data_3TH5 # _model_server_result.job_id T-c2RkSShaoKuWoEcuyOuw _model_server_result.datetime_utc '2024-12-21 02:06:47' _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 3th5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1001}' # _entry.id 3TH5 # _exptl.entry_id 3TH5 _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.59 _cell.angle_gamma 90 _cell.entry_id 3TH5 _cell.length_a 40.925 _cell.length_b 97.851 _cell.length_c 51.733 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TH5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E 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 OG1 THR 44 A THR 17 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc2 A OG1 THR 62 A THR 35 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.835 ? metalc ? metalc3 G O HOH . A HOH 187 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? metalc ? metalc4 G O HOH . A HOH 188 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc5 C O2G GNP . A GNP 1001 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.942 ? metalc ? metalc6 C O2B GNP . A GNP 1001 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? metalc ? metalc7 B OG1 THR 44 B THR 17 1_555 F MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.881 ? metalc ? metalc8 B OG1 THR 62 B THR 35 1_555 F MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc9 H O HOH . B HOH 184 1_555 F MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc10 H O HOH . B HOH 186 1_555 F MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.949 ? metalc ? metalc11 E O2B GNP . B GNP 1001 1_555 F MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? metalc ? metalc12 E O2G GNP . B GNP 1001 1_555 F MG MG . B MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? # _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 3TH5 _atom_sites.fract_transf_matrix[1][1] 0.024435 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002823 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01022 _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] 0.019459 _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 2 GNP A 1 1001 1001 GNP GNP . D 3 MG A 1 1002 1002 MG MG . E 2 GNP B 1 1001 1001 GNP GNP . F 3 MG B 1 1002 1002 MG MG . G 4 HOH A 1 178 2 HOH HOH . G 4 HOH A 2 179 4 HOH HOH . G 4 HOH A 3 180 6 HOH HOH . G 4 HOH A 4 181 7 HOH HOH . G 4 HOH A 5 182 8 HOH HOH . G 4 HOH A 6 183 9 HOH HOH . G 4 HOH A 7 184 12 HOH HOH . G 4 HOH A 8 185 13 HOH HOH . G 4 HOH A 9 186 18 HOH HOH . G 4 HOH A 10 187 22 HOH HOH . G 4 HOH A 11 188 23 HOH HOH . H 4 HOH B 1 178 1 HOH HOH . H 4 HOH B 2 179 3 HOH HOH . H 4 HOH B 3 180 5 HOH HOH . H 4 HOH B 4 181 10 HOH HOH . H 4 HOH B 5 182 11 HOH HOH . H 4 HOH B 6 183 14 HOH HOH . H 4 HOH B 7 184 15 HOH HOH . H 4 HOH B 8 185 16 HOH HOH . H 4 HOH B 9 186 17 HOH HOH . H 4 HOH B 10 187 19 HOH HOH . H 4 HOH B 11 188 20 HOH HOH . H 4 HOH B 12 189 21 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 . . . C 2 -12.08 -8.738 -6.234 1 49.12 ? PG GNP 1001 A 1 HETATM 2 O O1G GNP . . . C 2 -11.198 -9.443 -7.233 1 48.84 ? O1G GNP 1001 A 1 HETATM 3 O O2G GNP . . . C 2 -11.444 -7.574 -5.52 1 48.64 ? O2G GNP 1001 A 1 HETATM 4 O O3G GNP . . . C 2 -13.324 -8.396 -7.03 1 49.99 ? O3G GNP 1001 A 1 HETATM 5 N N3B GNP . . . C 2 -12.557 -9.767 -5.113 1 47.73 ? N3B GNP 1001 A 1 HETATM 6 P PB GNP . . . C 2 -11.608 -10.316 -3.958 1 46.79 ? PB GNP 1001 A 1 HETATM 7 O O1B GNP . . . C 2 -10.719 -11.372 -4.495 1 45.63 ? O1B GNP 1001 A 1 HETATM 8 O O2B GNP . . . C 2 -10.98 -9.117 -3.361 1 45.81 ? O2B GNP 1001 A 1 HETATM 9 O O3A GNP . . . C 2 -12.465 -11.012 -2.891 1 46.61 ? O3A GNP 1001 A 1 HETATM 10 P PA GNP . . . C 2 -12.973 -10.361 -1.592 1 47.19 ? PA GNP 1001 A 1 HETATM 11 O O1A GNP . . . C 2 -11.873 -10.307 -0.599 1 47.37 ? O1A GNP 1001 A 1 HETATM 12 O O2A GNP . . . C 2 -13.643 -9.078 -1.885 1 47.65 ? O2A GNP 1001 A 1 HETATM 13 O O5' GNP . . . C 2 -14.046 -11.355 -0.99 1 47.2 ? O5' GNP 1001 A 1 HETATM 14 C C5' GNP . . . C 2 -15.097 -11.888 -1.82 1 47.85 ? C5' GNP 1001 A 1 HETATM 15 C C4' GNP . . . C 2 -16.202 -12.587 -1.034 1 47.5 ? C4' GNP 1001 A 1 HETATM 16 O O4' GNP . . . C 2 -15.68 -13.774 -0.382 1 47.63 ? O4' GNP 1001 A 1 HETATM 17 C C3' GNP . . . C 2 -16.876 -11.775 0.071 1 47.92 ? C3' GNP 1001 A 1 HETATM 18 O O3' GNP . . . C 2 -18.264 -12.103 0.14 1 48.81 ? O3' GNP 1001 A 1 HETATM 19 C C2' GNP . . . C 2 -16.145 -12.241 1.324 1 47.65 ? C2' GNP 1001 A 1 HETATM 20 O O2' GNP . . . C 2 -16.906 -12.102 2.504 1 48.74 ? O2' GNP 1001 A 1 HETATM 21 C C1' GNP . . . C 2 -15.913 -13.715 1.012 1 47.65 ? C1' GNP 1001 A 1 HETATM 22 N N9 GNP . . . C 2 -14.734 -14.24 1.694 1 48.02 ? N9 GNP 1001 A 1 HETATM 23 C C8 GNP . . . C 2 -13.456 -13.73 1.611 1 47.61 ? C8 GNP 1001 A 1 HETATM 24 N N7 GNP . . . C 2 -12.587 -14.383 2.325 1 47.97 ? N7 GNP 1001 A 1 HETATM 25 C C5 GNP . . . C 2 -13.33 -15.392 2.924 1 47.61 ? C5 GNP 1001 A 1 HETATM 26 C C6 GNP . . . C 2 -12.918 -16.416 3.813 1 47.96 ? C6 GNP 1001 A 1 HETATM 27 O O6 GNP . . . C 2 -11.774 -16.624 4.251 1 48.17 ? O6 GNP 1001 A 1 HETATM 28 N N1 GNP . . . C 2 -13.985 -17.245 4.194 1 47.71 ? N1 GNP 1001 A 1 HETATM 29 C C2 GNP . . . C 2 -15.29 -17.088 3.763 1 47.44 ? C2 GNP 1001 A 1 HETATM 30 N N2 GNP . . . C 2 -16.186 -17.967 4.232 1 47.35 ? N2 GNP 1001 A 1 HETATM 31 N N3 GNP . . . C 2 -15.686 -16.131 2.93 1 47.49 ? N3 GNP 1001 A 1 HETATM 32 C C4 GNP . . . C 2 -14.659 -15.32 2.549 1 47.7 ? C4 GNP 1001 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #