data_7SCX # _model_server_result.job_id CtU7iKlcBBmojPWQLj5PvA _model_server_result.datetime_utc '2024-11-27 02:10:49' _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 7scx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 7SCX # _exptl.entry_id 7SCX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 539.246 _entity.id 4 _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 116.715 _cell.angle_gamma 90 _cell.entry_id 7SCX _cell.length_a 121.95 _cell.length_b 38.77 _cell.length_c 68.24 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7SCX _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # _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 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -30.677488 0 60.955634 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 17 A SER 17 1_555 C MG MG . A MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc2 A OG1 THR 35 A THR 35 1_555 C MG MG . A MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc3 C MG MG . A MG 200 1_555 D O2G GSP . A GSP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc4 C MG MG . A MG 200 1_555 D O2B GSP . A GSP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc5 C MG MG . A MG 200 1_555 F O HOH . A HOH 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc6 C MG MG . A MG 200 1_555 F O HOH . A HOH 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? # _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 129 n n PG S1G GSP doub 130 n n PG O2G GSP sing 131 n n PG O3G GSP sing 132 n n O3B PB GSP sing 133 n n O2G HOG2 GSP sing 134 n n O3G HOG3 GSP sing 135 n n PB O1B GSP doub 136 n n PB O2B GSP sing 137 n n PB O3A GSP sing 138 n n O2B HOB2 GSP sing 139 n n PA O1A GSP doub 140 n n PA O2A GSP sing 141 n n PA O3A GSP sing 142 n n PA O5' GSP sing 143 n n O2A HOA2 GSP sing 144 n n O5' C5' GSP sing 145 n n C5' C4' GSP sing 146 n n C5' "H5'1" GSP sing 147 n n C5' "H5'2" GSP sing 148 n n C4' O4' GSP sing 149 n n C4' C3' GSP sing 150 n n C4' H4' GSP sing 151 n n O4' C1' GSP sing 152 n n C3' O3' GSP sing 153 n n C3' C2' GSP sing 154 n n C3' H3' GSP sing 155 n n O3' HO3' GSP sing 156 n n C2' O2' GSP sing 157 n n C2' C1' GSP sing 158 n n C2' H2' GSP sing 159 n n O2' HO2' GSP sing 160 n n C1' N9 GSP sing 161 n n C1' H1' GSP sing 162 n n N9 C8 GSP sing 163 n y N9 C4 GSP sing 164 n y C8 N7 GSP doub 165 n y C8 H8 GSP sing 166 n n N7 C5 GSP sing 167 n y C5 C6 GSP sing 168 n n C5 C4 GSP doub 169 n y C6 O6 GSP doub 170 n n C6 N1 GSP sing 171 n n N1 C2 GSP sing 172 n n N1 HN1 GSP sing 173 n n C2 N2 GSP sing 174 n n C2 N3 GSP doub 175 n n N2 HN21 GSP sing 176 n n N2 HN22 GSP sing 177 n n N3 C4 GSP sing 178 n n # _atom_sites.entry_id 7SCX _atom_sites.fract_transf_matrix[1][1] 0.0082 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004127 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025793 _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] 0.016405 _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 3 MG A 1 200 200 MG MG . D 4 GSP A 1 201 201 GSP GSP . E 5 PO4 A 1 202 202 PO4 PO4 . F 6 HOH A 1 301 382 HOH HOH . F 6 HOH A 2 302 363 HOH HOH . F 6 HOH A 3 303 392 HOH HOH . F 6 HOH A 4 304 344 HOH HOH . F 6 HOH A 5 305 388 HOH HOH . F 6 HOH A 6 306 379 HOH HOH . F 6 HOH A 7 307 337 HOH HOH . F 6 HOH A 8 308 323 HOH HOH . F 6 HOH A 9 309 312 HOH HOH . F 6 HOH A 10 310 338 HOH HOH . F 6 HOH A 11 311 313 HOH HOH . F 6 HOH A 12 312 327 HOH HOH . F 6 HOH A 13 313 376 HOH HOH . F 6 HOH A 14 314 315 HOH HOH . F 6 HOH A 15 315 322 HOH HOH . F 6 HOH A 16 316 350 HOH HOH . F 6 HOH A 17 317 368 HOH HOH . F 6 HOH A 18 318 304 HOH HOH . F 6 HOH A 19 319 331 HOH HOH . F 6 HOH A 20 320 395 HOH HOH . F 6 HOH A 21 321 302 HOH HOH . F 6 HOH A 22 322 345 HOH HOH . F 6 HOH A 23 323 393 HOH HOH . F 6 HOH A 24 324 301 HOH HOH . F 6 HOH A 25 325 384 HOH HOH . F 6 HOH A 26 326 372 HOH HOH . F 6 HOH A 27 327 310 HOH HOH . F 6 HOH A 28 328 348 HOH HOH . F 6 HOH A 29 329 386 HOH HOH . F 6 HOH A 30 330 355 HOH HOH . F 6 HOH A 31 331 335 HOH HOH . F 6 HOH A 32 332 389 HOH HOH . F 6 HOH A 33 333 307 HOH HOH . F 6 HOH A 34 334 324 HOH HOH . F 6 HOH A 35 335 390 HOH HOH . F 6 HOH A 36 336 378 HOH HOH . F 6 HOH A 37 337 306 HOH HOH . F 6 HOH A 38 338 334 HOH HOH . F 6 HOH A 39 339 311 HOH HOH . F 6 HOH A 40 340 303 HOH HOH . F 6 HOH A 41 341 317 HOH HOH . F 6 HOH A 42 342 320 HOH HOH . F 6 HOH A 43 343 305 HOH HOH . F 6 HOH A 44 344 353 HOH HOH . F 6 HOH A 45 345 359 HOH HOH . F 6 HOH A 46 346 351 HOH HOH . F 6 HOH A 47 347 308 HOH HOH . F 6 HOH A 48 348 381 HOH HOH . F 6 HOH A 49 349 321 HOH HOH . F 6 HOH A 50 350 360 HOH HOH . F 6 HOH A 51 351 343 HOH HOH . F 6 HOH A 52 352 367 HOH HOH . F 6 HOH A 53 353 316 HOH HOH . F 6 HOH A 54 354 328 HOH HOH . F 6 HOH A 55 355 361 HOH HOH . F 6 HOH A 56 356 354 HOH HOH . F 6 HOH A 57 357 325 HOH HOH . F 6 HOH A 58 358 352 HOH HOH . F 6 HOH A 59 359 332 HOH HOH . F 6 HOH A 60 360 346 HOH HOH . F 6 HOH A 61 361 349 HOH HOH . F 6 HOH A 62 362 319 HOH HOH . F 6 HOH A 63 363 336 HOH HOH . F 6 HOH A 64 364 326 HOH HOH . F 6 HOH A 65 365 342 HOH HOH . F 6 HOH A 66 366 370 HOH HOH . F 6 HOH A 67 367 385 HOH HOH . F 6 HOH A 68 368 329 HOH HOH . F 6 HOH A 69 369 357 HOH HOH . F 6 HOH A 70 370 362 HOH HOH . F 6 HOH A 71 371 314 HOH HOH . F 6 HOH A 72 372 374 HOH HOH . F 6 HOH A 73 373 366 HOH HOH . F 6 HOH A 74 374 358 HOH HOH . F 6 HOH A 75 375 364 HOH HOH . F 6 HOH A 76 376 318 HOH HOH . F 6 HOH A 77 377 330 HOH HOH . F 6 HOH A 78 378 356 HOH HOH . F 6 HOH A 79 379 371 HOH HOH . F 6 HOH A 80 380 391 HOH HOH . F 6 HOH A 81 381 309 HOH HOH . F 6 HOH A 82 382 347 HOH HOH . F 6 HOH A 83 383 373 HOH HOH . F 6 HOH A 84 384 375 HOH HOH . F 6 HOH A 85 385 380 HOH HOH . F 6 HOH A 86 386 339 HOH HOH . F 6 HOH A 87 387 369 HOH HOH . F 6 HOH A 88 388 394 HOH HOH . F 6 HOH A 89 389 387 HOH HOH . F 6 HOH A 90 390 377 HOH HOH . F 6 HOH A 91 391 383 HOH HOH . F 6 HOH A 92 392 396 HOH HOH . F 6 HOH A 93 393 341 HOH HOH . F 6 HOH A 94 394 365 HOH HOH . G 6 HOH B 1 801 811 HOH HOH . G 6 HOH B 2 802 812 HOH HOH . G 6 HOH B 3 803 803 HOH HOH . G 6 HOH B 4 804 801 HOH HOH . G 6 HOH B 5 805 810 HOH HOH . G 6 HOH B 6 806 815 HOH HOH . G 6 HOH B 7 807 805 HOH HOH . G 6 HOH B 8 808 819 HOH HOH . G 6 HOH B 9 809 807 HOH HOH . G 6 HOH B 10 810 340 HOH HOH . G 6 HOH B 11 811 806 HOH HOH . G 6 HOH B 12 812 818 HOH HOH . G 6 HOH B 13 813 814 HOH HOH . G 6 HOH B 14 814 802 HOH HOH . G 6 HOH B 15 815 816 HOH HOH . G 6 HOH B 16 816 813 HOH HOH . G 6 HOH B 17 817 817 HOH HOH . G 6 HOH B 18 818 823 HOH HOH . G 6 HOH B 19 819 809 HOH HOH . G 6 HOH B 20 820 822 HOH HOH . G 6 HOH B 21 821 804 HOH HOH . G 6 HOH B 22 822 808 HOH HOH . G 6 HOH B 23 823 821 HOH HOH . G 6 HOH B 24 824 820 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 . . . D 4 8.406 -12.33 25.97 1 31.97 ? PG GSP 201 A 1 HETATM 2 O O3B GSP . . . D 4 9.804 -11.541 25.632 1 30.06 ? O3B GSP 201 A 1 HETATM 3 S S1G GSP . . . D 4 8.909 -13.906 26.885 1 31.33 ? S1G GSP 201 A 1 HETATM 4 O O2G GSP . . . D 4 7.59 -11.463 26.829 1 32.64 ? O2G GSP 201 A 1 HETATM 5 O O3G GSP . . . D 4 7.671 -12.575 24.661 1 32.51 ? O3G GSP 201 A 1 HETATM 6 P PB GSP . . . D 4 9.934 -10.06 25.006 1 30.71 ? PB GSP 201 A 1 HETATM 7 O O1B GSP . . . D 4 10.004 -10.062 23.533 1 26.24 ? O1B GSP 201 A 1 HETATM 8 O O2B GSP . . . D 4 8.99 -9.037 25.557 1 27.96 ? O2B GSP 201 A 1 HETATM 9 P PA GSP . . . D 4 11.986 -8.585 26.526 1 29.53 ? PA GSP 201 A 1 HETATM 10 O O1A GSP . . . D 4 11.453 -7.288 26.158 1 28.58 ? O1A GSP 201 A 1 HETATM 11 O O2A GSP . . . D 4 11.405 -9.038 27.802 1 29.18 ? O2A GSP 201 A 1 HETATM 12 O O3A GSP . . . D 4 11.493 -9.713 25.418 1 32.9 ? O3A GSP 201 A 1 HETATM 13 O O5' GSP . . . D 4 13.547 -8.761 26.327 1 31.11 ? O5' GSP 201 A 1 HETATM 14 C C5' GSP . . . D 4 14.167 -9.958 26.761 1 30.14 ? C5' GSP 201 A 1 HETATM 15 C C4' GSP . . . D 4 15.63 -9.673 27.083 1 32.19 ? C4' GSP 201 A 1 HETATM 16 O O4' GSP . . . D 4 16.339 -8.985 26.069 1 33.11 ? O4' GSP 201 A 1 HETATM 17 C C3' GSP . . . D 4 15.693 -8.804 28.336 1 35.36 ? C3' GSP 201 A 1 HETATM 18 O O3' GSP . . . D 4 16.824 -9.165 29.073 1 37.21 ? O3' GSP 201 A 1 HETATM 19 C C2' GSP . . . D 4 15.874 -7.409 27.798 1 30.12 ? C2' GSP 201 A 1 HETATM 20 O O2' GSP . . . D 4 16.454 -6.55 28.737 1 34.4 ? O2' GSP 201 A 1 HETATM 21 C C1' GSP . . . D 4 16.752 -7.707 26.596 1 33.24 ? C1' GSP 201 A 1 HETATM 22 N N9 GSP . . . D 4 16.645 -6.757 25.489 1 34.57 ? N9 GSP 201 A 1 HETATM 23 C C8 GSP . . . D 4 15.487 -6.275 24.926 1 30.5 ? C8 GSP 201 A 1 HETATM 24 N N7 GSP . . . D 4 15.842 -5.484 23.889 1 33.32 ? N7 GSP 201 A 1 HETATM 25 C C5 GSP . . . D 4 17.194 -5.41 23.822 1 32.11 ? C5 GSP 201 A 1 HETATM 26 C C6 GSP . . . D 4 18.078 -4.724 23.006 1 34.82 ? C6 GSP 201 A 1 HETATM 27 O O6 GSP . . . D 4 17.699 -3.964 22.074 1 31.95 ? O6 GSP 201 A 1 HETATM 28 N N1 GSP . . . D 4 19.441 -4.935 23.22 1 35.6 ? N1 GSP 201 A 1 HETATM 29 C C2 GSP . . . D 4 19.921 -5.758 24.231 1 37.45 ? C2 GSP 201 A 1 HETATM 30 N N2 GSP . . . D 4 21.196 -5.955 24.41 1 32.95 ? N2 GSP 201 A 1 HETATM 31 N N3 GSP . . . D 4 19.052 -6.41 25.056 1 35.24 ? N3 GSP 201 A 1 HETATM 32 C C4 GSP . . . D 4 17.701 -6.252 24.835 1 33.66 ? C4 GSP 201 A 1 HETATM 33 H HOG2 GSP . . . D 4 7.843 -10.526 26.961 1 39.23 ? HOG2 GSP 201 A 1 HETATM 34 H HOG3 GSP . . . D 4 7.192 -11.84 24.223 1 39.07 ? HOG3 GSP 201 A 1 HETATM 35 H "H5'1" GSP . . . D 4 13.659 -10.341 27.646 1 36.23 ? "H5'1" GSP 201 A 1 HETATM 36 H "H5'2" GSP . . . D 4 14.099 -10.716 25.981 1 36.23 ? "H5'2" GSP 201 A 1 HETATM 37 H H4' GSP . . . D 4 16.103 -10.649 27.199 1 38.69 ? H4' GSP 201 A 1 HETATM 38 H H3' GSP . . . D 4 14.82 -8.902 28.982 1 42.5 ? H3' GSP 201 A 1 HETATM 39 H HO3' GSP . . . D 4 16.551 -9.682 29.859 1 44.72 ? HO3' GSP 201 A 1 HETATM 40 H H2' GSP . . . D 4 14.959 -6.871 27.552 1 36.2 ? H2' GSP 201 A 1 HETATM 41 H HO2' GSP . . . D 4 17.382 -6.364 28.481 1 41.34 ? HO2' GSP 201 A 1 HETATM 42 H H1' GSP . . . D 4 17.775 -7.661 26.971 1 39.95 ? H1' GSP 201 A 1 HETATM 43 H H8 GSP . . . D 4 14.47 -6.491 25.255 1 36.66 ? H8 GSP 201 A 1 HETATM 44 H HN21 GSP . . . D 4 21.515 -6.577 25.146 1 39.6 ? HN21 GSP 201 A 1 HETATM 45 H HN22 GSP . . . D 4 21.871 -5.486 23.814 1 39.6 ? HN22 GSP 201 A 1 HETATM 46 H HN3 GSP . . . D 4 19.4 -7.01 25.831 1 42.35 ? HN3 GSP 201 A 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 46 #