data_9DON
#
_model_server_result.job_id            YrL1OK6-idygMLrW2lRCRg 
_model_server_result.datetime_utc      '2025-07-24 10:42:55' 
_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          9don 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    9DON 
#
_exptl.entry_id    9DON 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              458.235 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE" 
_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          97.38 
_cell.angle_gamma         90 
_cell.entry_id            9DON 
_cell.length_a            49.194 
_cell.length_b            74.397 
_cell.length_c            52.454 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9DON 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,E 1 1 
B,D,F 2 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           'C11 H18 N5 O11 P2 1' 
_chem_comp.formula_weight    458.235 
_chem_comp.id                M7G 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE" 
_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
PA O1A M7G doub 279 n n 
PA O2A M7G sing 280 n n 
PA O3A M7G sing 281 n n 
PA O5' M7G sing 282 n n 
O2A HOA2 M7G sing 283 n n 
O3A PB M7G sing 284 n n 
O5' C5' M7G sing 285 n n 
PB O1B M7G doub 286 n n 
PB O2B M7G sing 287 n n 
PB O3B M7G sing 288 n n 
O2B HOB2 M7G sing 289 n n 
O3B HOB3 M7G sing 290 n n 
C5' C4' M7G sing 291 n n 
C5' "H5'1" M7G sing 292 n n 
C5' "H5'2" M7G sing 293 n n 
C4' O4' M7G sing 294 n n 
C4' C3' M7G sing 295 n n 
C4' H4' M7G sing 296 n n 
O4' C1' M7G sing 297 n n 
C3' O3' M7G sing 298 n n 
C3' C2' M7G sing 299 n n 
C3' H3' M7G sing 300 n n 
O3' HO3' M7G sing 301 n n 
C2' O2' M7G sing 302 n n 
C2' C1' M7G sing 303 n n 
C2' H2' M7G sing 304 n n 
O2' HO2' M7G sing 305 n n 
C1' N9 M7G sing 306 n n 
C1' H1' M7G sing 307 n n 
N9 C8 M7G sing 308 n y 
N9 C4 M7G sing 309 n y 
C8 N7 M7G doub 310 n y 
C8 H81 M7G sing 311 n n 
N7 CM7 M7G sing 312 n n 
N7 C5 M7G sing 313 n y 
CM7 HM71 M7G sing 314 n n 
CM7 HM72 M7G sing 315 n n 
CM7 HM73 M7G sing 316 n n 
C5 C6 M7G sing 317 n n 
C5 C4 M7G doub 318 n y 
C6 O6 M7G doub 319 n n 
C6 N1 M7G sing 320 n n 
N1 C2 M7G sing 321 n n 
N1 HN1 M7G sing 322 n n 
C2 N2 M7G sing 323 n n 
C2 N3 M7G doub 324 n n 
N2 HN21 M7G sing 325 n n 
N2 HN22 M7G sing 326 n n 
N3 C4 M7G sing 327 n n 
#
_atom_sites.entry_id                     9DON 
_atom_sites.fract_transf_matrix[1][1]    0.020328 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002633 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013441 
_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]    0.019224 
_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 M7G A 1 301 301 M7G M7G . 
D 3 A1A8P B 1 301 301 A1A8P 121 . 
E 4 HOH A 1 401 103 HOH HOH . 
E 4 HOH A 2 402 123 HOH HOH . 
E 4 HOH A 3 403 111 HOH HOH . 
E 4 HOH A 4 404 155 HOH HOH . 
E 4 HOH A 5 405 75 HOH HOH . 
E 4 HOH A 6 406 163 HOH HOH . 
E 4 HOH A 7 407 5 HOH HOH . 
E 4 HOH A 8 408 36 HOH HOH . 
E 4 HOH A 9 409 13 HOH HOH . 
E 4 HOH A 10 410 117 HOH HOH . 
E 4 HOH A 11 411 64 HOH HOH . 
E 4 HOH A 12 412 45 HOH HOH . 
E 4 HOH A 13 413 94 HOH HOH . 
E 4 HOH A 14 414 121 HOH HOH . 
E 4 HOH A 15 415 29 HOH HOH . 
E 4 HOH A 16 416 73 HOH HOH . 
E 4 HOH A 17 417 136 HOH HOH . 
E 4 HOH A 18 418 3 HOH HOH . 
E 4 HOH A 19 419 71 HOH HOH . 
E 4 HOH A 20 420 10 HOH HOH . 
E 4 HOH A 21 421 127 HOH HOH . 
E 4 HOH A 22 422 159 HOH HOH . 
E 4 HOH A 23 423 51 HOH HOH . 
E 4 HOH A 24 424 12 HOH HOH . 
E 4 HOH A 25 425 39 HOH HOH . 
E 4 HOH A 26 426 41 HOH HOH . 
E 4 HOH A 27 427 37 HOH HOH . 
E 4 HOH A 28 428 153 HOH HOH . 
E 4 HOH A 29 429 48 HOH HOH . 
E 4 HOH A 30 430 108 HOH HOH . 
E 4 HOH A 31 431 44 HOH HOH . 
E 4 HOH A 32 432 20 HOH HOH . 
E 4 HOH A 33 433 68 HOH HOH . 
E 4 HOH A 34 434 47 HOH HOH . 
E 4 HOH A 35 435 8 HOH HOH . 
E 4 HOH A 36 436 38 HOH HOH . 
E 4 HOH A 37 437 27 HOH HOH . 
E 4 HOH A 38 438 148 HOH HOH . 
E 4 HOH A 39 439 83 HOH HOH . 
E 4 HOH A 40 440 42 HOH HOH . 
E 4 HOH A 41 441 50 HOH HOH . 
E 4 HOH A 42 442 17 HOH HOH . 
E 4 HOH A 43 443 156 HOH HOH . 
E 4 HOH A 44 444 105 HOH HOH . 
E 4 HOH A 45 445 31 HOH HOH . 
E 4 HOH A 46 446 114 HOH HOH . 
E 4 HOH A 47 447 98 HOH HOH . 
E 4 HOH A 48 448 145 HOH HOH . 
E 4 HOH A 49 449 18 HOH HOH . 
E 4 HOH A 50 450 102 HOH HOH . 
E 4 HOH A 51 451 151 HOH HOH . 
E 4 HOH A 52 452 28 HOH HOH . 
E 4 HOH A 53 453 46 HOH HOH . 
E 4 HOH A 54 454 138 HOH HOH . 
E 4 HOH A 55 455 25 HOH HOH . 
E 4 HOH A 56 456 76 HOH HOH . 
E 4 HOH A 57 457 43 HOH HOH . 
E 4 HOH A 58 458 61 HOH HOH . 
E 4 HOH A 59 459 122 HOH HOH . 
E 4 HOH A 60 460 80 HOH HOH . 
E 4 HOH A 61 461 95 HOH HOH . 
E 4 HOH A 62 462 152 HOH HOH . 
E 4 HOH A 63 463 6 HOH HOH . 
E 4 HOH A 64 464 35 HOH HOH . 
E 4 HOH A 65 465 84 HOH HOH . 
E 4 HOH A 66 466 70 HOH HOH . 
E 4 HOH A 67 467 62 HOH HOH . 
E 4 HOH A 68 468 78 HOH HOH . 
E 4 HOH A 69 469 72 HOH HOH . 
E 4 HOH A 70 470 162 HOH HOH . 
E 4 HOH A 71 471 160 HOH HOH . 
E 4 HOH A 72 472 99 HOH HOH . 
E 4 HOH A 73 473 157 HOH HOH . 
E 4 HOH A 74 474 154 HOH HOH . 
F 4 HOH B 1 401 139 HOH HOH . 
F 4 HOH B 2 402 14 HOH HOH . 
F 4 HOH B 3 403 90 HOH HOH . 
F 4 HOH B 4 404 91 HOH HOH . 
F 4 HOH B 5 405 2 HOH HOH . 
F 4 HOH B 6 406 118 HOH HOH . 
F 4 HOH B 7 407 54 HOH HOH . 
F 4 HOH B 8 408 52 HOH HOH . 
F 4 HOH B 9 409 88 HOH HOH . 
F 4 HOH B 10 410 9 HOH HOH . 
F 4 HOH B 11 411 21 HOH HOH . 
F 4 HOH B 12 412 110 HOH HOH . 
F 4 HOH B 13 413 137 HOH HOH . 
F 4 HOH B 14 414 66 HOH HOH . 
F 4 HOH B 15 415 92 HOH HOH . 
F 4 HOH B 16 416 59 HOH HOH . 
F 4 HOH B 17 417 60 HOH HOH . 
F 4 HOH B 18 418 115 HOH HOH . 
F 4 HOH B 19 419 144 HOH HOH . 
F 4 HOH B 20 420 7 HOH HOH . 
F 4 HOH B 21 421 128 HOH HOH . 
F 4 HOH B 22 422 23 HOH HOH . 
F 4 HOH B 23 423 116 HOH HOH . 
F 4 HOH B 24 424 77 HOH HOH . 
F 4 HOH B 25 425 149 HOH HOH . 
F 4 HOH B 26 426 124 HOH HOH . 
F 4 HOH B 27 427 11 HOH HOH . 
F 4 HOH B 28 428 56 HOH HOH . 
F 4 HOH B 29 429 146 HOH HOH . 
F 4 HOH B 30 430 93 HOH HOH . 
F 4 HOH B 31 431 40 HOH HOH . 
F 4 HOH B 32 432 85 HOH HOH . 
F 4 HOH B 33 433 67 HOH HOH . 
F 4 HOH B 34 434 34 HOH HOH . 
F 4 HOH B 35 435 22 HOH HOH . 
F 4 HOH B 36 436 55 HOH HOH . 
F 4 HOH B 37 437 24 HOH HOH . 
F 4 HOH B 38 438 53 HOH HOH . 
F 4 HOH B 39 439 65 HOH HOH . 
F 4 HOH B 40 440 33 HOH HOH . 
F 4 HOH B 41 441 82 HOH HOH . 
F 4 HOH B 42 442 15 HOH HOH . 
F 4 HOH B 43 443 16 HOH HOH . 
F 4 HOH B 44 444 104 HOH HOH . 
F 4 HOH B 45 445 143 HOH HOH . 
F 4 HOH B 46 446 141 HOH HOH . 
F 4 HOH B 47 447 87 HOH HOH . 
F 4 HOH B 48 448 57 HOH HOH . 
F 4 HOH B 49 449 147 HOH HOH . 
F 4 HOH B 50 450 74 HOH HOH . 
F 4 HOH B 51 451 63 HOH HOH . 
F 4 HOH B 52 452 81 HOH HOH . 
F 4 HOH B 53 453 89 HOH HOH . 
F 4 HOH B 54 454 133 HOH HOH . 
F 4 HOH B 55 455 69 HOH HOH . 
F 4 HOH B 56 456 106 HOH HOH . 
F 4 HOH B 57 457 107 HOH HOH . 
F 4 HOH B 58 458 101 HOH HOH . 
F 4 HOH B 59 459 125 HOH HOH . 
F 4 HOH B 60 460 32 HOH HOH . 
F 4 HOH B 61 461 130 HOH HOH . 
F 4 HOH B 62 462 120 HOH HOH . 
F 4 HOH B 63 463 119 HOH HOH . 
F 4 HOH B 64 464 161 HOH HOH . 
F 4 HOH B 65 465 26 HOH HOH . 
F 4 HOH B 66 466 112 HOH HOH . 
F 4 HOH B 67 467 142 HOH HOH . 
F 4 HOH B 68 468 126 HOH HOH . 
F 4 HOH B 69 469 150 HOH HOH . 
F 4 HOH B 70 470 97 HOH HOH . 
F 4 HOH B 71 471 140 HOH HOH . 
F 4 HOH B 72 472 158 HOH HOH . 
F 4 HOH B 73 473 109 HOH HOH . 
F 4 HOH B 74 474 96 HOH HOH . 
F 4 HOH B 75 475 134 HOH HOH . 
F 4 HOH B 76 476 113 HOH HOH . 
F 4 HOH B 77 477 132 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 P PA M7G . . . C 2 -11.824 -14.646 23.766 1 44.82 ? PA M7G 301 A 1 
HETATM 2 O O1A M7G . . . C 2 -12.027 -13.327 24.39 1 45.24 ? O1A M7G 301 A 1 
HETATM 3 O O2A M7G . . . C 2 -10.379 -14.956 23.334 1 44.3 ? O2A M7G 301 A 1 
HETATM 4 O O3A M7G . . . C 2 -12.284 -15.798 24.765 1 46.11 ? O3A M7G 301 A 1 
HETATM 5 O O5' M7G . . . C 2 -12.776 -14.835 22.494 1 43.68 ? O5' M7G 301 A 1 
HETATM 6 P PB M7G . . . C 2 -13.415 -15.94 25.886 1 47.08 ? PB M7G 301 A 1 
HETATM 7 O O1B M7G . . . C 2 -12.812 -16.266 27.217 1 47 ? O1B M7G 301 A 1 
HETATM 8 O O2B M7G . . . C 2 -14.36 -17.017 25.345 1 47.25 ? O2B M7G 301 A 1 
HETATM 9 O O3B M7G . . . C 2 -14.154 -14.607 25.872 1 47.46 ? O3B M7G 301 A 1 
HETATM 10 C C5' M7G . . . C 2 -14.214 -14.717 22.566 1 42.24 ? C5' M7G 301 A 1 
HETATM 11 C C4' M7G . . . C 2 -14.695 -14.002 21.33 1 40.61 ? C4' M7G 301 A 1 
HETATM 12 O O4' M7G . . . C 2 -13.914 -12.803 21.133 1 39 ? O4' M7G 301 A 1 
HETATM 13 C C3' M7G . . . C 2 -14.526 -14.779 20.033 1 40.31 ? C3' M7G 301 A 1 
HETATM 14 O O3' M7G . . . C 2 -15.587 -15.709 19.845 1 41.25 ? O3' M7G 301 A 1 
HETATM 15 C C2' M7G . . . C 2 -14.52 -13.657 18.999 1 39.12 ? C2' M7G 301 A 1 
HETATM 16 O O2' M7G . . . C 2 -15.837 -13.194 18.709 1 39.9 ? O2' M7G 301 A 1 
HETATM 17 C C1' M7G . . . C 2 -13.741 -12.565 19.745 1 37.32 ? C1' M7G 301 A 1 
HETATM 18 N N9 M7G . . . C 2 -12.362 -12.548 19.312 1 33.83 ? N9 M7G 301 A 1 
HETATM 19 C C8 M7G . . . C 2 -11.296 -12.771 20.273 1 32.59 ? C8 M7G 301 A 1 
HETATM 20 N N7 M7G . . . C 2 -10.143 -12.774 19.425 1 31.42 ? N7 M7G 301 A 1 
HETATM 21 C CM7 M7G . . . C 2 -8.828 -12.877 20.038 1 31.05 ? CM7 M7G 301 A 1 
HETATM 22 C C5 M7G . . . C 2 -10.453 -12.175 18.213 1 30.65 ? C5 M7G 301 A 1 
HETATM 23 C C6 M7G . . . C 2 -9.647 -11.745 17.119 1 29.46 ? C6 M7G 301 A 1 
HETATM 24 O O6 M7G . . . C 2 -8.427 -11.794 17.005 1 28.75 ? O6 M7G 301 A 1 
HETATM 25 N N1 M7G . . . C 2 -10.424 -11.158 16.135 1 29.02 ? N1 M7G 301 A 1 
HETATM 26 C C2 M7G . . . C 2 -11.784 -10.963 16.197 1 29.41 ? C2 M7G 301 A 1 
HETATM 27 N N2 M7G . . . C 2 -12.345 -10.315 15.176 1 29.21 ? N2 M7G 301 A 1 
HETATM 28 N N3 M7G . . . C 2 -12.544 -11.354 17.223 1 30.28 ? N3 M7G 301 A 1 
HETATM 29 C C4 M7G . . . C 2 -11.839 -11.964 18.186 1 31.56 ? C4 M7G 301 A 1 
#
_model_server_stats.io_time_ms              74 
_model_server_stats.parse_time_ms           31 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           345 
_model_server_stats.encode_time_ms          12 
_model_server_stats.element_count           29 
#