data_3TGP # _model_server_result.job_id G-QKhhVhFDNBqPsZitfMtA _model_server_result.datetime_utc '2024-11-26 12:11:07' _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 3tgp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":167}' # _entry.id 3TGP # _exptl.entry_id 3TGP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _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 3TGP _cell.length_a 40.1 _cell.length_b 40.1 _cell.length_c 160.6 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TGP _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _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 _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 17 A SER 17 1_555 C MG MG . A MG 168 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc2 A OG SER 17 A SER 17 1_555 C MG MG . A MG 168 1_555 ? C ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc3 A OG1 THR 35 A THR 35 1_555 C MG MG . A MG 168 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc4 A OG1 THR 35 A THR 35 1_555 C MG MG . A MG 168 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.218 ? metalc ? metalc5 B O3G GNP . A GNP 167 1_555 C MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc6 B O2B GNP . A GNP 167 1_555 C MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc7 C MG MG . A MG 168 1_555 D O HOH . A HOH 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc8 C MG MG . A MG 168 1_555 D O HOH . A HOH 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? # _chem_comp.formula 'C10 H17 N6 O13 P3' _chem_comp.formula_weight 522.196 _chem_comp.id GNP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER' _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 O1G GNP doub 129 n n PG O2G GNP sing 130 n n PG O3G GNP sing 131 n n PG N3B GNP sing 132 n n O2G HOG2 GNP sing 133 n n O3G HOG3 GNP sing 134 n n N3B PB GNP sing 135 n n N3B HNB3 GNP sing 136 n n PB O1B GNP doub 137 n n PB O2B GNP sing 138 n n PB O3A GNP sing 139 n n O2B HOB2 GNP sing 140 n n O3A PA GNP sing 141 n n PA O1A GNP doub 142 n n PA O2A GNP sing 143 n n PA O5' GNP sing 144 n n O2A HOA2 GNP sing 145 n n O5' C5' GNP sing 146 n n C5' C4' GNP sing 147 n n C5' "H5'2" GNP sing 148 n n C5' "H5'1" GNP sing 149 n n C4' O4' GNP sing 150 n n C4' C3' GNP sing 151 n n C4' H4' GNP sing 152 n n O4' C1' GNP sing 153 n n C3' O3' GNP sing 154 n n C3' C2' GNP sing 155 n n C3' H3' GNP sing 156 n n O3' HO3' GNP sing 157 n n C2' O2' GNP sing 158 n n C2' C1' GNP sing 159 n n C2' H2' GNP sing 160 n n O2' HO2' GNP sing 161 n n C1' N9 GNP sing 162 n n C1' H1' GNP sing 163 n n N9 C8 GNP sing 164 n y N9 C4 GNP sing 165 n y C8 N7 GNP doub 166 n y C8 H8 GNP sing 167 n n N7 C5 GNP sing 168 n y C5 C6 GNP sing 169 n y C5 C4 GNP doub 170 n y C6 O6 GNP doub 171 n n C6 N1 GNP sing 172 n y N1 C2 GNP sing 173 n y N1 HN1 GNP sing 174 n n C2 N2 GNP sing 175 n n C2 N3 GNP doub 176 n y N2 HN21 GNP sing 177 n n N2 HN22 GNP sing 178 n n N3 C4 GNP sing 179 n y # _atom_sites.entry_id 3TGP _atom_sites.fract_transf_matrix[1][1] 0.024938 _atom_sites.fract_transf_matrix[1][2] 0.014398 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.028796 _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] 0.006227 _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 GNP A 1 167 167 GNP GNP . C 3 MG A 1 168 168 MG MG . D 4 HOH A 1 169 169 HOH HOH . D 4 HOH A 2 170 170 HOH HOH . D 4 HOH A 3 171 171 HOH HOH . D 4 HOH A 4 172 172 HOH HOH . D 4 HOH A 5 173 173 HOH HOH . D 4 HOH A 6 174 174 HOH HOH . D 4 HOH A 7 175 175 HOH HOH . D 4 HOH A 8 176 176 HOH HOH . D 4 HOH A 9 177 177 HOH HOH . D 4 HOH A 10 178 178 HOH HOH . D 4 HOH A 11 179 179 HOH HOH . D 4 HOH A 12 180 180 HOH HOH . D 4 HOH A 13 181 181 HOH HOH . D 4 HOH A 14 182 182 HOH HOH . D 4 HOH A 15 183 183 HOH HOH . D 4 HOH A 16 184 184 HOH HOH . D 4 HOH A 17 185 185 HOH HOH . D 4 HOH A 18 186 186 HOH HOH . D 4 HOH A 19 187 187 HOH HOH . D 4 HOH A 20 188 188 HOH HOH . D 4 HOH A 21 189 189 HOH HOH . D 4 HOH A 22 190 190 HOH HOH . D 4 HOH A 23 191 191 HOH HOH . D 4 HOH A 24 192 192 HOH HOH . D 4 HOH A 25 193 193 HOH HOH . D 4 HOH A 26 194 194 HOH HOH . D 4 HOH A 27 195 195 HOH HOH . D 4 HOH A 28 196 196 HOH HOH . D 4 HOH A 29 197 197 HOH HOH . D 4 HOH A 30 198 198 HOH HOH . D 4 HOH A 31 199 199 HOH HOH . D 4 HOH A 32 200 200 HOH HOH . D 4 HOH A 33 201 201 HOH HOH . D 4 HOH A 34 202 202 HOH HOH . D 4 HOH A 35 203 203 HOH HOH . D 4 HOH A 36 204 204 HOH HOH . D 4 HOH A 37 205 205 HOH HOH . D 4 HOH A 38 206 206 HOH HOH . D 4 HOH A 39 207 207 HOH HOH . D 4 HOH A 40 208 208 HOH HOH . D 4 HOH A 41 209 209 HOH HOH . D 4 HOH A 42 210 210 HOH HOH . D 4 HOH A 43 211 211 HOH HOH . D 4 HOH A 44 212 212 HOH HOH . D 4 HOH A 45 213 213 HOH HOH . D 4 HOH A 46 214 214 HOH HOH . D 4 HOH A 47 215 215 HOH HOH . D 4 HOH A 48 216 216 HOH HOH . D 4 HOH A 49 217 217 HOH HOH . D 4 HOH A 50 218 218 HOH HOH . D 4 HOH A 51 219 219 HOH HOH . D 4 HOH A 52 220 220 HOH HOH . D 4 HOH A 53 221 221 HOH HOH . D 4 HOH A 54 222 222 HOH HOH . D 4 HOH A 55 223 223 HOH HOH . D 4 HOH A 56 224 224 HOH HOH . D 4 HOH A 57 225 225 HOH HOH . D 4 HOH A 58 226 226 HOH HOH . D 4 HOH A 59 227 227 HOH HOH . D 4 HOH A 60 228 228 HOH HOH . D 4 HOH A 61 229 229 HOH HOH . D 4 HOH A 62 230 230 HOH HOH . D 4 HOH A 63 231 231 HOH HOH . D 4 HOH A 64 232 232 HOH HOH . D 4 HOH A 65 233 233 HOH HOH . D 4 HOH A 66 234 234 HOH HOH . D 4 HOH A 67 235 235 HOH HOH . D 4 HOH A 68 236 236 HOH HOH . D 4 HOH A 69 237 237 HOH HOH . D 4 HOH A 70 238 238 HOH HOH . D 4 HOH A 71 239 239 HOH HOH . D 4 HOH A 72 240 240 HOH HOH . D 4 HOH A 73 241 241 HOH HOH . D 4 HOH A 74 242 242 HOH HOH . D 4 HOH A 75 243 243 HOH HOH . D 4 HOH A 76 244 244 HOH HOH . D 4 HOH A 77 245 245 HOH HOH . D 4 HOH A 78 246 246 HOH HOH . D 4 HOH A 79 247 247 HOH HOH . D 4 HOH A 80 248 248 HOH HOH . D 4 HOH A 81 249 249 HOH HOH . D 4 HOH A 82 250 250 HOH HOH . D 4 HOH A 83 251 251 HOH HOH . D 4 HOH A 84 252 252 HOH HOH . D 4 HOH A 85 253 253 HOH HOH . D 4 HOH A 86 254 254 HOH HOH . D 4 HOH A 87 255 255 HOH HOH . D 4 HOH A 88 256 256 HOH HOH . D 4 HOH A 89 257 257 HOH HOH . D 4 HOH A 90 258 258 HOH HOH . D 4 HOH A 91 259 259 HOH HOH . D 4 HOH A 92 260 260 HOH HOH . D 4 HOH A 93 261 261 HOH HOH . D 4 HOH A 94 262 262 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 GNP . . . B 2 4.838 31.944 21.807 1 15.09 ? PG GNP 167 A 1 HETATM 2 O O1G GNP . . . B 2 4.646 32.527 23.191 1 17.26 ? O1G GNP 167 A 1 HETATM 3 O O2G GNP . . . B 2 4.487 30.478 21.74 1 15.03 ? O2G GNP 167 A 1 HETATM 4 O O3G GNP . . . B 2 4.103 32.861 20.852 1 15.83 ? O3G GNP 167 A 1 HETATM 5 N N3B GNP . . . B 2 6.383 32.074 21.394 1 13.37 ? N3B GNP 167 A 1 HETATM 6 P PB GNP . . . B 2 7.036 31.844 19.943 1 13.79 ? PB GNP 167 A 1 HETATM 7 O O1B GNP . . . B 2 7.181 30.394 19.688 1 15.91 ? O1B GNP 167 A 1 HETATM 8 O O2B GNP . . . B 2 6.302 32.628 18.913 1 13.19 ? O2B GNP 167 A 1 HETATM 9 O O3A GNP . . . B 2 8.47 32.391 20.035 1 13.94 ? O3A GNP 167 A 1 HETATM 10 P PA GNP . . . B 2 8.972 33.775 19.592 1 14.47 ? PA GNP 167 A 1 HETATM 11 O O1A GNP . . . B 2 8.991 33.814 18.11 1 15.36 ? O1A GNP 167 A 1 HETATM 12 O O2A GNP . . . B 2 8.269 34.851 20.33 1 14.98 ? O2A GNP 167 A 1 HETATM 13 O O5' GNP . . . B 2 10.49 33.854 20.026 1 15.05 ? O5' GNP 167 A 1 HETATM 14 C C5' GNP . . . B 2 10.844 33.605 21.387 1 15.3 ? C5' GNP 167 A 1 HETATM 15 C C4' GNP . . . B 2 12.241 34.123 21.671 1 14.79 ? C4' GNP 167 A 1 HETATM 16 O O4' GNP . . . B 2 13.21 33.326 20.941 1 16.4 ? O4' GNP 167 A 1 HETATM 17 C C3' GNP . . . B 2 12.479 35.569 21.255 1 17.37 ? C3' GNP 167 A 1 HETATM 18 O O3' GNP . . . B 2 13.366 36.198 22.172 1 21.98 ? O3' GNP 167 A 1 HETATM 19 C C2' GNP . . . B 2 13.115 35.402 19.881 1 16.26 ? C2' GNP 167 A 1 HETATM 20 O O2' GNP . . . B 2 13.943 36.487 19.524 1 21.86 ? O2' GNP 167 A 1 HETATM 21 C C1' GNP . . . B 2 13.969 34.164 20.098 1 16.74 ? C1' GNP 167 A 1 HETATM 22 N N9 GNP . . . B 2 14.235 33.461 18.852 1 17.62 ? N9 GNP 167 A 1 HETATM 23 C C8 GNP . . . B 2 13.303 33.016 17.941 1 13.91 ? C8 GNP 167 A 1 HETATM 24 N N7 GNP . . . B 2 13.839 32.42 16.912 1 12.22 ? N7 GNP 167 A 1 HETATM 25 C C5 GNP . . . B 2 15.205 32.473 17.16 1 12.92 ? C5 GNP 167 A 1 HETATM 26 C C6 GNP . . . B 2 16.292 31.986 16.399 1 17.64 ? C6 GNP 167 A 1 HETATM 27 O O6 GNP . . . B 2 16.26 31.392 15.314 1 16.12 ? O6 GNP 167 A 1 HETATM 28 N N1 GNP . . . B 2 17.519 32.242 17.007 1 15.76 ? N1 GNP 167 A 1 HETATM 29 C C2 GNP . . . B 2 17.683 32.893 18.205 1 19.59 ? C2 GNP 167 A 1 HETATM 30 N N2 GNP . . . B 2 18.946 33.052 18.63 1 19.15 ? N2 GNP 167 A 1 HETATM 31 N N3 GNP . . . B 2 16.67 33.354 18.929 1 17.02 ? N3 GNP 167 A 1 HETATM 32 C C4 GNP . . . B 2 15.467 33.111 18.349 1 16.33 ? C4 GNP 167 A 1 HETATM 33 H "H5'2" GNP . . . B 2 10.815 32.64 21.558 1 18.36 ? "H5'2" GNP 167 A 1 HETATM 34 H "H5'1" GNP . . . B 2 10.205 34.058 21.976 1 18.36 ? "H5'1" GNP 167 A 1 HETATM 35 H H4' GNP . . . B 2 12.42 34.037 22.631 1 17.75 ? H4' GNP 167 A 1 HETATM 36 H H3' GNP . . . B 2 11.632 36.058 21.191 1 20.85 ? H3' GNP 167 A 1 HETATM 37 H HO3' GNP . . . B 2 13.621 35.552 22.864 1 26.38 ? HO3' GNP 167 A 1 HETATM 38 H H2' GNP . . . B 2 12.432 35.239 19.197 1 19.51 ? H2' GNP 167 A 1 HETATM 39 H HO2' GNP . . . B 2 13.538 36.962 18.768 1 26.23 ? HO2' GNP 167 A 1 HETATM 40 H H1' GNP . . . B 2 14.811 34.408 20.535 1 20.09 ? H1' GNP 167 A 1 HETATM 41 H H8 GNP . . . B 2 12.346 33.218 18.008 1 16.69 ? H8 GNP 167 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 330 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 41 #