data_6RGB # _model_server_result.job_id 92EPUsDaUr0waUjWdYoOSA _model_server_result.datetime_utc '2024-11-25 00:23:44' _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 6rgb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 6RGB # _exptl.entry_id 6RGB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 569.53 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynylamino]methyl]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 6RGB _cell.length_a 62.79 _cell.length_b 75.62 _cell.length_c 118.11 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RGB _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall 'I 2 2' _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 62.79 0 0 3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 62.79 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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C23 H27 N11 O7' _chem_comp.formula_weight 569.53 _chem_comp.id K38 _chem_comp.mon_nstd_flag . _chem_comp.name (2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynylamino]methyl]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 N6 C6 K38 sing 193 n n C6 C5 K38 doub 194 n y C6 N1 K38 sing 195 n y N7 C5 K38 sing 196 n y N7 C8 K38 doub 197 n y C5 C4 K38 sing 198 n y N1 C2 K38 doub 199 n y C8 N9 K38 sing 200 n y CAG OBJ K38 sing 201 n n CAG CAH K38 sing 202 n n CAG CAF K38 sing 203 n n OBI CAH K38 sing 204 n n C4 N9 K38 sing 205 n y C4 N3 K38 doub 206 n y N9 CAF K38 sing 207 n n C2 N3 K38 sing 208 n y CAH CAI K38 sing 209 n n CAF OBH K38 sing 210 n n OBH CAI K38 sing 211 n n CAI CAJ K38 sing 212 n n CAJ NAK K38 sing 213 n n NAX CAU K38 sing 214 n n CAU NAT K38 doub 215 n y CAU CAV K38 sing 216 n y NAT CAS K38 sing 217 n y NAK CAL K38 sing 218 n n NAW CAV K38 sing 219 n y NAW CAO K38 doub 220 n y CAV CAQ K38 doub 221 n y CAS NAR K38 doub 222 n y CAO CAN K38 sing 223 n n CAO NAP K38 sing 224 n y CAN CAM K38 trip 225 n n C5' O5' K38 sing 226 n n C5' C4' K38 sing 227 n n CAQ NAR K38 sing 228 n y CAQ NAP K38 sing 229 n y CAM CAL K38 sing 230 n n O4' C4' K38 sing 231 n n O4' C1' K38 sing 232 n n NAP C1' K38 sing 233 n n C4' C3' K38 sing 234 n n C1' C2' K38 sing 235 n n C2' C3' K38 sing 236 n n C2' O2' K38 sing 237 n n C3' O3' K38 sing 238 n n C2 H1 K38 sing 239 n n C1' H2 K38 sing 240 n n C2' H3 K38 sing 241 n n C3' H4 K38 sing 242 n n C4' H5 K38 sing 243 n n C5' H6 K38 sing 244 n n C5' H7 K38 sing 245 n n C8 H8 K38 sing 246 n n CAF H9 K38 sing 247 n n CAG H10 K38 sing 248 n n CAH H11 K38 sing 249 n n CAI H12 K38 sing 250 n n CAJ H13 K38 sing 251 n n CAJ H14 K38 sing 252 n n CAL H15 K38 sing 253 n n CAL H16 K38 sing 254 n n CAS H17 K38 sing 255 n n N6 H18 K38 sing 256 n n N6 H19 K38 sing 257 n n NAK H20 K38 sing 258 n n NAX H22 K38 sing 259 n n NAX H23 K38 sing 260 n n O2' H24 K38 sing 261 n n O3' H25 K38 sing 262 n n O5' H26 K38 sing 263 n n OBI H27 K38 sing 264 n n OBJ H28 K38 sing 265 n n # _atom_sites.entry_id 6RGB _atom_sites.fract_transf_matrix[1][1] 0.015926 _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] 0.013224 _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] 0.008467 _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 CIT A 1 301 1 CIT CIT . C 3 K38 A 1 302 1 K38 BCN . D 4 HOH A 1 401 52 HOH HOH . D 4 HOH A 2 402 44 HOH HOH . D 4 HOH A 3 403 20 HOH HOH . D 4 HOH A 4 404 37 HOH HOH . D 4 HOH A 5 405 18 HOH HOH . D 4 HOH A 6 406 116 HOH HOH . D 4 HOH A 7 407 40 HOH HOH . D 4 HOH A 8 408 14 HOH HOH . D 4 HOH A 9 409 31 HOH HOH . D 4 HOH A 10 410 1 HOH HOH . D 4 HOH A 11 411 16 HOH HOH . D 4 HOH A 12 412 56 HOH HOH . D 4 HOH A 13 413 114 HOH HOH . D 4 HOH A 14 414 49 HOH HOH . D 4 HOH A 15 415 115 HOH HOH . D 4 HOH A 16 416 77 HOH HOH . D 4 HOH A 17 417 4 HOH HOH . D 4 HOH A 18 418 38 HOH HOH . D 4 HOH A 19 419 32 HOH HOH . D 4 HOH A 20 420 19 HOH HOH . D 4 HOH A 21 421 26 HOH HOH . D 4 HOH A 22 422 15 HOH HOH . D 4 HOH A 23 423 2 HOH HOH . D 4 HOH A 24 424 25 HOH HOH . D 4 HOH A 25 425 13 HOH HOH . D 4 HOH A 26 426 60 HOH HOH . D 4 HOH A 27 427 27 HOH HOH . D 4 HOH A 28 428 23 HOH HOH . D 4 HOH A 29 429 33 HOH HOH . D 4 HOH A 30 430 22 HOH HOH . D 4 HOH A 31 431 29 HOH HOH . D 4 HOH A 32 432 36 HOH HOH . D 4 HOH A 33 433 43 HOH HOH . D 4 HOH A 34 434 62 HOH HOH . D 4 HOH A 35 435 104 HOH HOH . D 4 HOH A 36 436 21 HOH HOH . D 4 HOH A 37 437 17 HOH HOH . D 4 HOH A 38 438 47 HOH HOH . D 4 HOH A 39 439 12 HOH HOH . D 4 HOH A 40 440 55 HOH HOH . D 4 HOH A 41 441 3 HOH HOH . D 4 HOH A 42 442 11 HOH HOH . D 4 HOH A 43 443 111 HOH HOH . D 4 HOH A 44 444 24 HOH HOH . D 4 HOH A 45 445 6 HOH HOH . D 4 HOH A 46 446 84 HOH HOH . D 4 HOH A 47 447 91 HOH HOH . D 4 HOH A 48 448 70 HOH HOH . D 4 HOH A 49 449 81 HOH HOH . D 4 HOH A 50 450 9 HOH HOH . D 4 HOH A 51 451 63 HOH HOH . D 4 HOH A 52 452 5 HOH HOH . D 4 HOH A 53 453 35 HOH HOH . D 4 HOH A 54 454 74 HOH HOH . D 4 HOH A 55 455 42 HOH HOH . D 4 HOH A 56 456 75 HOH HOH . D 4 HOH A 57 457 71 HOH HOH . D 4 HOH A 58 458 98 HOH HOH . D 4 HOH A 59 459 96 HOH HOH . D 4 HOH A 60 460 41 HOH HOH . D 4 HOH A 61 461 30 HOH HOH . D 4 HOH A 62 462 110 HOH HOH . D 4 HOH A 63 463 99 HOH HOH . D 4 HOH A 64 464 28 HOH HOH . D 4 HOH A 65 465 64 HOH HOH . D 4 HOH A 66 466 10 HOH HOH . D 4 HOH A 67 467 54 HOH HOH . D 4 HOH A 68 468 34 HOH HOH . D 4 HOH A 69 469 50 HOH HOH . D 4 HOH A 70 470 82 HOH HOH . D 4 HOH A 71 471 67 HOH HOH . D 4 HOH A 72 472 85 HOH HOH . D 4 HOH A 73 473 69 HOH HOH . D 4 HOH A 74 474 66 HOH HOH . D 4 HOH A 75 475 95 HOH HOH . D 4 HOH A 76 476 101 HOH HOH . D 4 HOH A 77 477 103 HOH HOH . D 4 HOH A 78 478 46 HOH HOH . D 4 HOH A 79 479 73 HOH HOH . D 4 HOH A 80 480 100 HOH HOH . D 4 HOH A 81 481 8 HOH HOH . D 4 HOH A 82 482 51 HOH HOH . D 4 HOH A 83 483 86 HOH HOH . D 4 HOH A 84 484 109 HOH HOH . D 4 HOH A 85 485 87 HOH HOH . D 4 HOH A 86 486 78 HOH HOH . D 4 HOH A 87 487 88 HOH HOH . D 4 HOH A 88 488 45 HOH HOH . D 4 HOH A 89 489 39 HOH HOH . D 4 HOH A 90 490 102 HOH HOH . D 4 HOH A 91 491 97 HOH HOH . D 4 HOH A 92 492 79 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 K38 . . . C 3 19.493 4.158 7.723 1 27.66 ? N1 K38 302 A 1 HETATM 2 C C2 K38 . . . C 3 19.864 5.287 8.329 1 27.66 ? C2 K38 302 A 1 HETATM 3 C C4 K38 . . . C 3 17.824 6.161 8.198 1 28.38 ? C4 K38 302 A 1 HETATM 4 C C5 K38 . . . C 3 17.386 5.042 7.564 1 28.41 ? C5 K38 302 A 1 HETATM 5 C C6 K38 . . . C 3 18.264 4.008 7.315 1 28.3 ? C6 K38 302 A 1 HETATM 6 C C1' K38 . . . C 3 19.31 9.247 13.874 1 26.07 ? C1' K38 302 A 1 HETATM 7 C C2' K38 . . . C 3 18.314 9.099 14.97 1 26.44 ? C2' K38 302 A 1 HETATM 8 C C3' K38 . . . C 3 18.341 7.608 14.973 1 26.9 ? C3' K38 302 A 1 HETATM 9 C C4' K38 . . . C 3 18.573 7.317 13.494 1 26.67 ? C4' K38 302 A 1 HETATM 10 C C5' K38 . . . C 3 17.364 6.703 12.864 1 26.71 ? C5' K38 302 A 1 HETATM 11 C C8 K38 . . . C 3 15.797 6.405 7.768 1 28.35 ? C8 K38 302 A 1 HETATM 12 C CAF K38 . . . C 3 16.859 8.258 8.949 1 27.71 ? CAF K38 302 A 1 HETATM 13 C CAG K38 . . . C 3 16.726 9.343 7.942 1 28.24 ? CAG K38 302 A 1 HETATM 14 C CAH K38 . . . C 3 15.455 9.987 8.398 1 27.37 ? CAH K38 302 A 1 HETATM 15 C CAI K38 . . . C 3 15.493 9.611 9.853 1 27.28 ? CAI K38 302 A 1 HETATM 16 C CAJ K38 . . . C 3 14.148 9.839 10.636 1 27.18 ? CAJ K38 302 A 1 HETATM 17 C CAL K38 . . . C 3 14.598 10.587 13.07 1 26.31 ? CAL K38 302 A 1 HETATM 18 C CAM K38 . . . C 3 15.998 10.923 12.923 1 25.7 ? CAM K38 302 A 1 HETATM 19 C CAN K38 . . . C 3 17.107 11.121 12.813 1 25.26 ? CAN K38 302 A 1 HETATM 20 C CAO K38 . . . C 3 18.488 11.273 12.747 1 25.13 ? CAO K38 302 A 1 HETATM 21 C CAQ K38 . . . C 3 20.541 11.026 12.916 1 25.02 ? CAQ K38 302 A 1 HETATM 22 C CAS K38 . . . C 3 22.73 11.406 12.687 1 23.87 ? CAS K38 302 A 1 HETATM 23 C CAU K38 . . . C 3 21.317 12.962 11.808 1 24.5 ? CAU K38 302 A 1 HETATM 24 C CAV K38 . . . C 3 20.295 12.176 12.263 1 24.98 ? CAV K38 302 A 1 HETATM 25 N N3 K38 . . . C 3 19.068 6.248 8.569 1 27.82 ? N3 K38 302 A 1 HETATM 26 N N6 K38 . . . C 3 17.949 2.915 6.7 1 28.54 ? N6 K38 302 A 1 HETATM 27 N N7 K38 . . . C 3 16.142 5.244 7.316 1 28.38 ? N7 K38 302 A 1 HETATM 28 N N9 K38 . . . C 3 16.83 6.981 8.303 1 28.4 ? N9 K38 302 A 1 HETATM 29 N NAK K38 . . . C 3 14.184 9.564 12.084 1 27.2 ? NAK K38 302 A 1 HETATM 30 N NAP K38 . . . C 3 19.415 10.49 13.215 1 26 ? NAP K38 302 A 1 HETATM 31 N NAR K38 . . . C 3 21.775 10.662 13.114 1 24.48 ? NAR K38 302 A 1 HETATM 32 N NAT K38 . . . C 3 22.534 12.557 12.022 1 23.69 ? NAT K38 302 A 1 HETATM 33 N NAW K38 . . . C 3 19.03 12.273 12.194 1 25.22 ? NAW K38 302 A 1 HETATM 34 N NAX K38 . . . C 3 21.1 14.059 11.174 1 24.68 ? NAX K38 302 A 1 HETATM 35 O O2' K38 . . . C 3 18.78 9.651 16.159 1 25.84 ? O2' K38 302 A 1 HETATM 36 O O3' K38 . . . C 3 19.472 7.178 15.608 1 28.17 ? O3' K38 302 A 1 HETATM 37 O O4' K38 . . . C 3 18.719 8.511 12.959 1 25.99 ? O4' K38 302 A 1 HETATM 38 O O5' K38 . . . C 3 16.182 7.422 13.063 1 26.84 ? O5' K38 302 A 1 HETATM 39 O OBH K38 . . . C 3 15.74 8.335 9.69 1 27.14 ? OBH K38 302 A 1 HETATM 40 O OBI K38 . . . C 3 15.451 11.343 8.192 1 27.07 ? OBI K38 302 A 1 HETATM 41 O OBJ K38 . . . C 3 17.809 10.207 8.052 1 29.14 ? OBJ K38 302 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 41 #