data_3RQH # _model_server_result.job_id WEPcfAh7m70dwTMh8KgeKA _model_server_result.datetime_utc '2024-11-22 09:51:00' _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 3rqh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":279}' # _entry.id 3RQH # _exptl.entry_id 3RQH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 996.347 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "P1,P6-Di(adenosine-5') hexaphosphate" _entity.pdbx_number_of_molecules 2 _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 3RQH _cell.length_a 91.75 _cell.length_b 91.75 _cell.length_c 169.703 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RQH _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 B MG MG . A MG 277 1_555 C O2A B6P . A B6P 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? metalc ? metalc2 B MG MG . A MG 277 1_555 C O1B B6P . A B6P 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.933 ? metalc ? metalc3 B MG MG . A MG 277 1_555 E O HOH . A HOH 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc4 B MG MG . A MG 277 1_555 E O HOH . A HOH 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? # _chem_comp.formula 'C20 H30 N10 O25 P6' _chem_comp.formula_weight 996.347 _chem_comp.id B6P _chem_comp.mon_nstd_flag . _chem_comp.name "P1,P6-Di(adenosine-5') hexaphosphate" _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 C6 N1 B6P doub 70 n y C2 N1 B6P sing 71 n y N3 C2 B6P doub 72 n y C2 H2 B6P sing 73 n n C4 N3 B6P sing 74 n y N9 C4 B6P sing 75 n y C4 C5 B6P doub 76 n y N7 C5 B6P sing 77 n y C5 C6 B6P sing 78 n y C6 N6 B6P sing 79 n n N6 HN6 B6P sing 80 n n N6 HN6A B6P sing 81 n n C8 N7 B6P doub 82 n y C8 N9 B6P sing 83 n y C8 H8 B6P sing 84 n n C11 N9 B6P sing 85 n n O2A PA B6P doub 86 n n O3A PA B6P sing 87 n n PA O1A B6P sing 88 n n PA O51 B6P sing 89 n n O1B PB B6P doub 90 n n O3B PB B6P sing 91 n n PB O2B B6P sing 92 n n PB O3A B6P sing 93 n n O2D PD B6P doub 94 n n O1D PD B6P sing 95 n n PD O3D B6P sing 96 n n PD O3G B6P sing 97 n n O3E PE B6P sing 98 n n O1E PE B6P doub 99 n n PE O3D B6P sing 100 n n PE O2E B6P sing 101 n n O3G PG B6P sing 102 n n O2G PG B6P doub 103 n n PG O1G B6P sing 104 n n PG O3B B6P sing 105 n n O52 PZ B6P sing 106 n n O2Z PZ B6P doub 107 n n PZ O1Z B6P sing 108 n n PZ O3E B6P sing 109 n n O41 C11 B6P sing 110 n n C21 C11 B6P sing 111 n n C11 H11 B6P sing 112 n n C22 C12 B6P sing 113 n n C12 N9Y B6P sing 114 n n C12 O42 B6P sing 115 n n C12 H12 B6P sing 116 n n O1A HO1A B6P sing 117 n n O1D HO1D B6P sing 118 n n O1G HO1G B6P sing 119 n n C2Y N1Y B6P doub 120 n y N1Y C6Y B6P sing 121 n y O1Z HO1Z B6P sing 122 n n C31 C21 B6P sing 123 n n C21 O21 B6P sing 124 n n C21 H21 B6P sing 125 n n O21 HO21 B6P sing 126 n n O22 C22 B6P sing 127 n n C22 C32 B6P sing 128 n n C22 H22 B6P sing 129 n n O22 HO22 B6P sing 130 n n O2B HO2B B6P sing 131 n n O2E HO2E B6P sing 132 n n C2Y N3Y B6P sing 133 n y C2Y H2Y B6P sing 134 n n C41 C31 B6P sing 135 n n C31 O31 B6P sing 136 n n C31 H31 B6P sing 137 n n O31 HO31 B6P sing 138 n n O32 C32 B6P sing 139 n n C32 C42 B6P sing 140 n n C32 H32 B6P sing 141 n n O32 HO32 B6P sing 142 n n N3Y C4Y B6P doub 143 n y C51 C41 B6P sing 144 n n C41 O41 B6P sing 145 n n C41 H41 B6P sing 146 n n O42 C42 B6P sing 147 n n C42 C52 B6P sing 148 n n C42 H42 B6P sing 149 n n C4Y N9Y B6P sing 150 n y C4Y C5Y B6P sing 151 n y O51 C51 B6P sing 152 n n C51 H51 B6P sing 153 n n C51 H51A B6P sing 154 n n O52 C52 B6P sing 155 n n C52 H52 B6P sing 156 n n C52 H52A B6P sing 157 n n C6Y C5Y B6P doub 158 n y C5Y N7Y B6P sing 159 n y C6Y N6Y B6P sing 160 n n N6Y HN6Y B6P sing 161 n n N6Y HN6B B6P sing 162 n n C8Y N7Y B6P doub 163 n y N9Y C8Y B6P sing 164 n y C8Y H8Y B6P sing 165 n n # _atom_sites.entry_id 3RQH _atom_sites.fract_transf_matrix[1][1] 0.010899 _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] 0.010899 _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] 0.005893 _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 MG A 1 277 1 MG MG . C 3 B6P A 1 278 2 B6P B6P . D 3 B6P A 1 279 3 B6P B6P . E 4 HOH A 1 280 1 HOH HOH . E 4 HOH A 2 281 2 HOH HOH . E 4 HOH A 3 282 3 HOH HOH . E 4 HOH A 4 283 4 HOH HOH . E 4 HOH A 5 284 5 HOH HOH . E 4 HOH A 6 285 6 HOH HOH . E 4 HOH A 7 286 7 HOH HOH . E 4 HOH A 8 287 8 HOH HOH . E 4 HOH A 9 288 9 HOH HOH . E 4 HOH A 10 289 10 HOH HOH . E 4 HOH A 11 290 11 HOH HOH . E 4 HOH A 12 291 12 HOH HOH . E 4 HOH A 13 292 13 HOH HOH . E 4 HOH A 14 293 14 HOH HOH . E 4 HOH A 15 294 15 HOH HOH . E 4 HOH A 16 295 16 HOH HOH . E 4 HOH A 17 296 17 HOH HOH . E 4 HOH A 18 297 18 HOH HOH . E 4 HOH A 19 298 19 HOH HOH . E 4 HOH A 20 299 20 HOH HOH . E 4 HOH A 21 300 21 HOH HOH . E 4 HOH A 22 301 22 HOH HOH . E 4 HOH A 23 302 23 HOH HOH . E 4 HOH A 24 303 24 HOH HOH . E 4 HOH A 25 304 25 HOH HOH . E 4 HOH A 26 305 26 HOH HOH . E 4 HOH A 27 306 27 HOH HOH . E 4 HOH A 28 307 28 HOH HOH . E 4 HOH A 29 308 29 HOH HOH . E 4 HOH A 30 309 30 HOH HOH . E 4 HOH A 31 310 31 HOH HOH . E 4 HOH A 32 311 32 HOH HOH . E 4 HOH A 33 312 33 HOH HOH . E 4 HOH A 34 313 34 HOH HOH . E 4 HOH A 35 314 35 HOH HOH . E 4 HOH A 36 315 36 HOH HOH . E 4 HOH A 37 316 37 HOH HOH . E 4 HOH A 38 317 38 HOH HOH . E 4 HOH A 39 318 39 HOH HOH . E 4 HOH A 40 319 40 HOH HOH . E 4 HOH A 41 320 41 HOH HOH . E 4 HOH A 42 321 42 HOH HOH . E 4 HOH A 43 322 43 HOH HOH . E 4 HOH A 44 323 44 HOH HOH . E 4 HOH A 45 324 45 HOH HOH . E 4 HOH A 46 325 46 HOH HOH . E 4 HOH A 47 326 47 HOH HOH . E 4 HOH A 48 327 48 HOH HOH . E 4 HOH A 49 328 49 HOH HOH . E 4 HOH A 50 329 50 HOH HOH . E 4 HOH A 51 330 51 HOH HOH . E 4 HOH A 52 331 52 HOH HOH . E 4 HOH A 53 332 53 HOH HOH . E 4 HOH A 54 333 54 HOH HOH . E 4 HOH A 55 334 55 HOH HOH . E 4 HOH A 56 335 56 HOH HOH . E 4 HOH A 57 336 57 HOH HOH . E 4 HOH A 58 337 58 HOH HOH . E 4 HOH A 59 338 59 HOH HOH . E 4 HOH A 60 339 60 HOH HOH . E 4 HOH A 61 340 61 HOH HOH . E 4 HOH A 62 341 62 HOH HOH . E 4 HOH A 63 342 63 HOH HOH . E 4 HOH A 64 343 64 HOH HOH . E 4 HOH A 65 344 65 HOH HOH . E 4 HOH A 66 345 66 HOH HOH . E 4 HOH A 67 346 67 HOH HOH . E 4 HOH A 68 347 68 HOH HOH . E 4 HOH A 69 348 69 HOH HOH . E 4 HOH A 70 349 70 HOH HOH . E 4 HOH A 71 350 71 HOH HOH . E 4 HOH A 72 351 72 HOH HOH . E 4 HOH A 73 352 73 HOH HOH . E 4 HOH A 74 353 74 HOH HOH . E 4 HOH A 75 354 75 HOH HOH . E 4 HOH A 76 355 76 HOH HOH . E 4 HOH A 77 356 77 HOH HOH . E 4 HOH A 78 357 78 HOH HOH . E 4 HOH A 79 358 79 HOH HOH . E 4 HOH A 80 359 80 HOH HOH . E 4 HOH A 81 360 81 HOH HOH . E 4 HOH A 82 361 82 HOH HOH . E 4 HOH A 83 362 83 HOH HOH . E 4 HOH A 84 363 84 HOH HOH . E 4 HOH A 85 364 85 HOH HOH . E 4 HOH A 86 365 86 HOH HOH . E 4 HOH A 87 366 87 HOH HOH . E 4 HOH A 88 367 88 HOH HOH . E 4 HOH A 89 368 89 HOH HOH . E 4 HOH A 90 369 90 HOH HOH . E 4 HOH A 91 370 91 HOH HOH . E 4 HOH A 92 371 92 HOH HOH . E 4 HOH A 93 372 93 HOH HOH . E 4 HOH A 94 373 94 HOH HOH . E 4 HOH A 95 374 95 HOH HOH . E 4 HOH A 96 375 96 HOH HOH . E 4 HOH A 97 376 97 HOH HOH . E 4 HOH A 98 377 98 HOH HOH . E 4 HOH A 99 378 99 HOH HOH . E 4 HOH A 100 379 100 HOH HOH . E 4 HOH A 101 380 101 HOH HOH . E 4 HOH A 102 381 102 HOH HOH . E 4 HOH A 103 382 103 HOH HOH . E 4 HOH A 104 383 104 HOH HOH . E 4 HOH A 105 384 105 HOH HOH . E 4 HOH A 106 385 106 HOH HOH . E 4 HOH A 107 386 107 HOH HOH . E 4 HOH A 108 387 108 HOH HOH . E 4 HOH A 109 388 109 HOH HOH . E 4 HOH A 110 389 110 HOH HOH . E 4 HOH A 111 390 111 HOH HOH . E 4 HOH A 112 391 112 HOH HOH . E 4 HOH A 113 392 113 HOH HOH . E 4 HOH A 114 393 114 HOH HOH . E 4 HOH A 115 394 115 HOH HOH . E 4 HOH A 116 395 116 HOH HOH . E 4 HOH A 117 396 117 HOH HOH . E 4 HOH A 118 397 118 HOH HOH . E 4 HOH A 119 398 119 HOH HOH . E 4 HOH A 120 399 120 HOH HOH . E 4 HOH A 121 400 121 HOH HOH . E 4 HOH A 122 401 122 HOH HOH . E 4 HOH A 123 402 123 HOH HOH . E 4 HOH A 124 403 124 HOH HOH . E 4 HOH A 125 404 125 HOH HOH . E 4 HOH A 126 405 126 HOH HOH . E 4 HOH A 127 406 127 HOH HOH . E 4 HOH A 128 407 128 HOH HOH . E 4 HOH A 129 408 129 HOH HOH . E 4 HOH A 130 409 130 HOH HOH . E 4 HOH A 131 410 131 HOH HOH . E 4 HOH A 132 411 132 HOH HOH . E 4 HOH A 133 412 133 HOH HOH . E 4 HOH A 134 413 134 HOH HOH . E 4 HOH A 135 414 135 HOH HOH . E 4 HOH A 136 415 136 HOH HOH . E 4 HOH A 137 416 137 HOH HOH . E 4 HOH A 138 417 138 HOH HOH . E 4 HOH A 139 418 139 HOH HOH . E 4 HOH A 140 419 140 HOH HOH . E 4 HOH A 141 420 141 HOH HOH . E 4 HOH A 142 421 142 HOH HOH . E 4 HOH A 143 422 143 HOH HOH . E 4 HOH A 144 423 144 HOH HOH . E 4 HOH A 145 424 145 HOH HOH . E 4 HOH A 146 425 146 HOH HOH . E 4 HOH A 147 426 147 HOH HOH . E 4 HOH A 148 427 148 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 N N1 B6P . . . D 3 -12.904 23.416 8.182 1 50.99 ? N1 B6P 279 A 1 HETATM 2 C C2 B6P . . . D 3 -12.818 22.909 9.435 1 51.31 ? C2 B6P 279 A 1 HETATM 3 N N3 B6P . . . D 3 -12.976 21.591 9.695 1 48.77 ? N3 B6P 279 A 1 HETATM 4 C C4 B6P . . . D 3 -13.256 20.755 8.655 1 50.2 ? C4 B6P 279 A 1 HETATM 5 C C5 B6P . . . D 3 -13.346 21.259 7.35 1 49.64 ? C5 B6P 279 A 1 HETATM 6 C C6 B6P . . . D 3 -13.172 22.624 7.122 1 49.38 ? C6 B6P 279 A 1 HETATM 7 N N6 B6P . . . D 3 -13.229 23.179 5.877 1 48.29 ? N6 B6P 279 A 1 HETATM 8 N N7 B6P . . . D 3 -13.624 20.213 6.532 1 49.27 ? N7 B6P 279 A 1 HETATM 9 C C8 B6P . . . D 3 -13.704 19.108 7.309 1 50.26 ? C8 B6P 279 A 1 HETATM 10 N N9 B6P . . . D 3 -13.481 19.433 8.608 1 49.79 ? N9 B6P 279 A 1 HETATM 11 P PA B6P . . . D 3 -14.878 15.745 5.924 1 63.31 ? PA B6P 279 A 1 HETATM 12 C C11 B6P . . . D 3 -13.468 18.503 9.787 1 51.19 ? C11 B6P 279 A 1 HETATM 13 O O1A B6P . . . D 3 -15.902 14.631 6.071 1 63.49 ? O1A B6P 279 A 1 HETATM 14 C C21 B6P . . . D 3 -14.799 18.341 10.518 1 53.54 ? C21 B6P 279 A 1 HETATM 15 O O21 B6P . . . D 3 -14.629 18.686 11.916 1 54.48 ? O21 B6P 279 A 1 HETATM 16 O O2A B6P . . . D 3 -15.209 16.983 5.09 1 64.91 ? O2A B6P 279 A 1 HETATM 17 C C31 B6P . . . D 3 -15.157 16.871 10.464 1 54.4 ? C31 B6P 279 A 1 HETATM 18 O O31 B6P . . . D 3 -15.233 16.348 11.798 1 56.05 ? O31 B6P 279 A 1 HETATM 19 O O3A B6P . . . D 3 -13.434 15.218 5.361 1 65.13 ? O3A B6P 279 A 1 HETATM 20 C C41 B6P . . . D 3 -14.005 16.164 9.779 1 53.79 ? C41 B6P 279 A 1 HETATM 21 O O41 B6P . . . D 3 -13.084 17.185 9.386 1 50.41 ? O41 B6P 279 A 1 HETATM 22 C C51 B6P . . . D 3 -14.413 15.325 8.559 1 54.59 ? C51 B6P 279 A 1 HETATM 23 O O51 B6P . . . D 3 -14.604 16.219 7.459 1 60.09 ? O51 B6P 279 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 23 #