data_8A2J # _model_server_result.job_id BZw1X-w4b-7SUVw9aL5_fg _model_server_result.datetime_utc '2024-11-26 00:00:52' _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 8a2j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 8A2J # _exptl.entry_id 8A2J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 825.615 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-azanyl-9-[(1~{R},6~{R},8~{R},9~{R},10~{S},15~{R},17~{R},18~{R})-8-[4-azanyl-5-(4-phenylphenyl)pyrrolo[2,3-d]pyrimidin-7-yl]-3,9,12,18-tetrakis(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13,16-hexaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-1~{H}-purin-6-one _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 90 _cell.entry_id 8A2J _cell.length_a 94.29 _cell.length_b 116.91 _cell.length_c 35.98 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8A2J _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C33 H33 N9 O13 P2' _chem_comp.formula_weight 825.615 _chem_comp.id KWO _chem_comp.mon_nstd_flag . _chem_comp.name 2-azanyl-9-[(1~{R},6~{R},8~{R},9~{R},10~{S},15~{R},17~{R},18~{R})-8-[4-azanyl-5-(4-phenylphenyl)pyrrolo[2,3-d]pyrimidin-7-yl]-3,9,12,18-tetrakis(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13,16-hexaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-1~{H}-purin-6-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 2-azanyl-9-[(1~{R},6~{R},8~{R},9~{R},10~{S},15~{R},17~{R},18~{R})-8-[4-azanyl-5-(4-phenylphenyl)pyrrolo[2,3-d]pyrimidin-7-yl]-3,9,12,18-tetrakis(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13,16-hexaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.2.1.0^{6,10}]octadecan-17-yl]-1~{H}-purin-6-one # 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 C47 C48 KWO doub 173 n y C47 C46 KWO sing 174 n y O32 P11 KWO doub 175 n n O33 P11 KWO sing 176 n n C48 C43 KWO sing 177 n y C46 C45 KWO doub 178 n y P11 O10 KWO sing 179 n n P11 O12 KWO sing 180 n n C43 C42 KWO sing 181 n n C43 C44 KWO doub 182 n y O34 C08 KWO sing 183 n n O34 C35 KWO sing 184 n n C41 C42 KWO doub 185 n y C41 C40 KWO sing 186 n y C45 C44 KWO sing 187 n y C42 C49 KWO sing 188 n y C09 O10 KWO sing 189 n n C09 C08 KWO sing 190 n n C40 C39 KWO doub 191 n y C49 C50 KWO doub 192 n y C39 C50 KWO sing 193 n y C39 C38 KWO sing 194 n n C37 C38 KWO doub 195 n y C37 N36 KWO sing 196 n y C08 C03 KWO sing 197 n n C38 C51 KWO sing 198 n y C35 N36 KWO sing 199 n n C35 C02 KWO sing 200 n n N36 C52 KWO sing 201 n y O12 C13 KWO sing 202 n n C51 C52 KWO doub 203 n y C51 C56 KWO sing 204 n y C52 N53 KWO sing 205 n y N57 C56 KWO sing 206 n n C56 N55 KWO doub 207 n y N53 C54 KWO doub 208 n y O15 C14 KWO sing 209 n n N55 C54 KWO sing 210 n y N28 C27 KWO sing 211 n n C03 C02 KWO sing 212 n n C03 O04 KWO sing 213 n n C02 O01 KWO sing 214 n n C13 C14 KWO sing 215 n n C13 C20 KWO sing 216 n n C27 N26 KWO doub 217 n n C27 N29 KWO sing 218 n n C14 C16 KWO sing 219 n n N26 C25 KWO sing 220 n n N29 C30 KWO sing 221 n n O04 P05 KWO sing 222 n n C20 N21 KWO sing 223 n n C20 O19 KWO sing 224 n n C25 N21 KWO sing 225 n y C25 C24 KWO doub 226 n y C30 C24 KWO sing 227 n n C30 O31 KWO doub 228 n n N21 C22 KWO sing 229 n y C24 N23 KWO sing 230 n y C16 O19 KWO sing 231 n n C16 C17 KWO sing 232 n n C22 N23 KWO doub 233 n y O18 P05 KWO sing 234 n n O18 C17 KWO sing 235 n n P05 O06 KWO doub 236 n n P05 O07 KWO sing 237 n n C13 H1 KWO sing 238 n n C17 H2 KWO sing 239 n n C17 H3 KWO sing 240 n n C20 H4 KWO sing 241 n n C22 H5 KWO sing 242 n n C02 H6 KWO sing 243 n n C03 H7 KWO sing 244 n n C08 H8 KWO sing 245 n n C09 H9 KWO sing 246 n n C09 H10 KWO sing 247 n n C14 H11 KWO sing 248 n n C16 H12 KWO sing 249 n n C35 H13 KWO sing 250 n n C37 H14 KWO sing 251 n n C40 H15 KWO sing 252 n n C41 H16 KWO sing 253 n n C44 H17 KWO sing 254 n n C45 H18 KWO sing 255 n n C46 H19 KWO sing 256 n n C47 H20 KWO sing 257 n n C48 H21 KWO sing 258 n n C49 H22 KWO sing 259 n n C50 H23 KWO sing 260 n n C54 H24 KWO sing 261 n n N28 H25 KWO sing 262 n n N28 H26 KWO sing 263 n n N29 H27 KWO sing 264 n n N57 H28 KWO sing 265 n n N57 H29 KWO sing 266 n n O01 H30 KWO sing 267 n n O07 H31 KWO sing 268 n n O15 H32 KWO sing 269 n n O33 H33 KWO sing 270 n n # _atom_sites.entry_id 8A2J _atom_sites.fract_transf_matrix[1][1] 0.010606 _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] 0.008554 _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] 0.027793 _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 2 KWO B 1 401 401 KWO LIG . D 3 HOH A 1 401 37 HOH HOH . D 3 HOH A 2 402 48 HOH HOH . D 3 HOH A 3 403 27 HOH HOH . D 3 HOH A 4 404 123 HOH HOH . D 3 HOH A 5 405 26 HOH HOH . D 3 HOH A 6 406 7 HOH HOH . D 3 HOH A 7 407 63 HOH HOH . D 3 HOH A 8 408 34 HOH HOH . D 3 HOH A 9 409 13 HOH HOH . D 3 HOH A 10 410 36 HOH HOH . D 3 HOH A 11 411 4 HOH HOH . D 3 HOH A 12 412 31 HOH HOH . D 3 HOH A 13 413 68 HOH HOH . D 3 HOH A 14 414 131 HOH HOH . D 3 HOH A 15 415 59 HOH HOH . D 3 HOH A 16 416 132 HOH HOH . D 3 HOH A 17 417 9 HOH HOH . D 3 HOH A 18 418 114 HOH HOH . D 3 HOH A 19 419 16 HOH HOH . D 3 HOH A 20 420 3 HOH HOH . D 3 HOH A 21 421 1 HOH HOH . D 3 HOH A 22 422 12 HOH HOH . D 3 HOH A 23 423 83 HOH HOH . D 3 HOH A 24 424 10 HOH HOH . D 3 HOH A 25 425 84 HOH HOH . D 3 HOH A 26 426 42 HOH HOH . D 3 HOH A 27 427 20 HOH HOH . D 3 HOH A 28 428 89 HOH HOH . D 3 HOH A 29 429 2 HOH HOH . D 3 HOH A 30 430 21 HOH HOH . D 3 HOH A 31 431 6 HOH HOH . D 3 HOH A 32 432 130 HOH HOH . D 3 HOH A 33 433 39 HOH HOH . D 3 HOH A 34 434 15 HOH HOH . D 3 HOH A 35 435 58 HOH HOH . D 3 HOH A 36 436 19 HOH HOH . D 3 HOH A 37 437 56 HOH HOH . D 3 HOH A 38 438 45 HOH HOH . D 3 HOH A 39 439 5 HOH HOH . D 3 HOH A 40 440 118 HOH HOH . D 3 HOH A 41 441 126 HOH HOH . D 3 HOH A 42 442 104 HOH HOH . D 3 HOH A 43 443 40 HOH HOH . D 3 HOH A 44 444 67 HOH HOH . D 3 HOH A 45 445 78 HOH HOH . D 3 HOH A 46 446 112 HOH HOH . D 3 HOH A 47 447 103 HOH HOH . D 3 HOH A 48 448 96 HOH HOH . D 3 HOH A 49 449 43 HOH HOH . D 3 HOH A 50 450 14 HOH HOH . D 3 HOH A 51 451 122 HOH HOH . D 3 HOH A 52 452 86 HOH HOH . D 3 HOH A 53 453 22 HOH HOH . D 3 HOH A 54 454 98 HOH HOH . D 3 HOH A 55 455 125 HOH HOH . D 3 HOH A 56 456 66 HOH HOH . D 3 HOH A 57 457 25 HOH HOH . E 3 HOH B 1 501 85 HOH HOH . E 3 HOH B 2 502 46 HOH HOH . E 3 HOH B 3 503 119 HOH HOH . E 3 HOH B 4 504 51 HOH HOH . E 3 HOH B 5 505 17 HOH HOH . E 3 HOH B 6 506 49 HOH HOH . E 3 HOH B 7 507 47 HOH HOH . E 3 HOH B 8 508 38 HOH HOH . E 3 HOH B 9 509 18 HOH HOH . E 3 HOH B 10 510 35 HOH HOH . E 3 HOH B 11 511 87 HOH HOH . E 3 HOH B 12 512 32 HOH HOH . E 3 HOH B 13 513 74 HOH HOH . E 3 HOH B 14 514 11 HOH HOH . E 3 HOH B 15 515 57 HOH HOH . E 3 HOH B 16 516 60 HOH HOH . E 3 HOH B 17 517 8 HOH HOH . E 3 HOH B 18 518 29 HOH HOH . E 3 HOH B 19 519 50 HOH HOH . E 3 HOH B 20 520 64 HOH HOH . E 3 HOH B 21 521 41 HOH HOH . E 3 HOH B 22 522 71 HOH HOH . E 3 HOH B 23 523 54 HOH HOH . E 3 HOH B 24 524 24 HOH HOH . E 3 HOH B 25 525 23 HOH HOH . E 3 HOH B 26 526 30 HOH HOH . E 3 HOH B 27 527 44 HOH HOH . E 3 HOH B 28 528 33 HOH HOH . E 3 HOH B 29 529 82 HOH HOH . E 3 HOH B 30 530 52 HOH HOH . E 3 HOH B 31 531 92 HOH HOH . E 3 HOH B 32 532 69 HOH HOH . E 3 HOH B 33 533 73 HOH HOH . E 3 HOH B 34 534 53 HOH HOH . E 3 HOH B 35 535 105 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 C13 KWO . . . C 2 3.914 -34.462 -2.996 1 45.92 ? C13 KWO 401 B 1 HETATM 2 C C17 KWO . . . C 2 5.824 -34.016 -0.569 1 43.12 ? C17 KWO 401 B 1 HETATM 3 C C20 KWO . . . C 2 3.044 -35.197 -2.035 1 45.01 ? C20 KWO 401 B 1 HETATM 4 C C22 KWO . . . C 2 1.854 -33.152 -1.227 1 52.65 ? C22 KWO 401 B 1 HETATM 5 C C24 KWO . . . C 2 -0.179 -33.747 -1.647 1 49.49 ? C24 KWO 401 B 1 HETATM 6 C C02 KWO . . . C 2 5.536 -29.011 -3.08 1 47.22 ? C02 KWO 401 B 1 HETATM 7 C C03 KWO . . . C 2 5.676 -30.458 -3.152 1 43.64 ? C03 KWO 401 B 1 HETATM 8 C C08 KWO . . . C 2 6.278 -30.666 -4.498 1 44.06 ? C08 KWO 401 B 1 HETATM 9 C C09 KWO . . . C 2 6.108 -32.061 -5.093 1 40.23 ? C09 KWO 401 B 1 HETATM 10 C C14 KWO . . . C 2 5.264 -34.884 -2.748 1 46.08 ? C14 KWO 401 B 1 HETATM 11 C C16 KWO . . . C 2 5.239 -35.161 -1.267 1 42.57 ? C16 KWO 401 B 1 HETATM 12 C C25 KWO . . . C 2 0.651 -34.759 -2.017 1 51.3 ? C25 KWO 401 B 1 HETATM 13 C C27 KWO . . . C 2 -1.288 -36.158 -2.778 1 57.16 ? C27 KWO 401 B 1 HETATM 14 C C30 KWO . . . C 2 -1.675 -33.887 -1.832 1 46.18 ? C30 KWO 401 B 1 HETATM 15 C C35 KWO . . . C 2 4.966 -28.707 -4.419 1 45.86 ? C35 KWO 401 B 1 HETATM 16 C C37 KWO . . . C 2 2.947 -29.941 -4.65 1 52.94 ? C37 KWO 401 B 1 HETATM 17 C C38 KWO . . . C 2 1.596 -29.741 -4.49 1 53.16 ? C38 KWO 401 B 1 HETATM 18 C C39 KWO . . . C 2 0.595 -30.843 -4.736 1 55.72 ? C39 KWO 401 B 1 HETATM 19 C C40 KWO . . . C 2 -0.744 -30.627 -5.027 1 63.14 ? C40 KWO 401 B 1 HETATM 20 C C41 KWO . . . C 2 -1.584 -31.701 -5.237 1 58.57 ? C41 KWO 401 B 1 HETATM 21 C C42 KWO . . . C 2 -1.027 -32.94 -5.145 1 55.43 ? C42 KWO 401 B 1 HETATM 22 C C43 KWO . . . C 2 -1.85 -34.14 -5.388 1 68.37 ? C43 KWO 401 B 1 HETATM 23 C C44 KWO . . . C 2 -3.128 -34.165 -4.925 1 78.8 ? C44 KWO 401 B 1 HETATM 24 C C45 KWO . . . C 2 -3.848 -35.288 -5.177 1 80.97 ? C45 KWO 401 B 1 HETATM 25 C C46 KWO . . . C 2 -3.311 -36.353 -5.892 1 75.16 ? C46 KWO 401 B 1 HETATM 26 C C47 KWO . . . C 2 -2.029 -36.286 -6.369 1 65.42 ? C47 KWO 401 B 1 HETATM 27 C C48 KWO . . . C 2 -1.293 -35.169 -6.113 1 70.15 ? C48 KWO 401 B 1 HETATM 28 C C49 KWO . . . C 2 0.282 -33.158 -4.852 1 55.91 ? C49 KWO 401 B 1 HETATM 29 C C50 KWO . . . C 2 1.097 -32.101 -4.636 1 52.58 ? C50 KWO 401 B 1 HETATM 30 C C51 KWO . . . C 2 1.375 -28.422 -4.106 1 52.84 ? C51 KWO 401 B 1 HETATM 31 C C52 KWO . . . C 2 2.629 -27.872 -4.033 1 51.29 ? C52 KWO 401 B 1 HETATM 32 C C54 KWO . . . C 2 1.64 -25.86 -3.405 1 49.68 ? C54 KWO 401 B 1 HETATM 33 C C56 KWO . . . C 2 0.237 -27.623 -3.811 1 53.09 ? C56 KWO 401 B 1 HETATM 34 N N21 KWO . . . C 2 1.891 -34.397 -1.759 1 48.61 ? N21 KWO 401 B 1 HETATM 35 N N23 KWO . . . C 2 0.562 -32.751 -1.156 1 49.84 ? N23 KWO 401 B 1 HETATM 36 N N26 KWO . . . C 2 0.137 -36.017 -2.598 1 60.93 ? N26 KWO 401 B 1 HETATM 37 N N28 KWO . . . C 2 -1.743 -37.409 -3.35 1 57.37 ? N28 KWO 401 B 1 HETATM 38 N N29 KWO . . . C 2 -2.169 -35.081 -2.386 1 49.61 ? N29 KWO 401 B 1 HETATM 39 N N36 KWO . . . C 2 3.566 -28.825 -4.362 1 49.43 ? N36 KWO 401 B 1 HETATM 40 N N53 KWO . . . C 2 2.725 -26.567 -3.68 1 52.34 ? N53 KWO 401 B 1 HETATM 41 N N55 KWO . . . C 2 0.412 -26.37 -3.464 1 48.83 ? N55 KWO 401 B 1 HETATM 42 N N57 KWO . . . C 2 -1.104 -28.169 -3.867 1 55.9 ? N57 KWO 401 B 1 HETATM 43 O O01 KWO . . . C 2 6.797 -28.32 -2.975 1 53.11 ? O01 KWO 401 B 1 HETATM 44 O O04 KWO . . . C 2 6.528 -30.886 -2.106 1 46.24 ? O04 KWO 401 B 1 HETATM 45 O O06 KWO . . . C 2 4.882 -30.343 -0.09 1 46.12 -1 O06 KWO 401 B 1 HETATM 46 O O07 KWO . . . C 2 6.968 -31.646 0.155 1 40.38 ? O07 KWO 401 B 1 HETATM 47 O O10 KWO . . . C 2 4.759 -32.436 -5.074 1 44.71 ? O10 KWO 401 B 1 HETATM 48 O O12 KWO . . . C 2 3.577 -34.816 -4.311 1 45.95 ? O12 KWO 401 B 1 HETATM 49 O O15 KWO . . . C 2 5.581 -36.034 -3.536 1 53.49 ? O15 KWO 401 B 1 HETATM 50 O O18 KWO . . . C 2 5.052 -32.865 -0.771 1 42.77 ? O18 KWO 401 B 1 HETATM 51 O O19 KWO . . . C 2 3.813 -35.338 -0.879 1 38.75 ? O19 KWO 401 B 1 HETATM 52 O O31 KWO . . . C 2 -2.399 -32.996 -1.509 1 47.11 ? O31 KWO 401 B 1 HETATM 53 O O32 KWO . . . C 2 5.218 -34.715 -6.303 1 51.53 -1 O32 KWO 401 B 1 HETATM 54 O O33 KWO . . . C 2 2.997 -33.841 -6.263 1 47.53 ? O33 KWO 401 B 1 HETATM 55 O O34 KWO . . . C 2 5.604 -29.663 -5.293 1 41.74 ? O34 KWO 401 B 1 HETATM 56 P P05 KWO . . . C 2 5.783 -31.379 -0.705 1 44.29 ? P05 KWO 401 B 1 HETATM 57 P P11 KWO . . . C 2 4.244 -33.959 -5.469 1 46.83 ? P11 KWO 401 B 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 57 #