data_6RG9 # _model_server_result.job_id u1CEoPLPfjWQulloRcb5xQ _model_server_result.datetime_utc '2024-11-13 00:22:02' _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 6rg9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6RG9 # _exptl.entry_id 6RG9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 570.515 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2~{R},3~{R},4~{S},5~{R})-2-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy]prop-1-ynyl]-6-azanyl-purin-9-yl]-5-(hydroxymethyl)oxolane-3,4-diol _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 6RG9 _cell.length_a 63.253 _cell.length_b 75.003 _cell.length_c 119.269 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RG9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D 1 1 A,B,C,D 1 2 A,B,C,D 1 3 A,B,C,D 1 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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 63.253 0 0 3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 63.253 0 0 4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 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 'C23 H26 N10 O8' _chem_comp.formula_weight 570.515 _chem_comp.id K3K _chem_comp.mon_nstd_flag . _chem_comp.name (2~{R},3~{R},4~{S},5~{R})-2-[8-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy]prop-1-ynyl]-6-azanyl-purin-9-yl]-5-(hydroxymethyl)oxolane-3,4-diol _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 N1B C1B K3K sing 193 n n N7B C6B K3K sing 194 n y N7B C8B K3K doub 195 n y C1B C6B K3K doub 196 n y C1B N2B K3K sing 197 n y C6B C5B K3K sing 198 n y C8B N9B K3K sing 199 n y N2B C3B K3K doub 200 n y C2P O2P K3K sing 201 n n C2P C3P K3K sing 202 n n C2P C1P K3K sing 203 n n O3P C3P K3K sing 204 n n C5B N9B K3K sing 205 n y C5B N4B K3K doub 206 n y C3P C4P K3K sing 207 n n N9B C1P K3K sing 208 n n C3B N4B K3K sing 209 n y C1P O4P K3K sing 210 n n O4P C4P K3K sing 211 n n C4P C5P K3K sing 212 n n C5P O5P K3K sing 213 n n N6 C6 K3K sing 214 n n C6 N1 K3K doub 215 n y C6 C5 K3K sing 216 n y O5P C83 K3K sing 217 n n N1 C2 K3K sing 218 n y N7 C5 K3K sing 219 n y N7 C8 K3K doub 220 n y C5 C4 K3K doub 221 n y O5' C5' K3K sing 222 n n C8 C81 K3K sing 223 n n C8 N9 K3K sing 224 n y C81 C82 K3K trip 225 n n C82 C83 K3K sing 226 n n C2 N3 K3K doub 227 n y C4 N9 K3K sing 228 n y C4 N3 K3K sing 229 n y O4' C4' K3K sing 230 n n O4' C1' K3K sing 231 n n C5' C4' K3K sing 232 n n N9 C1' K3K sing 233 n n C4' C3' K3K sing 234 n n C1' C2' K3K sing 235 n n C2' C3' K3K sing 236 n n C2' O2' K3K sing 237 n n C3' O3' K3K sing 238 n n C2 H1 K3K sing 239 n n N6 H2 K3K sing 240 n n N6 H3 K3K sing 241 n n C1' H4 K3K sing 242 n n C1P H5 K3K sing 243 n n C2' H6 K3K sing 244 n n C2P H7 K3K sing 245 n n C3' H8 K3K sing 246 n n C3B H9 K3K sing 247 n n C3P H10 K3K sing 248 n n C4' H11 K3K sing 249 n n C4P H12 K3K sing 250 n n C5' H13 K3K sing 251 n n C5' H14 K3K sing 252 n n C5P H15 K3K sing 253 n n C5P H16 K3K sing 254 n n C83 H17 K3K sing 255 n n C83 H18 K3K sing 256 n n C8B H19 K3K sing 257 n n N1B H20 K3K sing 258 n n N1B H21 K3K sing 259 n n O2' H22 K3K sing 260 n n O2P H23 K3K sing 261 n n O3' H24 K3K sing 262 n n O3P H25 K3K sing 263 n n O5' H26 K3K sing 264 n n # _atom_sites.entry_id 6RG9 _atom_sites.fract_transf_matrix[1][1] 0.01581 _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] 0.013333 _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] 0.008384 _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 K3K A 1 301 1 K3K BCO . C 3 CIT A 1 302 1 CIT CIT . D 4 HOH A 1 401 19 HOH HOH . D 4 HOH A 2 402 108 HOH HOH . D 4 HOH A 3 403 14 HOH HOH . D 4 HOH A 4 404 22 HOH HOH . D 4 HOH A 5 405 13 HOH HOH . D 4 HOH A 6 406 120 HOH HOH . D 4 HOH A 7 407 39 HOH HOH . D 4 HOH A 8 408 15 HOH HOH . D 4 HOH A 9 409 151 HOH HOH . D 4 HOH A 10 410 4 HOH HOH . D 4 HOH A 11 411 12 HOH HOH . D 4 HOH A 12 412 24 HOH HOH . D 4 HOH A 13 413 37 HOH HOH . D 4 HOH A 14 414 127 HOH HOH . D 4 HOH A 15 415 30 HOH HOH . D 4 HOH A 16 416 153 HOH HOH . D 4 HOH A 17 417 3 HOH HOH . D 4 HOH A 18 418 47 HOH HOH . D 4 HOH A 19 419 26 HOH HOH . D 4 HOH A 20 420 2 HOH HOH . D 4 HOH A 21 421 31 HOH HOH . D 4 HOH A 22 422 18 HOH HOH . D 4 HOH A 23 423 21 HOH HOH . D 4 HOH A 24 424 51 HOH HOH . D 4 HOH A 25 425 25 HOH HOH . D 4 HOH A 26 426 1 HOH HOH . D 4 HOH A 27 427 97 HOH HOH . D 4 HOH A 28 428 38 HOH HOH . D 4 HOH A 29 429 28 HOH HOH . D 4 HOH A 30 430 16 HOH HOH . D 4 HOH A 31 431 41 HOH HOH . D 4 HOH A 32 432 35 HOH HOH . D 4 HOH A 33 433 17 HOH HOH . D 4 HOH A 34 434 23 HOH HOH . D 4 HOH A 35 435 11 HOH HOH . D 4 HOH A 36 436 115 HOH HOH . D 4 HOH A 37 437 154 HOH HOH . D 4 HOH A 38 438 155 HOH HOH . D 4 HOH A 39 439 7 HOH HOH . D 4 HOH A 40 440 81 HOH HOH . D 4 HOH A 41 441 29 HOH HOH . D 4 HOH A 42 442 5 HOH HOH . D 4 HOH A 43 443 27 HOH HOH . D 4 HOH A 44 444 125 HOH HOH . D 4 HOH A 45 445 156 HOH HOH . D 4 HOH A 46 446 52 HOH HOH . D 4 HOH A 47 447 20 HOH HOH . D 4 HOH A 48 448 9 HOH HOH . D 4 HOH A 49 449 10 HOH HOH . D 4 HOH A 50 450 50 HOH HOH . D 4 HOH A 51 451 94 HOH HOH . D 4 HOH A 52 452 86 HOH HOH . D 4 HOH A 53 453 123 HOH HOH . D 4 HOH A 54 454 129 HOH HOH . D 4 HOH A 55 455 158 HOH HOH . D 4 HOH A 56 456 40 HOH HOH . D 4 HOH A 57 457 61 HOH HOH . D 4 HOH A 58 458 152 HOH HOH . D 4 HOH A 59 459 60 HOH HOH . D 4 HOH A 60 460 70 HOH HOH . D 4 HOH A 61 461 136 HOH HOH . D 4 HOH A 62 462 160 HOH HOH . D 4 HOH A 63 463 110 HOH HOH . D 4 HOH A 64 464 58 HOH HOH . D 4 HOH A 65 465 111 HOH HOH . D 4 HOH A 66 466 109 HOH HOH . D 4 HOH A 67 467 139 HOH HOH . D 4 HOH A 68 468 118 HOH HOH . D 4 HOH A 69 469 96 HOH HOH . D 4 HOH A 70 470 124 HOH HOH . D 4 HOH A 71 471 157 HOH HOH . D 4 HOH A 72 472 145 HOH HOH . D 4 HOH A 73 473 159 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 C C2 K3K . . . B 2 22.701 11.534 12.833 1 28.68 ? C2 K3K 301 A 1 HETATM 2 C C4 K3K . . . B 2 20.545 11.104 12.949 1 30.97 ? C4 K3K 301 A 1 HETATM 3 N N1 K3K . . . B 2 22.504 12.616 12.162 1 29.18 ? N1 K3K 301 A 1 HETATM 4 C C8 K3K . . . B 2 18.464 11.308 12.717 1 30.98 ? C8 K3K 301 A 1 HETATM 5 C C6 K3K . . . B 2 21.299 13.04 11.887 1 29.93 ? C6 K3K 301 A 1 HETATM 6 N N3 K3K . . . B 2 21.759 10.767 13.225 1 28.81 ? N3 K3K 301 A 1 HETATM 7 C C5 K3K . . . B 2 20.271 12.254 12.272 1 31.19 ? C5 K3K 301 A 1 HETATM 8 N N6 K3K . . . B 2 21.131 14.161 11.253 1 29.96 ? N6 K3K 301 A 1 HETATM 9 N N7 K3K . . . B 2 18.994 12.316 12.169 1 31.43 ? N7 K3K 301 A 1 HETATM 10 C C1' K3K . . . B 2 19.38 9.283 13.91 1 34.69 ? C1' K3K 301 A 1 HETATM 11 C C1B K3K . . . B 2 18.463 4.084 7.382 1 32.51 ? C1B K3K 301 A 1 HETATM 12 C C1P K3K . . . B 2 16.917 8.319 8.966 1 32.1 ? C1P K3K 301 A 1 HETATM 13 C C2' K3K . . . B 2 18.384 9.109 15.024 1 35.45 ? C2' K3K 301 A 1 HETATM 14 C C2P K3K . . . B 2 16.781 9.457 7.941 1 31.27 ? C2P K3K 301 A 1 HETATM 15 C C3' K3K . . . B 2 18.472 7.642 15.086 1 36.35 ? C3' K3K 301 A 1 HETATM 16 C C3B K3K . . . B 2 19.947 5.307 8.481 1 32.5 ? C3B K3K 301 A 1 HETATM 17 C C3P K3K . . . B 2 15.479 10.11 8.324 1 30.84 ? C3P K3K 301 A 1 HETATM 18 C C4' K3K . . . B 2 18.722 7.304 13.618 1 35.93 ? C4' K3K 301 A 1 HETATM 19 C C4P K3K . . . B 2 15.452 9.777 9.812 1 31.75 ? C4P K3K 301 A 1 HETATM 20 C C5' K3K . . . B 2 17.557 6.535 13.101 1 37.32 ? C5' K3K 301 A 1 HETATM 21 C C5B K3K . . . B 2 17.925 6.186 8.234 1 33.13 ? C5B K3K 301 A 1 HETATM 22 C C5P K3K . . . B 2 14.093 9.965 10.536 1 31.82 ? C5P K3K 301 A 1 HETATM 23 C C6B K3K . . . B 2 17.556 5.079 7.575 1 32.56 ? C6B K3K 301 A 1 HETATM 24 C C81 K3K . . . B 2 17.09 11.111 12.729 1 31.33 ? C81 K3K 301 A 1 HETATM 25 C C82 K3K . . . B 2 15.937 10.91 12.761 1 31.58 ? C82 K3K 301 A 1 HETATM 26 C C83 K3K . . . B 2 14.509 10.601 12.824 1 32.25 ? C83 K3K 301 A 1 HETATM 27 C C8B K3K . . . B 2 15.943 6.441 7.686 1 33.02 ? C8B K3K 301 A 1 HETATM 28 N N1B K3K . . . B 2 18.202 3.015 6.749 1 31.65 ? N1B K3K 301 A 1 HETATM 29 N N2B K3K . . . B 2 19.657 4.244 7.857 1 32.6 ? N2B K3K 301 A 1 HETATM 30 N N4B K3K . . . B 2 19.125 6.25 8.672 1 32.61 ? N4B K3K 301 A 1 HETATM 31 N N7B K3K . . . B 2 16.329 5.273 7.249 1 33.19 ? N7B K3K 301 A 1 HETATM 32 N N9 K3K . . . B 2 19.424 10.547 13.211 1 32.46 ? N9 K3K 301 A 1 HETATM 33 N N9B K3K . . . B 2 16.923 6.996 8.326 1 32.84 ? N9B K3K 301 A 1 HETATM 34 O O2' K3K . . . B 2 18.933 9.562 16.205 1 36.03 ? O2' K3K 301 A 1 HETATM 35 O O2P K3K . . . B 2 17.836 10.34 8.028 1 30.97 ? O2P K3K 301 A 1 HETATM 36 O O3' K3K . . . B 2 19.656 7.354 15.777 1 37.16 ? O3' K3K 301 A 1 HETATM 37 O O3P K3K . . . B 2 15.416 11.478 8.091 1 29.98 ? O3P K3K 301 A 1 HETATM 38 O O4' K3K . . . B 2 18.833 8.503 13.021 1 34.71 ? O4' K3K 301 A 1 HETATM 39 O O4P K3K . . . B 2 15.792 8.444 9.773 1 32.01 ? O4P K3K 301 A 1 HETATM 40 O O5' K3K . . . B 2 16.517 7.347 12.635 1 38.28 ? O5' K3K 301 A 1 HETATM 41 O O5P K3K . . . B 2 14.048 9.571 11.893 1 32.54 ? O5P K3K 301 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 41 #