data_3JAW # _model_server_result.job_id PELdRONsa43a08hpIpOW7g _model_server_result.datetime_utc '2025-01-31 10:39:04' _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 3jaw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":501}' # _entry.id 3JAW # _exptl.entry_id 3JAW _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 539.246 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 3JAW _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3JAW _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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,H,I,J _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 ? _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 J N 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 OE2 GLU 71 A GLU 71 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.638 ? metalc ? metalc2 E O1B GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? metalc ? metalc3 E O1G GTP . A GTP 501 1_555 F MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.958 ? metalc ? metalc4 H O1B GTP . C GTP 501 1_555 I MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc5 H O1G GTP . C GTP 501 1_555 I MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? # _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 3JAW _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 E 3 GTP A 1 501 501 GTP GTP . F 4 MG A 1 502 502 MG MG . G 5 GSP B 1 501 501 GSP GSP . H 3 GTP C 1 501 501 GTP GTP . I 4 MG C 1 502 502 MG MG . J 5 GSP D 1 501 501 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 . . . J 5 390.196 238.532 317.718 1 78.02 ? PG GSP 501 D 1 HETATM 2 O O3B GSP . . . J 5 388.777 238.222 318.395 1 72.86 ? O3B GSP 501 D 1 HETATM 3 S S1G GSP . . . J 5 390.032 238.139 315.812 1 82.63 ? S1G GSP 501 D 1 HETATM 4 O O2G GSP . . . J 5 390.642 240.058 317.977 1 76.48 ? O2G GSP 501 D 1 HETATM 5 O O3G GSP . . . J 5 391.268 237.45 318.228 1 76.78 ? O3G GSP 501 D 1 HETATM 6 P PB GSP . . . J 5 388.603 238.616 319.936 1 67.99 ? PB GSP 501 D 1 HETATM 7 O O1B GSP . . . J 5 389.778 238.002 320.656 1 68.37 ? O1B GSP 501 D 1 HETATM 8 O O2B GSP . . . J 5 388.383 240.09 320.119 1 67.94 ? O2B GSP 501 D 1 HETATM 9 P PA GSP . . . J 5 385.873 238.195 319.784 1 62.99 ? PA GSP 501 D 1 HETATM 10 O O1A GSP . . . J 5 385.429 239.521 320.331 1 64.26 ? O1A GSP 501 D 1 HETATM 11 O O2A GSP . . . J 5 385.87 237.924 318.297 1 62.96 ? O2A GSP 501 D 1 HETATM 12 O O3A GSP . . . J 5 387.297 237.856 320.436 1 65.47 ? O3A GSP 501 D 1 HETATM 13 O O5' GSP . . . J 5 385.044 237.054 320.526 1 61.55 ? O5' GSP 501 D 1 HETATM 14 C C5' GSP . . . J 5 384.709 235.767 320.028 1 60.19 ? C5' GSP 501 D 1 HETATM 15 C C4' GSP . . . J 5 383.818 235.193 321.126 1 58.18 ? C4' GSP 501 D 1 HETATM 16 O O4' GSP . . . J 5 383.404 236.262 321.974 1 55.03 ? O4' GSP 501 D 1 HETATM 17 C C3' GSP . . . J 5 382.532 234.555 320.641 1 57.58 ? C3' GSP 501 D 1 HETATM 18 O O3' GSP . . . J 5 382.269 233.439 321.501 1 56.98 ? O3' GSP 501 D 1 HETATM 19 C C2' GSP . . . J 5 381.469 235.646 320.818 1 55.57 ? C2' GSP 501 D 1 HETATM 20 O O2' GSP . . . J 5 380.19 235.071 321.123 1 55.92 ? O2' GSP 501 D 1 HETATM 21 C C1' GSP . . . J 5 382.004 236.5 321.962 1 53.18 ? C1' GSP 501 D 1 HETATM 22 N N9 GSP . . . J 5 381.877 237.962 321.759 1 48.94 ? N9 GSP 501 D 1 HETATM 23 C C8 GSP . . . J 5 382.349 238.684 320.731 1 48.04 ? C8 GSP 501 D 1 HETATM 24 N N7 GSP . . . J 5 382.05 240.001 320.896 1 47.39 ? N7 GSP 501 D 1 HETATM 25 C C5 GSP . . . J 5 381.383 240.138 322.051 1 45.52 ? C5 GSP 501 D 1 HETATM 26 C C6 GSP . . . J 5 380.783 241.252 322.825 1 44.19 ? C6 GSP 501 D 1 HETATM 27 O O6 GSP . . . J 5 380.84 242.425 322.405 1 43.83 ? O6 GSP 501 D 1 HETATM 28 N N1 GSP . . . J 5 380.181 240.96 323.987 1 43.83 ? N1 GSP 501 D 1 HETATM 29 C C2 GSP . . . J 5 380.118 239.691 324.453 1 43.91 ? C2 GSP 501 D 1 HETATM 30 N N2 GSP . . . J 5 379.501 239.442 325.628 1 44.45 ? N2 GSP 501 D 1 HETATM 31 N N3 GSP . . . J 5 380.643 238.629 323.795 1 44.67 ? N3 GSP 501 D 1 HETATM 32 C C4 GSP . . . J 5 381.275 238.787 322.612 1 46.1 ? C4 GSP 501 D 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #