data_1V9O # _model_server_result.job_id MvOseLt5WjaR7kPtmFDA7w _model_server_result.datetime_utc '2024-12-26 10:40:23' _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 1v9o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":200}' # _entry.id 1V9O # _exptl.entry_id 1V9O _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 3 _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 1V9O _cell.length_a 53.198 _cell.length_b 74.612 _cell.length_c 76.691 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1V9O _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,D,E,F,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N 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 1V9O _atom_sites.fract_transf_matrix[1][1] 0.018798 _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] 0.013403 _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] 0.013039 _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 D 2 ADP A 1 200 200 ADP ADP . E 2 ADP B 1 300 300 ADP ADP . F 2 ADP C 1 400 400 ADP ADP . G 3 HOH A 1 201 5 HOH HOH . G 3 HOH A 2 202 9 HOH HOH . G 3 HOH A 3 203 13 HOH HOH . G 3 HOH A 4 204 21 HOH HOH . G 3 HOH A 5 205 22 HOH HOH . G 3 HOH A 6 206 39 HOH HOH . G 3 HOH A 7 207 40 HOH HOH . G 3 HOH A 8 208 41 HOH HOH . G 3 HOH A 9 209 42 HOH HOH . G 3 HOH A 10 210 43 HOH HOH . G 3 HOH A 11 211 48 HOH HOH . G 3 HOH A 12 212 51 HOH HOH . G 3 HOH A 13 213 54 HOH HOH . G 3 HOH A 14 214 57 HOH HOH . G 3 HOH A 15 215 67 HOH HOH . G 3 HOH A 16 216 76 HOH HOH . G 3 HOH A 17 217 80 HOH HOH . G 3 HOH A 18 218 83 HOH HOH . G 3 HOH A 19 219 84 HOH HOH . G 3 HOH A 20 220 85 HOH HOH . G 3 HOH A 21 221 86 HOH HOH . G 3 HOH A 22 222 92 HOH HOH . G 3 HOH A 23 223 93 HOH HOH . G 3 HOH A 24 224 94 HOH HOH . G 3 HOH A 25 225 96 HOH HOH . G 3 HOH A 26 226 97 HOH HOH . G 3 HOH A 27 227 108 HOH HOH . G 3 HOH A 28 228 110 HOH HOH . G 3 HOH A 29 229 116 HOH HOH . G 3 HOH A 30 230 118 HOH HOH . G 3 HOH A 31 231 120 HOH HOH . H 3 HOH B 1 301 2 HOH HOH . H 3 HOH B 2 302 3 HOH HOH . H 3 HOH B 3 303 4 HOH HOH . H 3 HOH B 4 304 6 HOH HOH . H 3 HOH B 5 305 7 HOH HOH . H 3 HOH B 6 306 8 HOH HOH . H 3 HOH B 7 307 14 HOH HOH . H 3 HOH B 8 308 16 HOH HOH . H 3 HOH B 9 309 18 HOH HOH . H 3 HOH B 10 310 20 HOH HOH . H 3 HOH B 11 311 23 HOH HOH . H 3 HOH B 12 312 24 HOH HOH . H 3 HOH B 13 313 27 HOH HOH . H 3 HOH B 14 314 28 HOH HOH . H 3 HOH B 15 315 29 HOH HOH . H 3 HOH B 16 316 31 HOH HOH . H 3 HOH B 17 317 33 HOH HOH . H 3 HOH B 18 318 34 HOH HOH . H 3 HOH B 19 319 38 HOH HOH . H 3 HOH B 20 320 44 HOH HOH . H 3 HOH B 21 321 46 HOH HOH . H 3 HOH B 22 322 49 HOH HOH . H 3 HOH B 23 323 50 HOH HOH . H 3 HOH B 24 324 55 HOH HOH . H 3 HOH B 25 325 56 HOH HOH . H 3 HOH B 26 326 59 HOH HOH . H 3 HOH B 27 327 60 HOH HOH . H 3 HOH B 28 328 62 HOH HOH . H 3 HOH B 29 329 64 HOH HOH . H 3 HOH B 30 330 66 HOH HOH . H 3 HOH B 31 331 68 HOH HOH . H 3 HOH B 32 332 69 HOH HOH . H 3 HOH B 33 333 71 HOH HOH . H 3 HOH B 34 334 81 HOH HOH . H 3 HOH B 35 335 82 HOH HOH . H 3 HOH B 36 336 87 HOH HOH . H 3 HOH B 37 337 88 HOH HOH . H 3 HOH B 38 338 90 HOH HOH . H 3 HOH B 39 339 91 HOH HOH . H 3 HOH B 40 340 99 HOH HOH . H 3 HOH B 41 341 103 HOH HOH . H 3 HOH B 42 342 104 HOH HOH . H 3 HOH B 43 343 105 HOH HOH . H 3 HOH B 44 344 106 HOH HOH . H 3 HOH B 45 345 109 HOH HOH . H 3 HOH B 46 346 112 HOH HOH . H 3 HOH B 47 347 114 HOH HOH . H 3 HOH B 48 348 115 HOH HOH . H 3 HOH B 49 349 117 HOH HOH . H 3 HOH B 50 350 119 HOH HOH . I 3 HOH C 1 401 1 HOH HOH . I 3 HOH C 2 402 10 HOH HOH . I 3 HOH C 3 403 11 HOH HOH . I 3 HOH C 4 404 12 HOH HOH . I 3 HOH C 5 405 15 HOH HOH . I 3 HOH C 6 406 17 HOH HOH . I 3 HOH C 7 407 19 HOH HOH . I 3 HOH C 8 408 25 HOH HOH . I 3 HOH C 9 409 26 HOH HOH . I 3 HOH C 10 410 30 HOH HOH . I 3 HOH C 11 411 32 HOH HOH . I 3 HOH C 12 412 35 HOH HOH . I 3 HOH C 13 413 36 HOH HOH . I 3 HOH C 14 414 37 HOH HOH . I 3 HOH C 15 415 45 HOH HOH . I 3 HOH C 16 416 47 HOH HOH . I 3 HOH C 17 417 52 HOH HOH . I 3 HOH C 18 418 53 HOH HOH . I 3 HOH C 19 419 58 HOH HOH . I 3 HOH C 20 420 61 HOH HOH . I 3 HOH C 21 421 63 HOH HOH . I 3 HOH C 22 422 65 HOH HOH . I 3 HOH C 23 423 70 HOH HOH . I 3 HOH C 24 424 72 HOH HOH . I 3 HOH C 25 425 73 HOH HOH . I 3 HOH C 26 426 74 HOH HOH . I 3 HOH C 27 427 75 HOH HOH . I 3 HOH C 28 428 77 HOH HOH . I 3 HOH C 29 429 78 HOH HOH . I 3 HOH C 30 430 79 HOH HOH . I 3 HOH C 31 431 89 HOH HOH . I 3 HOH C 32 432 95 HOH HOH . I 3 HOH C 33 433 98 HOH HOH . I 3 HOH C 34 434 100 HOH HOH . I 3 HOH C 35 435 101 HOH HOH . I 3 HOH C 36 436 102 HOH HOH . I 3 HOH C 37 437 107 HOH HOH . I 3 HOH C 38 438 111 HOH HOH . I 3 HOH C 39 439 113 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 . . . D 2 1.395 5.176 -6.099 1 88.46 ? PB ADP 200 A 1 HETATM 2 O O1B ADP . . . D 2 1.033 4.264 -4.991 1 90.88 ? O1B ADP 200 A 1 HETATM 3 O O2B ADP . . . D 2 1.88 4.393 -7.42 1 88.57 ? O2B ADP 200 A 1 HETATM 4 O O3B ADP . . . D 2 0.163 6.106 -6.56 1 88.66 ? O3B ADP 200 A 1 HETATM 5 P PA ADP . . . D 2 2.757 7.584 -6.481 1 79.62 ? PA ADP 200 A 1 HETATM 6 O O1A ADP . . . D 2 2.339 7.382 -7.887 1 82.23 ? O1A ADP 200 A 1 HETATM 7 O O2A ADP . . . D 2 2.062 8.621 -5.686 1 82.06 ? O2A ADP 200 A 1 HETATM 8 O O3A ADP . . . D 2 2.599 6.176 -5.718 1 86.19 ? O3A ADP 200 A 1 HETATM 9 O O5' ADP . . . D 2 4.344 7.855 -6.444 1 76.52 ? O5' ADP 200 A 1 HETATM 10 C C5' ADP . . . D 2 4.882 8.676 -5.405 1 66.16 ? C5' ADP 200 A 1 HETATM 11 C C4' ADP . . . D 2 5.906 9.679 -5.941 1 59.17 ? C4' ADP 200 A 1 HETATM 12 O O4' ADP . . . D 2 5.411 10.449 -7.053 1 55.22 ? O4' ADP 200 A 1 HETATM 13 C C3' ADP . . . D 2 6.23 10.676 -4.828 1 55.7 ? C3' ADP 200 A 1 HETATM 14 O O3' ADP . . . D 2 7.36 10.189 -4.099 1 49.87 ? O3' ADP 200 A 1 HETATM 15 C C2' ADP . . . D 2 6.636 11.894 -5.655 1 53.16 ? C2' ADP 200 A 1 HETATM 16 O O2' ADP . . . D 2 7.935 11.695 -6.22 1 56.33 ? O2' ADP 200 A 1 HETATM 17 C C1' ADP . . . D 2 5.573 11.848 -6.755 1 53.31 ? C1' ADP 200 A 1 HETATM 18 N N9 ADP . . . D 2 4.265 12.386 -6.309 1 47.72 ? N9 ADP 200 A 1 HETATM 19 C C8 ADP . . . D 2 3.219 11.67 -5.902 1 47.38 ? C8 ADP 200 A 1 HETATM 20 N N7 ADP . . . D 2 2.187 12.474 -5.657 1 45.67 ? N7 ADP 200 A 1 HETATM 21 C C5 ADP . . . D 2 2.578 13.721 -5.905 1 43.94 ? C5 ADP 200 A 1 HETATM 22 C C6 ADP . . . D 2 1.963 14.965 -5.835 1 42.65 ? C6 ADP 200 A 1 HETATM 23 N N6 ADP . . . D 2 0.69 15.071 -5.464 1 43.07 ? N6 ADP 200 A 1 HETATM 24 N N1 ADP . . . D 2 2.667 16.061 -6.159 1 35.74 ? N1 ADP 200 A 1 HETATM 25 C C2 ADP . . . D 2 3.929 15.974 -6.545 1 40.88 ? C2 ADP 200 A 1 HETATM 26 N N3 ADP . . . D 2 4.542 14.805 -6.626 1 36.3 ? N3 ADP 200 A 1 HETATM 27 C C4 ADP . . . D 2 3.903 13.667 -6.317 1 44.18 ? C4 ADP 200 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #