data_1P2V # _model_server_result.job_id 99DkodLRYVC3rLPzozvK_g _model_server_result.datetime_utc '2024-11-28 18:43:23' _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 1p2v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":167}' # _entry.id 1P2V # _exptl.entry_id 1P2V _exptl.method 'X-RAY DIFFRACTION' # _entity.details 'non-hydrolyzable GTP analog' _entity.formula_weight 522.196 _entity.id 4 _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 1P2V _cell.length_a 40.36 _cell.length_b 40.36 _cell.length_c 161.64 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1P2V _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 # 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 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.244 ? metalc ? metalc2 A OG1 THR 35 A THR 35 1_555 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? metalc ? metalc3 D O2G GNP . A GNP 167 1_555 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.382 ? metalc ? metalc4 D O2B GNP . A GNP 167 1_555 B MG MG . A MG 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc5 B MG MG . A MG 168 1_555 E O HOH . A HOH 1873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc6 B MG MG . A MG 168 1_555 E O HOH . A HOH 1874 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? # _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 1P2V _atom_sites.fract_transf_matrix[1][1] 0.024777 _atom_sites.fract_transf_matrix[1][2] 0.014305 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.02861 _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] 0.006187 _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 MG A 1 168 168 MG MG . C 3 HEZ A 1 1870 1870 HEZ HEZ . D 4 GNP A 1 167 167 GNP GNP . E 5 HOH A 1 1871 1 HOH HOH . E 5 HOH A 2 1872 2 HOH HOH . E 5 HOH A 3 1873 3 HOH HOH . E 5 HOH A 4 1874 4 HOH HOH . E 5 HOH A 5 1875 5 HOH HOH . E 5 HOH A 6 1876 6 HOH HOH . E 5 HOH A 7 1877 7 HOH HOH . E 5 HOH A 8 1878 8 HOH HOH . E 5 HOH A 9 1879 9 HOH HOH . E 5 HOH A 10 1880 10 HOH HOH . E 5 HOH A 11 1881 11 HOH HOH . E 5 HOH A 12 1882 12 HOH HOH . E 5 HOH A 13 1883 13 HOH HOH . E 5 HOH A 14 1884 14 HOH HOH . E 5 HOH A 15 1885 15 HOH HOH . E 5 HOH A 16 1886 16 HOH HOH . E 5 HOH A 17 1887 17 HOH HOH . E 5 HOH A 18 1888 18 HOH HOH . E 5 HOH A 19 1889 19 HOH HOH . E 5 HOH A 20 1890 20 HOH HOH . E 5 HOH A 21 1891 21 HOH HOH . E 5 HOH A 22 1892 22 HOH HOH . E 5 HOH A 23 1893 23 HOH HOH . E 5 HOH A 24 1894 24 HOH HOH . E 5 HOH A 25 1895 25 HOH HOH . E 5 HOH A 26 1896 26 HOH HOH . E 5 HOH A 27 1897 27 HOH HOH . E 5 HOH A 28 1898 28 HOH HOH . E 5 HOH A 29 1899 29 HOH HOH . E 5 HOH A 30 1900 30 HOH HOH . E 5 HOH A 31 1901 32 HOH HOH . E 5 HOH A 32 1902 33 HOH HOH . E 5 HOH A 33 1903 34 HOH HOH . E 5 HOH A 34 1904 35 HOH HOH . E 5 HOH A 35 1905 36 HOH HOH . E 5 HOH A 36 1906 37 HOH HOH . E 5 HOH A 37 1907 38 HOH HOH . E 5 HOH A 38 1908 39 HOH HOH . E 5 HOH A 39 1909 40 HOH HOH . E 5 HOH A 40 1910 41 HOH HOH . E 5 HOH A 41 1911 42 HOH HOH . E 5 HOH A 42 1912 43 HOH HOH . E 5 HOH A 43 1913 44 HOH HOH . E 5 HOH A 44 1914 45 HOH HOH . E 5 HOH A 45 1915 46 HOH HOH . E 5 HOH A 46 1916 47 HOH HOH . E 5 HOH A 47 1917 48 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 . . . D 4 -25.364 20.228 -85.87 1 15.63 ? PG GNP 167 A 1 HETATM 2 O O1G GNP . . . D 4 -25.819 20.167 -84.499 1 13.78 ? O1G GNP 167 A 1 HETATM 3 O O2G GNP . . . D 4 -26.395 19.744 -86.723 1 15.3 ? O2G GNP 167 A 1 HETATM 4 O O3G GNP . . . D 4 -24.293 19.137 -86.027 1 15.77 ? O3G GNP 167 A 1 HETATM 5 N N3B GNP . . . D 4 -24.724 21.689 -86.238 1 14.23 ? N3B GNP 167 A 1 HETATM 6 P PB GNP . . . D 4 -24.13 22.106 -87.717 1 14.96 ? PB GNP 167 A 1 HETATM 7 O O1B GNP . . . D 4 -22.745 21.624 -87.968 1 15.56 ? O1B GNP 167 A 1 HETATM 8 O O2B GNP . . . D 4 -24.998 21.908 -88.833 1 16.15 ? O2B GNP 167 A 1 HETATM 9 O O3A GNP . . . D 4 -24.02 23.689 -87.597 1 14.22 ? O3A GNP 167 A 1 HETATM 10 P PA GNP . . . D 4 -25.072 24.857 -88.039 1 14.92 ? PA GNP 167 A 1 HETATM 11 O O1A GNP . . . D 4 -25.164 24.946 -89.53 1 14.4 ? O1A GNP 167 A 1 HETATM 12 O O2A GNP . . . D 4 -26.312 24.786 -87.28 1 14.39 ? O2A GNP 167 A 1 HETATM 13 O O5' GNP . . . D 4 -24.208 26.135 -87.577 1 15.31 ? O5' GNP 167 A 1 HETATM 14 C C5' GNP . . . D 4 -23.928 26.349 -86.153 1 18.98 ? C5' GNP 167 A 1 HETATM 15 C C4' GNP . . . D 4 -23.728 27.857 -85.849 1 21.6 ? C4' GNP 167 A 1 HETATM 16 O O4' GNP . . . D 4 -22.561 28.31 -86.588 1 22.35 ? O4' GNP 167 A 1 HETATM 17 C C3' GNP . . . D 4 -24.904 28.749 -86.323 1 21.56 ? C3' GNP 167 A 1 HETATM 18 O O3' GNP . . . D 4 -25.193 29.83 -85.401 1 24.49 ? O3' GNP 167 A 1 HETATM 19 C C2' GNP . . . D 4 -24.423 29.224 -87.679 1 22.69 ? C2' GNP 167 A 1 HETATM 20 O O2' GNP . . . D 4 -24.931 30.495 -88.067 1 25.96 ? O2' GNP 167 A 1 HETATM 21 C C1' GNP . . . D 4 -22.909 29.368 -87.468 1 20.79 ? C1' GNP 167 A 1 HETATM 22 N N9 GNP . . . D 4 -22.149 29.204 -88.728 1 20.04 ? N9 GNP 167 A 1 HETATM 23 C C8 GNP . . . D 4 -22.185 28.176 -89.656 1 17.57 ? C8 GNP 167 A 1 HETATM 24 N N7 GNP . . . D 4 -21.398 28.319 -90.664 1 18.93 ? N7 GNP 167 A 1 HETATM 25 C C5 GNP . . . D 4 -20.753 29.55 -90.415 1 19.62 ? C5 GNP 167 A 1 HETATM 26 C C6 GNP . . . D 4 -19.744 30.288 -91.176 1 20.42 ? C6 GNP 167 A 1 HETATM 27 O O6 GNP . . . D 4 -19.202 29.989 -92.244 1 18.93 ? O6 GNP 167 A 1 HETATM 28 N N1 GNP . . . D 4 -19.375 31.49 -90.558 1 21.44 ? N1 GNP 167 A 1 HETATM 29 C C2 GNP . . . D 4 -19.889 31.969 -89.352 1 23.56 ? C2 GNP 167 A 1 HETATM 30 N N2 GNP . . . D 4 -19.432 33.154 -88.881 1 24.69 ? N2 GNP 167 A 1 HETATM 31 N N3 GNP . . . D 4 -20.827 31.285 -88.649 1 23.45 ? N3 GNP 167 A 1 HETATM 32 C C4 GNP . . . D 4 -21.216 30.096 -89.229 1 21.23 ? C4 GNP 167 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 242 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 32 #