADP . . . B 2 -11.146 -0.555 13.305 1 18.36 ? N3 ADP 201 A 1 HETATM 27 C C4 ADP . . . B 2 -12.326 0.134 13.421 1 17.5 ? C4 ADP 201 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #