data_6XGU # _model_server_result.job_id IYbK0AoROtQZuwS6CgwT6w _model_server_result.datetime_utc '2024-11-02 14:31:25' _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 6xgu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 6XGU # _exptl.entry_id 6XGU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 3 _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 6XGU _cell.length_a 132.32 _cell.length_b 132.32 _cell.length_c 89.91 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XGU _symmetry.cell_setting ? _symmetry.Int_Tables_number 177 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 6 2 2' # _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,E,F,G,H,I,J,K _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 3 _struct_asym.id C _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 covale ? covale1 B C GLU 43 B GLU 94 1_555 B N CAF 44 B CAF 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale2 B C CAF 44 B CAF 95 1_555 B N CYS 45 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A OG SER 18 A SER 17 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc2 A OG1 THR 36 A THR 35 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc3 A NE2 HIS 96 A HIS 95 1_555 E ZN ZN . A ZN 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.697 ? metalc ? metalc4 C O2G GNP . A GNP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc5 C O1B GNP . A GNP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc6 D MG MG . A MG 202 1_555 J O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc7 D MG MG . A MG 202 1_555 J O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc8 B ND1 HIS 88 B HIS 139 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? metalc ? metalc9 B SG CYS 101 B CYS 152 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc10 B SG CYS 104 B CYS 155 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc11 B SG CYS 114 B CYS 165 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc12 B SG CYS 117 B CYS 168 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc13 B ND1 HIS 122 B HIS 173 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.952 ? metalc ? metalc14 B SG CYS 125 B CYS 176 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? metalc ? metalc15 B SG CYS 133 B CYS 184 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? # _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 151 n n PG O2G GNP sing 152 n n PG O3G GNP sing 153 n n PG N3B GNP sing 154 n n O2G HOG2 GNP sing 155 n n O3G HOG3 GNP sing 156 n n N3B PB GNP sing 157 n n N3B HNB3 GNP sing 158 n n PB O1B GNP doub 159 n n PB O2B GNP sing 160 n n PB O3A GNP sing 161 n n O2B HOB2 GNP sing 162 n n O3A PA GNP sing 163 n n PA O1A GNP doub 164 n n PA O2A GNP sing 165 n n PA O5' GNP sing 166 n n O2A HOA2 GNP sing 167 n n O5' C5' GNP sing 168 n n C5' C4' GNP sing 169 n n C5' "H5'2" GNP sing 170 n n C5' "H5'1" GNP sing 171 n n C4' O4' GNP sing 172 n n C4' C3' GNP sing 173 n n C4' H4' GNP sing 174 n n O4' C1' GNP sing 175 n n C3' O3' GNP sing 176 n n C3' C2' GNP sing 177 n n C3' H3' GNP sing 178 n n O3' HO3' GNP sing 179 n n C2' O2' GNP sing 180 n n C2' C1' GNP sing 181 n n C2' H2' GNP sing 182 n n O2' HO2' GNP sing 183 n n C1' N9 GNP sing 184 n n C1' H1' GNP sing 185 n n N9 C8 GNP sing 186 n y N9 C4 GNP sing 187 n y C8 N7 GNP doub 188 n y C8 H8 GNP sing 189 n n N7 C5 GNP sing 190 n y C5 C6 GNP sing 191 n y C5 C4 GNP doub 192 n y C6 O6 GNP doub 193 n n C6 N1 GNP sing 194 n y N1 C2 GNP sing 195 n y N1 HN1 GNP sing 196 n n C2 N2 GNP sing 197 n n C2 N3 GNP doub 198 n y N2 HN21 GNP sing 199 n n N2 HN22 GNP sing 200 n n N3 C4 GNP sing 201 n y # _atom_sites.entry_id 6XGU _atom_sites.fract_transf_matrix[1][1] 0.007557 _atom_sites.fract_transf_matrix[1][2] 0.004363 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008727 _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] 0.011122 _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 GNP A 1 201 1 GNP GNP . D 4 MG A 1 202 2 MG MG . E 5 ZN A 1 203 5 ZN ZN . F 5 ZN B 1 201 3 ZN ZN . G 5 ZN B 1 202 4 ZN ZN . H 6 GOL B 1 203 7 GOL GOL . I 6 GOL B 1 204 8 GOL GOL . J 7 HOH A 1 301 9 HOH HOH . J 7 HOH A 2 302 10 HOH HOH . J 7 HOH A 3 303 7 HOH HOH . J 7 HOH A 4 304 3 HOH HOH . J 7 HOH A 5 305 4 HOH HOH . J 7 HOH A 6 306 18 HOH HOH . J 7 HOH A 7 307 23 HOH HOH . K 7 HOH B 1 301 13 HOH HOH . K 7 HOH B 2 302 20 HOH HOH . K 7 HOH B 3 303 21 HOH HOH . K 7 HOH B 4 304 6 HOH HOH . K 7 HOH B 5 305 1 HOH HOH . K 7 HOH B 6 306 5 HOH HOH . K 7 HOH B 7 307 2 HOH HOH . K 7 HOH B 8 308 24 HOH HOH . K 7 HOH B 9 309 11 HOH HOH . K 7 HOH B 10 310 19 HOH HOH . K 7 HOH B 11 311 12 HOH HOH . K 7 HOH B 12 312 22 HOH HOH . K 7 HOH B 13 313 8 HOH HOH . K 7 HOH B 14 314 15 HOH HOH . K 7 HOH B 15 315 14 HOH HOH . K 7 HOH B 16 316 17 HOH HOH . K 7 HOH B 17 317 16 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 3 46.719 41.876 11.265 1 85.09 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . C 3 46.591 40.415 11.031 1 72.43 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . C 3 46.447 42.144 12.702 1 85.96 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . C 3 48.114 42.28 10.958 1 98.34 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . C 3 45.637 42.685 10.377 1 90.22 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . C 3 44.046 42.423 10.488 1 85.73 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . C 3 43.6 42.519 11.912 1 84.42 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . C 3 43.542 41.295 9.649 1 79.37 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . C 3 43.409 43.678 9.767 1 85.06 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . C 3 43.046 45.13 10.298 1 93.5 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . C 3 44.233 45.716 10.975 1 87.01 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . C 3 41.757 45.045 11.025 1 79.61 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . C 3 42.814 45.885 8.918 1 93.15 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . C 3 43.978 46.343 8.196 1 102.42 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . C 3 43.567 47.451 7.261 1 102.21 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . C 3 42.343 47.054 6.596 1 99.19 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . C 3 43.252 48.804 7.913 1 102.56 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . C 3 43.589 49.854 7.02 1 112.98 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . C 3 41.731 48.747 8.036 1 100.6 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . C 3 41.121 50.01 8.145 1 115.35 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . C 3 41.399 48.088 6.71 1 101.27 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . C 3 40.075 47.493 6.682 1 99.7 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . C 3 39.625 46.447 7.441 1 91.86 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . C 3 38.383 46.121 7.184 1 92.59 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . C 3 38.004 46.997 6.178 1 105.6 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . C 3 36.775 47.113 5.49 1 111.31 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . C 3 35.746 46.442 5.635 1 107.98 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . C 3 36.826 48.128 4.54 1 102.12 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . C 3 37.907 48.929 4.284 1 104.89 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . C 3 37.754 49.854 3.329 1 114.52 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . C 3 39.064 48.828 4.93 1 102.34 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . C 3 39.038 47.844 5.857 1 110.23 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #