data_5FBR
#
_model_server_result.job_id            4CI4X8FwIbv7BwyUrOKnzA 
_model_server_result.datetime_utc      '2024-11-26 01:10:48' 
_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          5fbr 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":301}' 
#
_entry.id    5FBR 
#
_exptl.entry_id    5FBR 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            5FBR 
_cell.length_a            49.266 
_cell.length_b            103.937 
_cell.length_c            187.646 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5FBR 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
#
_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                      4 
_struct_asym.id                             D 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_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 201 n n 
PG S1G GSP doub 202 n n 
PG O2G GSP sing 203 n n 
PG O3G GSP sing 204 n n 
O3B PB GSP sing 205 n n 
O2G HOG2 GSP sing 206 n n 
O3G HOG3 GSP sing 207 n n 
PB O1B GSP doub 208 n n 
PB O2B GSP sing 209 n n 
PB O3A GSP sing 210 n n 
O2B HOB2 GSP sing 211 n n 
PA O1A GSP doub 212 n n 
PA O2A GSP sing 213 n n 
PA O3A GSP sing 214 n n 
PA O5' GSP sing 215 n n 
O2A HOA2 GSP sing 216 n n 
O5' C5' GSP sing 217 n n 
C5' C4' GSP sing 218 n n 
C5' "H5'1" GSP sing 219 n n 
C5' "H5'2" GSP sing 220 n n 
C4' O4' GSP sing 221 n n 
C4' C3' GSP sing 222 n n 
C4' H4' GSP sing 223 n n 
O4' C1' GSP sing 224 n n 
C3' O3' GSP sing 225 n n 
C3' C2' GSP sing 226 n n 
C3' H3' GSP sing 227 n n 
O3' HO3' GSP sing 228 n n 
C2' O2' GSP sing 229 n n 
C2' C1' GSP sing 230 n n 
C2' H2' GSP sing 231 n n 
O2' HO2' GSP sing 232 n n 
C1' N9 GSP sing 233 n n 
C1' H1' GSP sing 234 n n 
N9 C8 GSP sing 235 n y 
N9 C4 GSP sing 236 n y 
C8 N7 GSP doub 237 n y 
C8 H8 GSP sing 238 n n 
N7 C5 GSP sing 239 n y 
C5 C6 GSP sing 240 n n 
C5 C4 GSP doub 241 n y 
C6 O6 GSP doub 242 n n 
C6 N1 GSP sing 243 n n 
N1 C2 GSP sing 244 n n 
N1 HN1 GSP sing 245 n n 
C2 N2 GSP sing 246 n n 
C2 N3 GSP doub 247 n n 
N2 HN21 GSP sing 248 n n 
N2 HN22 GSP sing 249 n n 
N3 C4 GSP sing 250 n n 
#
_atom_sites.entry_id                     5FBR 
_atom_sites.fract_transf_matrix[1][1]    0.020298 
_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]    0.009621 
_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]    0.005329 
_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 5W7 A 1 801 1 5W7 359 . 
D 4 GSP B 1 301 1 GSP GSP . 
#
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 -7.518 -46.016 15.766 1 101.8 ? PG GSP 301 B 1 
HETATM 2 O O3B GSP . . . D 4 -8.999 -45.966 16.289 1 97.5 ? O3B GSP 301 B 1 
HETATM 3 S S1G GSP . . . D 4 -6.705 -44.281 16.117 1 121.13 ? S1G GSP 301 B 1 
HETATM 4 O O2G GSP . . . D 4 -6.734 -47.141 16.498 1 118.86 ? O2G GSP 301 B 1 
HETATM 5 O O3G GSP . . . D 4 -7.469 -46.312 14.217 1 94.84 ? O3G GSP 301 B 1 
HETATM 6 P PB GSP . . . D 4 -10.241 -46.282 15.356 1 92.45 ? PB GSP 301 B 1 
HETATM 7 O O1B GSP . . . D 4 -9.704 -46.548 13.988 1 108.92 ? O1B GSP 301 B 1 
HETATM 8 O O2B GSP . . . D 4 -10.954 -47.519 15.857 1 103.24 ? O2B GSP 301 B 1 
HETATM 9 P PA GSP . . . D 4 -10.837 -43.623 14.685 1 101.74 ? PA GSP 301 B 1 
HETATM 10 O O1A GSP . . . D 4 -9.403 -43.332 15.032 1 107.07 ? O1A GSP 301 B 1 
HETATM 11 O O2A GSP . . . D 4 -11.696 -42.548 15.269 1 105.47 ? O2A GSP 301 B 1 
HETATM 12 O O3A GSP . . . D 4 -11.243 -45.034 15.278 1 95.62 ? O3A GSP 301 B 1 
HETATM 13 O O5' GSP . . . D 4 -11.007 -43.629 13.095 1 101.92 ? O5' GSP 301 B 1 
HETATM 14 C C5' GSP . . . D 4 -12.008 -44.546 12.554 1 104.51 ? C5' GSP 301 B 1 
HETATM 15 C C4' GSP . . . D 4 -12.554 -44.024 11.241 1 100.47 ? C4' GSP 301 B 1 
HETATM 16 O O4' GSP . . . D 4 -13.663 -44.627 11.008 1 101.12 ? O4' GSP 301 B 1 
HETATM 17 C C3' GSP . . . D 4 -12.856 -42.39 11.3 1 100.24 ? C3' GSP 301 B 1 
HETATM 18 O O3' GSP . . . D 4 -12.305 -41.758 10.105 1 102.17 ? O3' GSP 301 B 1 
HETATM 19 C C2' GSP . . . D 4 -14.083 -42.22 11.329 1 98.86 ? C2' GSP 301 B 1 
HETATM 20 O O2' GSP . . . D 4 -14.438 -41.067 10.417 1 104.9 ? O2' GSP 301 B 1 
HETATM 21 C C1' GSP . . . D 4 -14.708 -43.554 10.755 1 98.61 ? C1' GSP 301 B 1 
HETATM 22 N N9 GSP . . . D 4 -15.854 -43.903 11.287 1 101.71 ? N9 GSP 301 B 1 
HETATM 23 C C8 GSP . . . D 4 -15.61 -44.165 12.6 1 99.48 ? C8 GSP 301 B 1 
HETATM 24 N N7 GSP . . . D 4 -16.786 -44.543 13.162 1 96.32 ? N7 GSP 301 B 1 
HETATM 25 C C5 GSP . . . D 4 -17.747 -44.532 12.194 1 95.82 ? C5 GSP 301 B 1 
HETATM 26 C C6 GSP . . . D 4 -19.24 -44.867 12.233 1 98.26 ? C6 GSP 301 B 1 
HETATM 27 O O6 GSP . . . D 4 -19.758 -45.218 13.27 1 104.88 ? O6 GSP 301 B 1 
HETATM 28 N N1 GSP . . . D 4 -20.015 -44.769 11.061 1 99.44 ? N1 GSP 301 B 1 
HETATM 29 C C2 GSP . . . D 4 -19.397 -44.357 9.846 1 101.21 ? C2 GSP 301 B 1 
HETATM 30 N N2 GSP . . . D 4 -20.173 -44.252 8.642 1 102.48 ? N2 GSP 301 B 1 
HETATM 31 N N3 GSP . . . D 4 -17.961 -44.037 9.813 1 105.17 ? N3 GSP 301 B 1 
HETATM 32 C C4 GSP . . . D 4 -17.17 -44.141 11.032 1 103.61 ? C4 GSP 301 B 1 
HETATM 33 H HOG2 GSP . . . D 4 -7.185 -47.927 16.418 1 142.63 ? HOG2 GSP 301 B 1 
HETATM 34 H HOG3 GSP . . . D 4 -6.644 -46.259 13.936 1 113.8 ? HOG3 GSP 301 B 1 
HETATM 35 H "H5'1" GSP . . . D 4 -11.593 -45.43 12.406 1 125.41 ? "H5'1" GSP 301 B 1 
HETATM 36 H "H5'2" GSP . . . D 4 -12.744 -44.638 13.198 1 125.41 ? "H5'2" GSP 301 B 1 
HETATM 37 H H4' GSP . . . D 4 -11.918 -44.216 10.519 1 120.56 ? H4' GSP 301 B 1 
HETATM 38 H H3' GSP . . . D 4 -12.444 -42.002 12.108 1 120.29 ? H3' GSP 301 B 1 
HETATM 39 H HO3' GSP . . . D 4 -12.1 -40.92 10.283 1 122.6 ? HO3' GSP 301 B 1 
HETATM 40 H H2' GSP . . . D 4 -14.393 -42.053 12.243 1 118.63 ? H2' GSP 301 B 1 
HETATM 41 H HO2' GSP . . . D 4 -14.099 -40.307 10.75 1 125.88 ? HO2' GSP 301 B 1 
HETATM 42 H H1' GSP . . . D 4 -14.829 -43.452 9.782 1 118.33 ? H1' GSP 301 B 1 
HETATM 43 H H8 GSP . . . D 4 -14.738 -44.078 13.065 1 119.38 ? H8 GSP 301 B 1 
HETATM 44 H HN1 GSP . . . D 4 -20.92 -44.969 11.081 1 119.32 ? HN1 GSP 301 B 1 
HETATM 45 H HN21 GSP . . . D 4 -19.777 -43.988 7.866 1 122.97 ? HN21 GSP 301 B 1 
HETATM 46 H HN22 GSP . . . D 4 -21.071 -44.449 8.654 1 122.97 ? HN22 GSP 301 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           46 
#