data_6RGC # _model_server_result.job_id zLfbcqSbdcak1-fI8ltqpA _model_server_result.datetime_utc '2024-11-28 16:16:18' _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 6rgc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 6RGC # _exptl.entry_id 6RGC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 583.557 _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-ynyl-methyl-amino]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 6RGC _cell.length_a 63.198 _cell.length_b 74.809 _cell.length_c 118.699 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RGC _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 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 _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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 63.198 0 0 3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 63.198 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 'C24 H29 N11 O7' _chem_comp.formula_weight 583.557 _chem_comp.id K3H _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-ynyl-methyl-amino]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 K3H sing 193 n n N7 C5 K3H sing 194 n y N7 C8 K3H doub 195 n y C6 C5 K3H doub 196 n y C6 N1 K3H sing 197 n y C5 C4 K3H sing 198 n y C8 N9 K3H sing 199 n y N1 C2 K3H doub 200 n y CBH OAG K3H sing 201 n n CBH CBG K3H sing 202 n n CBH CBL K3H sing 203 n n C4 N9 K3H sing 204 n y C4 N3 K3H doub 205 n y OAF CBG K3H sing 206 n n N9 CBL K3H sing 207 n n CBG CBK K3H sing 208 n n C2 N3 K3H sing 209 n y CBL OAX K3H sing 210 n n OAX CBK K3H sing 211 n n CBK CAP K3H sing 212 n n CAP NBN K3H sing 213 n n NAC CAZ K3H sing 214 n n CAZ NAR K3H doub 215 n y CAZ CBC K3H sing 216 n y NBN CAA K3H sing 217 n n NBN CAO K3H sing 218 n n NAV CBC K3H sing 219 n y NAV CBA K3H doub 220 n y NAR CAL K3H sing 221 n y CBC CBE K3H doub 222 n y O5' C5' K3H sing 223 n n CBA CAJ K3H sing 224 n n CBA NBP K3H sing 225 n y CAJ CAI K3H trip 226 n n CAI CAO K3H sing 227 n n CAL NAT K3H doub 228 n y CBE NAT K3H sing 229 n y CBE NBP K3H sing 230 n y O4' C4' K3H sing 231 n n O4' C1' K3H sing 232 n n NBP C1' K3H sing 233 n n C5' C4' K3H sing 234 n n C4' C3' K3H sing 235 n n C1' C2' K3H sing 236 n n C2' C3' K3H sing 237 n n C2' O2' K3H sing 238 n n C3' O3' K3H sing 239 n n C8 H1 K3H sing 240 n n C1' H2 K3H sing 241 n n C2 H3 K3H sing 242 n n C2' H4 K3H sing 243 n n C3' H5 K3H sing 244 n n C4' H6 K3H sing 245 n n C5' H7 K3H sing 246 n n C5' H8 K3H sing 247 n n CAA H9 K3H sing 248 n n CAA H10 K3H sing 249 n n CAA H11 K3H sing 250 n n CAL H12 K3H sing 251 n n CAO H13 K3H sing 252 n n CAO H14 K3H sing 253 n n CAP H15 K3H sing 254 n n CAP H16 K3H sing 255 n n CBG H17 K3H sing 256 n n CBH H18 K3H sing 257 n n CBK H19 K3H sing 258 n n CBL H20 K3H sing 259 n n N6 H21 K3H sing 260 n n N6 H22 K3H sing 261 n n NAC H23 K3H sing 262 n n NAC H24 K3H sing 263 n n O2' H26 K3H sing 264 n n O3' H27 K3H sing 265 n n O5' H28 K3H sing 266 n n OAF H29 K3H sing 267 n n OAG H30 K3H sing 268 n n # _atom_sites.entry_id 6RGC _atom_sites.fract_transf_matrix[1][1] 0.015823 _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] 0.013367 _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] 0.008425 _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 K3H A 1 302 1 K3H DRG . D 4 HOH A 1 401 48 HOH HOH . D 4 HOH A 2 402 33 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 36 HOH HOH . D 4 HOH A 6 406 18 HOH HOH . D 4 HOH A 7 407 39 HOH HOH . D 4 HOH A 8 408 40 HOH HOH . D 4 HOH A 9 409 16 HOH HOH . D 4 HOH A 10 410 12 HOH HOH . D 4 HOH A 11 411 100 HOH HOH . D 4 HOH A 12 412 59 HOH HOH . D 4 HOH A 13 413 54 HOH HOH . D 4 HOH A 14 414 30 HOH HOH . D 4 HOH A 15 415 62 HOH HOH . D 4 HOH A 16 416 2 HOH HOH . D 4 HOH A 17 417 86 HOH HOH . D 4 HOH A 18 418 1 HOH HOH . D 4 HOH A 19 419 69 HOH HOH . D 4 HOH A 20 420 14 HOH HOH . D 4 HOH A 21 421 115 HOH HOH . D 4 HOH A 22 422 22 HOH HOH . D 4 HOH A 23 423 97 HOH HOH . D 4 HOH A 24 424 34 HOH HOH . D 4 HOH A 25 425 58 HOH HOH . D 4 HOH A 26 426 55 HOH HOH . D 4 HOH A 27 427 25 HOH HOH . D 4 HOH A 28 428 3 HOH HOH . D 4 HOH A 29 429 19 HOH HOH . D 4 HOH A 30 430 45 HOH HOH . D 4 HOH A 31 431 31 HOH HOH . D 4 HOH A 32 432 15 HOH HOH . D 4 HOH A 33 433 26 HOH HOH . D 4 HOH A 34 434 4 HOH HOH . D 4 HOH A 35 435 81 HOH HOH . D 4 HOH A 36 436 13 HOH HOH . D 4 HOH A 37 437 51 HOH HOH . D 4 HOH A 38 438 27 HOH HOH . D 4 HOH A 39 439 67 HOH HOH . D 4 HOH A 40 440 111 HOH HOH . D 4 HOH A 41 441 116 HOH HOH . D 4 HOH A 42 442 46 HOH HOH . D 4 HOH A 43 443 35 HOH HOH . D 4 HOH A 44 444 23 HOH HOH . D 4 HOH A 45 445 7 HOH HOH . D 4 HOH A 46 446 79 HOH HOH . D 4 HOH A 47 447 74 HOH HOH . D 4 HOH A 48 448 44 HOH HOH . D 4 HOH A 49 449 70 HOH HOH . D 4 HOH A 50 450 75 HOH HOH . D 4 HOH A 51 451 24 HOH HOH . D 4 HOH A 52 452 10 HOH HOH . D 4 HOH A 53 453 53 HOH HOH . D 4 HOH A 54 454 50 HOH HOH . D 4 HOH A 55 455 11 HOH HOH . D 4 HOH A 56 456 108 HOH HOH . D 4 HOH A 57 457 28 HOH HOH . D 4 HOH A 58 458 68 HOH HOH . D 4 HOH A 59 459 21 HOH HOH . D 4 HOH A 60 460 29 HOH HOH . D 4 HOH A 61 461 63 HOH HOH . D 4 HOH A 62 462 6 HOH HOH . D 4 HOH A 63 463 5 HOH HOH . D 4 HOH A 64 464 65 HOH HOH . D 4 HOH A 65 465 61 HOH HOH . D 4 HOH A 66 466 17 HOH HOH . D 4 HOH A 67 467 9 HOH HOH . D 4 HOH A 68 468 43 HOH HOH . D 4 HOH A 69 469 77 HOH HOH . D 4 HOH A 70 470 49 HOH HOH . D 4 HOH A 71 471 57 HOH HOH . D 4 HOH A 72 472 82 HOH HOH . D 4 HOH A 73 473 47 HOH HOH . D 4 HOH A 74 474 71 HOH HOH . D 4 HOH A 75 475 66 HOH HOH . D 4 HOH A 76 476 41 HOH HOH . D 4 HOH A 77 477 64 HOH HOH . D 4 HOH A 78 478 96 HOH HOH . D 4 HOH A 79 479 42 HOH HOH . D 4 HOH A 80 480 91 HOH HOH . D 4 HOH A 81 481 72 HOH HOH . D 4 HOH A 82 482 38 HOH HOH . D 4 HOH A 83 483 98 HOH HOH . D 4 HOH A 84 484 109 HOH HOH . D 4 HOH A 85 485 73 HOH HOH . D 4 HOH A 86 486 106 HOH HOH . D 4 HOH A 87 487 95 HOH HOH . D 4 HOH A 88 488 60 HOH HOH . D 4 HOH A 89 489 104 HOH HOH . D 4 HOH A 90 490 84 HOH HOH . D 4 HOH A 91 491 80 HOH HOH . D 4 HOH A 92 492 94 HOH HOH . D 4 HOH A 93 493 114 HOH HOH . D 4 HOH A 94 494 89 HOH HOH . D 4 HOH A 95 495 90 HOH HOH . D 4 HOH A 96 496 87 HOH HOH . D 4 HOH A 97 497 110 HOH HOH . D 4 HOH A 98 498 76 HOH HOH . D 4 HOH A 99 499 102 HOH HOH . D 4 HOH A 100 500 92 HOH HOH . D 4 HOH A 101 501 99 HOH HOH . D 4 HOH A 102 502 117 HOH HOH . D 4 HOH A 103 503 105 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 C4 K3H . . . C 3 18.006 6.152 8.284 0.8 30.36 ? C4 K3H 302 A 1 HETATM 2 C C5 K3H . . . C 3 17.695 5.067 7.668 0.8 29.73 ? C5 K3H 302 A 1 HETATM 3 C C6 K3H . . . C 3 18.601 4.121 7.475 0.8 24.58 ? C6 K3H 302 A 1 HETATM 4 C C8 K3H . . . C 3 16.009 6.317 7.768 0.8 31.37 ? C8 K3H 302 A 1 HETATM 5 N N1 K3H . . . C 3 19.773 4.23 7.885 0.8 18.3 ? N1 K3H 302 A 1 HETATM 6 N N3 K3H . . . C 3 19.195 6.283 8.692 0.8 22.9 ? N3 K3H 302 A 1 HETATM 7 C C1' K3H . . . C 3 19.587 9.261 13.939 0.8 36.34 ? C1' K3H 302 A 1 HETATM 8 C C2 K3H . . . C 3 20.065 5.335 8.518 0.8 19.14 ? C2 K3H 302 A 1 HETATM 9 C C2' K3H . . . C 3 18.653 9.058 15.065 0.8 36.2 ? C2' K3H 302 A 1 HETATM 10 C C3' K3H . . . C 3 18.763 7.571 15.141 0.8 32.8 ? C3' K3H 302 A 1 HETATM 11 C C4' K3H . . . C 3 18.964 7.204 13.718 0.8 36.8 ? C4' K3H 302 A 1 HETATM 12 C C5' K3H . . . C 3 17.756 6.398 13.345 0.8 42.32 ? C5' K3H 302 A 1 HETATM 13 C CAA K3H . . . C 3 13.034 9.087 12.165 0.8 37.54 ? CAA K3H 302 A 1 HETATM 14 C CAI K3H . . . C 3 16.277 10.858 12.777 0.8 32.06 ? CAI K3H 302 A 1 HETATM 15 C CAJ K3H . . . C 3 17.362 11.044 12.726 0.8 30.3 ? CAJ K3H 302 A 1 HETATM 16 C CAL K3H . . . C 3 22.932 11.419 12.842 0.8 22.33 ? CAL K3H 302 A 1 HETATM 17 C CAO K3H . . . C 3 14.788 10.584 12.848 0.8 26.55 ? CAO K3H 302 A 1 HETATM 18 C CAP K3H . . . C 3 14.382 9.868 10.536 0.8 28.97 ? CAP K3H 302 A 1 HETATM 19 C CAZ K3H . . . C 3 21.506 12.851 11.89 0.8 25.39 ? CAZ K3H 302 A 1 HETATM 20 C CBA K3H . . . C 3 18.648 11.235 12.698 0.8 28.25 ? CBA K3H 302 A 1 HETATM 21 C CBC K3H . . . C 3 20.486 12.124 12.276 0.8 27.89 ? CBC K3H 302 A 1 HETATM 22 C CBE K3H . . . C 3 20.68 11.025 12.945 0.8 26.87 ? CBE K3H 302 A 1 HETATM 23 C CBG K3H . . . C 3 15.627 9.982 8.461 0.8 26.84 ? CBG K3H 302 A 1 HETATM 24 C CBH K3H . . . C 3 16.861 9.319 7.987 0.8 24.45 ? CBH K3H 302 A 1 HETATM 25 C CBK K3H . . . C 3 15.699 9.605 9.863 0.8 31.35 ? CBK K3H 302 A 1 HETATM 26 C CBL K3H . . . C 3 16.965 8.214 8.968 0.8 31.01 ? CBL K3H 302 A 1 HETATM 27 N N6 K3H . . . C 3 18.299 3.047 6.865 0.8 23.88 ? N6 K3H 302 A 1 HETATM 28 N N7 K3H . . . C 3 16.448 5.181 7.353 0.8 30.18 ? N7 K3H 302 A 1 HETATM 29 N N9 K3H . . . C 3 16.988 6.935 8.355 0.8 32.52 ? N9 K3H 302 A 1 HETATM 30 N NAC K3H . . . C 3 21.265 13.918 11.229 0.8 22.93 ? NAC K3H 302 A 1 HETATM 31 N NAR K3H . . . C 3 22.716 12.507 12.134 0.8 22.53 ? NAR K3H 302 A 1 HETATM 32 N NAT K3H . . . C 3 21.896 10.653 13.232 0.8 22.48 ? NAT K3H 302 A 1 HETATM 33 N NAV K3H . . . C 3 19.212 12.246 12.133 0.8 30.34 ? NAV K3H 302 A 1 HETATM 34 N NBN K3H . . . C 3 14.377 9.529 11.929 0.8 34.4 ? NBN K3H 302 A 1 HETATM 35 N NBP K3H . . . C 3 19.545 10.486 13.239 0.8 32.25 ? NBP K3H 302 A 1 HETATM 36 O O2' K3H . . . C 3 19.145 9.622 16.202 0.8 35.71 ? O2' K3H 302 A 1 HETATM 37 O O3' K3H . . . C 3 19.911 7.171 15.683 0.8 31.25 ? O3' K3H 302 A 1 HETATM 38 O O4' K3H . . . C 3 19.064 8.393 13.07 0.8 37.47 ? O4' K3H 302 A 1 HETATM 39 O O5' K3H . . . C 3 16.874 7.197 12.666 0.8 46.72 ? O5' K3H 302 A 1 HETATM 40 O OAF K3H . . . C 3 15.693 11.294 8.317 0.8 20.08 ? OAF K3H 302 A 1 HETATM 41 O OAG K3H . . . C 3 17.887 10.159 8.167 0.8 25.61 ? OAG K3H 302 A 1 HETATM 42 O OAX K3H . . . C 3 15.846 8.314 9.707 0.8 33.22 ? OAX K3H 302 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 42 #