data_8P3I # _model_server_result.job_id nzpTPEqGuALxjt6ZO5ny0Q _model_server_result.datetime_utc '2024-11-24 19:17:31' _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 8p3i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 8P3I # _exptl.entry_id 8P3I _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 90 _cell.angle_gamma 90 _cell.entry_id 8P3I _cell.length_a 61.367 _cell.length_b 76.601 _cell.length_c 118.674 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8P3I _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,L,M,N,O,P,Q,R,S,T,U,V _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 # 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 L 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 covale ? covale1 A SG CYS 161 A CYS 110 1_555 J C05 WTK . A WTK 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? covale ? covale2 B SG CYS 161 B CYS 109 1_555 S C05 WTK . B WTK 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.905 ? metalc ? metalc1 A OG1 THR 61 A THR 10 1_555 K MG MG . A MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? metalc ? metalc2 A OG1 THR 79 A THR 28 1_555 K MG MG . A MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc3 C O3G GNP . A GNP 201 1_555 K MG MG . A MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? metalc ? metalc4 C O1B GNP . A GNP 201 1_555 K MG MG . A MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? metalc ? metalc5 K MG MG . A MG 209 1_555 U O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc6 K MG MG . A MG 209 1_555 U O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc7 B OG1 THR 61 B THR 9 1_555 T MG MG . B MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc8 B OG1 THR 79 B THR 27 1_555 T MG MG . B MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.133 ? metalc ? metalc9 L O3G GNP . B GNP 201 1_555 T MG MG . B MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.871 ? metalc ? metalc10 L O1B GNP . B GNP 201 1_555 T MG MG . B MG 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.926 ? metalc ? metalc11 T MG MG . B MG 209 1_555 V O HOH . B HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc12 T MG MG . B MG 209 1_555 V O HOH . B HOH 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? # _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 8P3I _atom_sites.fract_transf_matrix[1][1] 0.016295 _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] 0.013055 _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] 0.008426 _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 1 201 201 GNP GNP . D 3 GOL A 1 202 301 GOL GOL . E 3 GOL A 1 203 401 GOL GOL . F 3 GOL A 1 204 501 GOL GOL . G 3 GOL A 1 205 601 GOL GOL . H 3 GOL A 1 206 701 GOL GOL . I 3 GOL A 1 207 801 GOL GOL . J 4 WTK A 1 208 123 WTK C13 . K 5 MG A 1 209 3 MG MG . L 2 GNP B 1 201 201 GNP GNP . M 3 GOL B 1 202 301 GOL GOL . N 3 GOL B 1 203 401 GOL GOL . O 3 GOL B 1 204 501 GOL GOL . P 3 GOL B 1 205 601 GOL GOL . Q 3 GOL B 1 206 701 GOL GOL . R 3 GOL B 1 207 801 GOL GOL . S 4 WTK B 1 208 123 WTK C13 . T 5 MG B 1 209 4 MG MG . U 6 HOH A 1 301 59 HOH HOH . U 6 HOH A 2 302 2 HOH HOH . U 6 HOH A 3 303 12 HOH HOH . U 6 HOH A 4 304 1 HOH HOH . U 6 HOH A 5 305 30 HOH HOH . U 6 HOH A 6 306 32 HOH HOH . U 6 HOH A 7 307 33 HOH HOH . U 6 HOH A 8 308 11 HOH HOH . U 6 HOH A 9 309 7 HOH HOH . U 6 HOH A 10 310 5 HOH HOH . U 6 HOH A 11 311 14 HOH HOH . U 6 HOH A 12 312 13 HOH HOH . U 6 HOH A 13 313 55 HOH HOH . U 6 HOH A 14 314 56 HOH HOH . U 6 HOH A 15 315 48 HOH HOH . U 6 HOH A 16 316 31 HOH HOH . U 6 HOH A 17 317 60 HOH HOH . U 6 HOH A 18 318 17 HOH HOH . U 6 HOH A 19 319 6 HOH HOH . U 6 HOH A 20 320 58 HOH HOH . U 6 HOH A 21 321 16 HOH HOH . U 6 HOH A 22 322 38 HOH HOH . U 6 HOH A 23 323 49 HOH HOH . U 6 HOH A 24 324 15 HOH HOH . U 6 HOH A 25 325 8 HOH HOH . U 6 HOH A 26 326 9 HOH HOH . U 6 HOH A 27 327 10 HOH HOH . U 6 HOH A 28 328 22 HOH HOH . V 6 HOH B 1 301 47 HOH HOH . V 6 HOH B 2 302 50 HOH HOH . V 6 HOH B 3 303 46 HOH HOH . V 6 HOH B 4 304 3 HOH HOH . V 6 HOH B 5 305 54 HOH HOH . V 6 HOH B 6 306 35 HOH HOH . V 6 HOH B 7 307 4 HOH HOH . V 6 HOH B 8 308 23 HOH HOH . V 6 HOH B 9 309 41 HOH HOH . V 6 HOH B 10 310 36 HOH HOH . V 6 HOH B 11 311 43 HOH HOH . V 6 HOH B 12 312 42 HOH HOH . V 6 HOH B 13 313 52 HOH HOH . V 6 HOH B 14 314 53 HOH HOH . V 6 HOH B 15 315 27 HOH HOH . V 6 HOH B 16 316 19 HOH HOH . V 6 HOH B 17 317 21 HOH HOH . V 6 HOH B 18 318 45 HOH HOH . V 6 HOH B 19 319 44 HOH HOH . V 6 HOH B 20 320 20 HOH HOH . V 6 HOH B 21 321 40 HOH HOH . V 6 HOH B 22 322 57 HOH HOH . V 6 HOH B 23 323 34 HOH HOH . V 6 HOH B 24 324 18 HOH HOH . V 6 HOH B 25 325 29 HOH HOH . V 6 HOH B 26 326 37 HOH HOH . V 6 HOH B 27 327 28 HOH HOH . V 6 HOH B 28 328 39 HOH HOH . V 6 HOH B 29 329 51 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 14.099 -9.028 -1.734 1 45.95 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . C 2 15.381 -9.732 -1.393 1 38.82 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . C 2 13.061 -9.134 -0.611 1 39.3 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . C 2 14.41 -7.528 -1.965 1 43.84 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . C 2 13.433 -9.767 -3.115 1 41.77 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . C 2 12.03 -9.414 -3.873 1 39.8 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . C 2 11.761 -7.937 -3.952 1 39.1 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . C 2 10.821 -10.084 -3.289 1 41.44 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . C 2 12.191 -10.133 -5.348 1 46.58 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . C 2 12.63 -9.471 -6.745 1 41.01 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . C 2 13.897 -8.655 -6.523 1 43.43 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . C 2 11.546 -8.659 -7.32 1 44.08 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . C 2 13.364 -10.569 -7.548 1 44.36 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . C 2 12.987 -11.955 -7.472 1 44.84 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . C 2 13.785 -12.675 -8.534 1 43.98 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . C 2 12.874 -13.44 -9.341 1 50.18 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . C 2 14.508 -11.788 -9.541 1 45.09 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . C 2 15.497 -12.498 -10.281 1 45.33 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . C 2 13.385 -11.438 -10.509 1 42.09 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . C 2 13.953 -11.133 -11.777 1 45.26 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . C 2 12.607 -12.755 -10.557 1 41.11 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . C 2 11.155 -12.574 -10.653 1 37.96 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . C 2 10.396 -11.768 -9.861 1 39.85 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . C 2 9.117 -11.814 -10.154 1 43.38 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . C 2 9.034 -12.712 -11.211 1 40.54 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . C 2 7.903 -13.187 -11.978 1 42.64 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . C 2 6.71 -12.869 -11.853 1 43 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . C 2 8.275 -14.086 -12.957 1 44.66 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . C 2 9.557 -14.501 -13.192 1 47.46 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . C 2 9.735 -15.386 -14.184 1 47.08 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . C 2 10.609 -14.079 -12.483 1 46.47 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . C 2 10.278 -13.199 -11.516 1 42.18 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 33 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #