data_4DSO
#
_model_server_result.job_id            myC12b-xojpCHa-2qWwTQg 
_model_server_result.datetime_utc      '2024-10-15 16:16:56' 
_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          4dso 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":201}' 
#
_entry.id    4DSO 
#
_exptl.entry_id    4DSO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              539.246 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" 
_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         120 
_cell.entry_id            4DSO 
_cell.length_a            79.374 
_cell.length_b            79.374 
_cell.length_c            77.749 
_cell.Z_PDB               9 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4DSO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        146 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'H 3' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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 A OG SER 18 A SER 17 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.956 ? 
metalc ? metalc2 A OG1 THR 36 A THR 35 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? 
metalc ? metalc3 B O3G GSP . A GSP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.845 ? 
metalc ? metalc4 B O2B GSP . A GSP 201 1_555 C MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? 
metalc ? metalc5 C MG MG . A MG 202 1_555 F O HOH . A HOH 322 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
metalc ? metalc6 C MG MG . A MG 202 1_555 F O HOH . A HOH 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
#
_chem_comp.formula           'C10 H16 N5 O13 P3 S' 
_chem_comp.formula_weight    539.246 
_chem_comp.id                GSP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" 
_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
PG O3B GSP sing 159 n n 
PG S1G GSP doub 160 n n 
PG O2G GSP sing 161 n n 
PG O3G GSP sing 162 n n 
O3B PB GSP sing 163 n n 
O2G HOG2 GSP sing 164 n n 
O3G HOG3 GSP sing 165 n n 
PB O1B GSP doub 166 n n 
PB O2B GSP sing 167 n n 
PB O3A GSP sing 168 n n 
O2B HOB2 GSP sing 169 n n 
PA O1A GSP doub 170 n n 
PA O2A GSP sing 171 n n 
PA O3A GSP sing 172 n n 
PA O5' GSP sing 173 n n 
O2A HOA2 GSP sing 174 n n 
O5' C5' GSP sing 175 n n 
C5' C4' GSP sing 176 n n 
C5' "H5'1" GSP sing 177 n n 
C5' "H5'2" GSP sing 178 n n 
C4' O4' GSP sing 179 n n 
C4' C3' GSP sing 180 n n 
C4' H4' GSP sing 181 n n 
O4' C1' GSP sing 182 n n 
C3' O3' GSP sing 183 n n 
C3' C2' GSP sing 184 n n 
C3' H3' GSP sing 185 n n 
O3' HO3' GSP sing 186 n n 
C2' O2' GSP sing 187 n n 
C2' C1' GSP sing 188 n n 
C2' H2' GSP sing 189 n n 
O2' HO2' GSP sing 190 n n 
C1' N9 GSP sing 191 n n 
C1' H1' GSP sing 192 n n 
N9 C8 GSP sing 193 n y 
N9 C4 GSP sing 194 n y 
C8 N7 GSP doub 195 n y 
C8 H8 GSP sing 196 n n 
N7 C5 GSP sing 197 n y 
C5 C6 GSP sing 198 n n 
C5 C4 GSP doub 199 n y 
C6 O6 GSP doub 200 n n 
C6 N1 GSP sing 201 n n 
N1 C2 GSP sing 202 n n 
N1 HN1 GSP sing 203 n n 
C2 N2 GSP sing 204 n n 
C2 N3 GSP doub 205 n n 
N2 HN21 GSP sing 206 n n 
N2 HN22 GSP sing 207 n n 
N3 C4 GSP sing 208 n n 
#
_atom_sites.entry_id                     4DSO 
_atom_sites.fract_transf_matrix[1][1]    0.012599 
_atom_sites.fract_transf_matrix[1][2]    0.007274 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014548 
_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]    0.012862 
_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 GSP A 1 201 1 GSP GSP . 
C 3 MG A 1 202 2 MG MG . 
D 4 BEN A 1 203 3 BEN BEN . 
E 5 GOL A 1 204 4 GOL GOL . 
F 6 HOH A 1 301 1 HOH HOH . 
F 6 HOH A 2 302 2 HOH HOH . 
F 6 HOH A 3 303 3 HOH HOH . 
F 6 HOH A 4 304 4 HOH HOH . 
F 6 HOH A 5 305 5 HOH HOH . 
F 6 HOH A 6 306 6 HOH HOH . 
F 6 HOH A 7 307 7 HOH HOH . 
F 6 HOH A 8 308 8 HOH HOH . 
F 6 HOH A 9 309 9 HOH HOH . 
F 6 HOH A 10 310 10 HOH HOH . 
F 6 HOH A 11 311 11 HOH HOH . 
F 6 HOH A 12 312 12 HOH HOH . 
F 6 HOH A 13 313 13 HOH HOH . 
F 6 HOH A 14 314 14 HOH HOH . 
F 6 HOH A 15 315 15 HOH HOH . 
F 6 HOH A 16 316 16 HOH HOH . 
F 6 HOH A 17 317 17 HOH HOH . 
F 6 HOH A 18 318 18 HOH HOH . 
F 6 HOH A 19 319 19 HOH HOH . 
F 6 HOH A 20 320 20 HOH HOH . 
F 6 HOH A 21 321 21 HOH HOH . 
F 6 HOH A 22 322 22 HOH HOH . 
F 6 HOH A 23 323 23 HOH HOH . 
F 6 HOH A 24 324 24 HOH HOH . 
F 6 HOH A 25 325 25 HOH HOH . 
F 6 HOH A 26 326 26 HOH HOH . 
F 6 HOH A 27 327 27 HOH HOH . 
F 6 HOH A 28 328 28 HOH HOH . 
F 6 HOH A 29 329 29 HOH HOH . 
F 6 HOH A 30 330 30 HOH HOH . 
F 6 HOH A 31 331 31 HOH HOH . 
F 6 HOH A 32 332 32 HOH HOH . 
F 6 HOH A 33 333 33 HOH HOH . 
F 6 HOH A 34 334 34 HOH HOH . 
F 6 HOH A 35 335 35 HOH HOH . 
F 6 HOH A 36 336 36 HOH HOH . 
F 6 HOH A 37 337 37 HOH HOH . 
F 6 HOH A 38 338 38 HOH HOH . 
F 6 HOH A 39 339 39 HOH HOH . 
F 6 HOH A 40 340 40 HOH HOH . 
F 6 HOH A 41 341 41 HOH HOH . 
F 6 HOH A 42 342 42 HOH HOH . 
F 6 HOH A 43 343 43 HOH HOH . 
F 6 HOH A 44 344 44 HOH HOH . 
F 6 HOH A 45 345 45 HOH HOH . 
F 6 HOH A 46 346 46 HOH HOH . 
F 6 HOH A 47 347 47 HOH HOH . 
F 6 HOH A 48 348 48 HOH HOH . 
F 6 HOH A 49 349 49 HOH HOH . 
F 6 HOH A 50 350 50 HOH HOH . 
F 6 HOH A 51 351 51 HOH HOH . 
F 6 HOH A 52 352 52 HOH HOH . 
F 6 HOH A 53 353 53 HOH HOH . 
F 6 HOH A 54 354 54 HOH HOH . 
F 6 HOH A 55 355 55 HOH HOH . 
F 6 HOH A 56 356 56 HOH HOH . 
F 6 HOH A 57 357 57 HOH HOH . 
F 6 HOH A 58 358 58 HOH HOH . 
F 6 HOH A 59 359 59 HOH HOH . 
F 6 HOH A 60 360 60 HOH HOH . 
F 6 HOH A 61 361 61 HOH HOH . 
F 6 HOH A 62 362 62 HOH HOH . 
F 6 HOH A 63 363 63 HOH HOH . 
F 6 HOH A 64 364 64 HOH HOH . 
F 6 HOH A 65 365 65 HOH HOH . 
F 6 HOH A 66 366 66 HOH HOH . 
F 6 HOH A 67 367 67 HOH HOH . 
F 6 HOH A 68 368 68 HOH HOH . 
F 6 HOH A 69 369 69 HOH HOH . 
F 6 HOH A 70 370 70 HOH HOH . 
F 6 HOH A 71 371 71 HOH HOH . 
F 6 HOH A 72 372 72 HOH HOH . 
F 6 HOH A 73 373 73 HOH HOH . 
F 6 HOH A 74 374 74 HOH HOH . 
F 6 HOH A 75 375 75 HOH HOH . 
F 6 HOH A 76 376 76 HOH HOH . 
F 6 HOH A 77 377 77 HOH HOH . 
F 6 HOH A 78 378 78 HOH HOH . 
F 6 HOH A 79 379 79 HOH HOH . 
F 6 HOH A 80 380 80 HOH HOH . 
F 6 HOH A 81 381 81 HOH HOH . 
F 6 HOH A 82 382 82 HOH HOH . 
F 6 HOH A 83 383 83 HOH HOH . 
F 6 HOH A 84 384 84 HOH HOH . 
F 6 HOH A 85 385 85 HOH HOH . 
F 6 HOH A 86 386 86 HOH HOH . 
F 6 HOH A 87 387 87 HOH HOH . 
F 6 HOH A 88 388 88 HOH HOH . 
F 6 HOH A 89 389 89 HOH HOH . 
F 6 HOH A 90 390 90 HOH HOH . 
F 6 HOH A 91 391 91 HOH HOH . 
F 6 HOH A 92 392 92 HOH HOH . 
F 6 HOH A 93 393 93 HOH HOH . 
F 6 HOH A 94 394 94 HOH HOH . 
F 6 HOH A 95 395 95 HOH HOH . 
F 6 HOH A 96 396 96 HOH HOH . 
F 6 HOH A 97 397 97 HOH HOH . 
F 6 HOH A 98 398 98 HOH HOH . 
F 6 HOH A 99 399 99 HOH HOH . 
F 6 HOH A 100 400 100 HOH HOH . 
F 6 HOH A 101 401 101 HOH HOH . 
F 6 HOH A 102 402 102 HOH HOH . 
F 6 HOH A 103 403 103 HOH HOH . 
F 6 HOH A 104 404 104 HOH HOH . 
F 6 HOH A 105 405 105 HOH HOH . 
F 6 HOH A 106 406 106 HOH HOH . 
F 6 HOH A 107 407 107 HOH HOH . 
F 6 HOH A 108 408 108 HOH HOH . 
F 6 HOH A 109 409 109 HOH HOH . 
F 6 HOH A 110 410 110 HOH HOH . 
F 6 HOH A 111 411 111 HOH HOH . 
F 6 HOH A 112 412 112 HOH HOH . 
F 6 HOH A 113 413 113 HOH HOH . 
F 6 HOH A 114 414 114 HOH HOH . 
F 6 HOH A 115 415 115 HOH HOH . 
F 6 HOH A 116 416 116 HOH HOH . 
F 6 HOH A 117 417 117 HOH HOH . 
F 6 HOH A 118 418 118 HOH HOH . 
F 6 HOH A 119 419 119 HOH HOH . 
F 6 HOH A 120 420 120 HOH HOH . 
F 6 HOH A 121 421 121 HOH HOH . 
F 6 HOH A 122 422 122 HOH HOH . 
F 6 HOH A 123 423 123 HOH HOH . 
F 6 HOH A 124 424 124 HOH HOH . 
F 6 HOH A 125 425 125 HOH HOH . 
F 6 HOH A 126 426 126 HOH HOH . 
F 6 HOH A 127 427 127 HOH HOH . 
F 6 HOH A 128 428 128 HOH HOH . 
F 6 HOH A 129 429 129 HOH HOH . 
F 6 HOH A 130 430 130 HOH HOH . 
F 6 HOH A 131 431 131 HOH HOH . 
F 6 HOH A 132 432 132 HOH HOH . 
F 6 HOH A 133 433 133 HOH HOH . 
F 6 HOH A 134 434 134 HOH HOH . 
F 6 HOH A 135 435 135 HOH HOH . 
F 6 HOH A 136 436 136 HOH HOH . 
F 6 HOH A 137 437 137 HOH HOH . 
F 6 HOH A 138 438 138 HOH HOH . 
F 6 HOH A 139 439 139 HOH HOH . 
F 6 HOH A 140 440 140 HOH HOH . 
F 6 HOH A 141 441 141 HOH HOH . 
F 6 HOH A 142 442 142 HOH HOH . 
F 6 HOH A 143 443 143 HOH HOH . 
F 6 HOH A 144 444 144 HOH HOH . 
F 6 HOH A 145 445 145 HOH HOH . 
F 6 HOH A 146 446 146 HOH HOH . 
F 6 HOH A 147 447 147 HOH HOH . 
F 6 HOH A 148 448 148 HOH HOH . 
F 6 HOH A 149 449 149 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 PG GSP . . . B 2 14.712 0.659 8.635 0.7 30.42 ? PG GSP 201 A 1 
HETATM 2 O O3B GSP . . . B 2 14.774 -0.178 7.19 1 26.4 ? O3B GSP 201 A 1 
HETATM 3 S S1G GSP . . . B 2 13.528 -0.193 9.554 0.7 36.43 ? S1G GSP 201 A 1 
HETATM 4 O O2G GSP . . . B 2 14.196 2.094 8.413 0.7 28.84 ? O2G GSP 201 A 1 
HETATM 5 O O3G GSP . . . B 2 16.067 0.716 9.316 0.7 26.63 ? O3G GSP 201 A 1 
HETATM 6 P PB GSP . . . B 2 15.897 0.049 6.05 1 24.71 ? PB GSP 201 A 1 
HETATM 7 O O1B GSP . . . B 2 15.399 0.899 4.952 1 22.35 ? O1B GSP 201 A 1 
HETATM 8 O O2B GSP . . . B 2 17.199 0.47 6.576 1 25.68 ? O2B GSP 201 A 1 
HETATM 9 P PA GSP . . . B 2 17.28 -2.458 5.429 1 26.69 ? PA GSP 201 A 1 
HETATM 10 O O1A GSP . . . B 2 18.529 -1.932 4.834 1 28.59 ? O1A GSP 201 A 1 
HETATM 11 O O2A GSP . . . B 2 17.464 -2.938 6.807 1 30.59 ? O2A GSP 201 A 1 
HETATM 12 O O3A GSP . . . B 2 16.067 -1.39 5.325 1 23.71 ? O3A GSP 201 A 1 
HETATM 13 O O5' GSP . . . B 2 16.781 -3.653 4.449 1 28.05 ? O5' GSP 201 A 1 
HETATM 14 C C5' GSP . . . B 2 15.559 -4.352 4.713 1 30.69 ? C5' GSP 201 A 1 
HETATM 15 C C4' GSP . . . B 2 15.544 -5.749 4.098 1 28.41 ? C4' GSP 201 A 1 
HETATM 16 O O4' GSP . . . B 2 15.653 -5.57 2.695 1 26.96 ? O4' GSP 201 A 1 
HETATM 17 C C3' GSP . . . B 2 16.72 -6.604 4.531 1 28.39 ? C3' GSP 201 A 1 
HETATM 18 O O3' GSP . . . B 2 16.358 -7.972 4.505 1 29.05 ? O3' GSP 201 A 1 
HETATM 19 C C2' GSP . . . B 2 17.76 -6.312 3.466 1 27.84 ? C2' GSP 201 A 1 
HETATM 20 O O2' GSP . . . B 2 18.695 -7.341 3.294 1 27.05 ? O2' GSP 201 A 1 
HETATM 21 C C1' GSP . . . B 2 16.867 -6.182 2.259 1 26.78 ? C1' GSP 201 A 1 
HETATM 22 N N9 GSP . . . B 2 17.444 -5.351 1.187 1 25.57 ? N9 GSP 201 A 1 
HETATM 23 C C8 GSP . . . B 2 17.968 -4.098 1.292 1 23.72 ? C8 GSP 201 A 1 
HETATM 24 N N7 GSP . . . B 2 18.338 -3.694 0.057 1 21.68 ? N7 GSP 201 A 1 
HETATM 25 C C5 GSP . . . B 2 18.079 -4.699 -0.836 1 21.54 ? C5 GSP 201 A 1 
HETATM 26 C C6 GSP . . . B 2 18.268 -4.826 -2.206 1 23.32 ? C6 GSP 201 A 1 
HETATM 27 O O6 GSP . . . B 2 18.795 -3.909 -2.895 1 23.63 ? O6 GSP 201 A 1 
HETATM 28 N N1 GSP . . . B 2 17.855 -5.988 -2.821 1 23.34 ? N1 GSP 201 A 1 
HETATM 29 C C2 GSP . . . B 2 17.267 -7.023 -2.088 1 26.4 ? C2 GSP 201 A 1 
HETATM 30 N N2 GSP . . . B 2 16.891 -8.142 -2.668 1 26.57 ? N2 GSP 201 A 1 
HETATM 31 N N3 GSP . . . B 2 17.093 -6.91 -0.721 1 25.1 ? N3 GSP 201 A 1 
HETATM 32 C C4 GSP . . . B 2 17.49 -5.745 -0.119 1 23.95 ? C4 GSP 201 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           18 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           32 
#