data_6PC2 # _model_server_result.job_id 67LfiAtDeqnPw3MEq4-gDw _model_server_result.datetime_utc '2024-11-05 04:42:52' _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 6pc2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":505}' # _entry.id 6PC2 # _exptl.entry_id 6PC2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 108.53 _cell.angle_gamma 90 _cell.entry_id 6PC2 _cell.length_a 113.016 _cell.length_b 94.475 _cell.length_c 107.197 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PC2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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 ? 4 G N N ? 4 I 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 O VAL 379 A VAL 368 1_555 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc2 C MG MG . A MG 501 1_555 D O4 PO4 . A PO4 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.646 ? metalc ? metalc3 C MG MG . A MG 501 1_555 M O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc4 F MG MG . A MG 504 1_555 G O2B GNP . A GNP 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.959 ? metalc ? metalc5 F MG MG . A MG 504 1_555 G O1A GNP . A GNP 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.859 ? metalc ? metalc6 F MG MG . A MG 504 1_555 G O1G GNP . A GNP 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.62 ? metalc ? metalc7 B O VAL 379 B VAL 368 1_555 H MG MG . B MG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc8 H MG MG . B MG 501 1_555 I O1G GNP . B GNP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.586 ? metalc ? metalc9 H MG MG . B MG 501 1_555 I O1A GNP . B GNP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.891 ? metalc ? metalc10 H MG MG . B MG 501 1_555 I O2B GNP . B GNP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc11 H MG MG . B MG 501 1_555 N O HOH . B HOH 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc12 J MG MG . B MG 503 1_555 K O4 PO4 . B PO4 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? metalc ? metalc13 J MG MG . B MG 503 1_555 N O HOH . B HOH 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.889 ? metalc ? metalc14 J MG MG . B MG 503 1_555 N O HOH . B HOH 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? # _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 6PC2 _atom_sites.fract_transf_matrix[1][1] 0.008848 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002965 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010585 _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] 0.009838 _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 MG A 1 501 502 MG MG . D 3 PO4 A 1 502 701 PO4 PO4 . E 3 PO4 A 1 503 702 PO4 PO4 . F 2 MG A 1 504 501 MG MG . G 4 GNP A 1 505 601 GNP GNP . H 2 MG B 1 501 501 MG MG . I 4 GNP B 1 502 601 GNP GNP . J 2 MG B 1 503 502 MG MG . K 3 PO4 B 1 504 701 PO4 PO4 . L 3 PO4 B 1 505 702 PO4 PO4 . M 5 HOH A 1 601 802 HOH HOH . M 5 HOH A 2 602 2 HOH HOH . M 5 HOH A 3 603 801 HOH HOH . M 5 HOH A 4 604 1 HOH HOH . M 5 HOH A 5 605 4 HOH HOH . M 5 HOH A 6 606 6 HOH HOH . N 5 HOH B 1 601 5 HOH HOH . N 5 HOH B 2 602 7 HOH HOH . N 5 HOH B 3 603 3 HOH HOH . N 5 HOH B 4 604 801 HOH HOH . N 5 HOH B 5 605 8 HOH HOH . N 5 HOH B 6 606 10 HOH HOH . N 5 HOH B 7 607 802 HOH HOH . N 5 HOH B 8 608 9 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 . . . G 4 -12.51 -5.91 16.91 1 67.85 ? PG GNP 505 A 1 HETATM 2 O O1G GNP . . . G 4 -13.214 -4.666 17.647 1 74.34 ? O1G GNP 505 A 1 HETATM 3 O O2G GNP . . . G 4 -12.937 -7.024 17.968 1 63.74 ? O2G GNP 505 A 1 HETATM 4 O O3G GNP . . . G 4 -11.098 -5.642 16.684 1 55.19 ? O3G GNP 505 A 1 HETATM 5 N N3B GNP . . . G 4 -13.098 -6.09 15.439 1 75.56 ? N3B GNP 505 A 1 HETATM 6 P PB GNP . . . G 4 -14.656 -6.116 15.232 1 65.42 ? PB GNP 505 A 1 HETATM 7 O O1B GNP . . . G 4 -15.166 -7.404 14.398 1 73.42 ? O1B GNP 505 A 1 HETATM 8 O O2B GNP . . . G 4 -15.75 -5.923 16.17 1 70.61 ? O2B GNP 505 A 1 HETATM 9 O O3A GNP . . . G 4 -15.39 -5.241 14.107 1 74.06 ? O3A GNP 505 A 1 HETATM 10 P PA GNP . . . G 4 -15.359 -3.645 14.358 1 67.89 ? PA GNP 505 A 1 HETATM 11 O O1A GNP . . . G 4 -16.426 -3.437 15.545 1 79.47 ? O1A GNP 505 A 1 HETATM 12 O O2A GNP . . . G 4 -14.238 -2.718 14.313 1 60.78 ? O2A GNP 505 A 1 HETATM 13 O O5' GNP . . . G 4 -16.356 -3.008 13.235 1 68.7 ? O5' GNP 505 A 1 HETATM 14 C C5' GNP . . . G 4 -17.41 -3.946 13.056 1 67.18 ? C5' GNP 505 A 1 HETATM 15 C C4' GNP . . . G 4 -18.627 -3.365 12.383 1 72.33 ? C4' GNP 505 A 1 HETATM 16 O O4' GNP . . . G 4 -19.092 -2.243 13.142 1 74.88 ? O4' GNP 505 A 1 HETATM 17 C C3' GNP . . . G 4 -18.246 -2.863 10.962 1 72.36 ? C3' GNP 505 A 1 HETATM 18 O O3' GNP . . . G 4 -18.94 -3.656 10.022 1 69.74 ? O3' GNP 505 A 1 HETATM 19 C C2' GNP . . . G 4 -18.695 -1.387 10.909 1 74.07 ? C2' GNP 505 A 1 HETATM 20 O O2' GNP . . . G 4 -19.595 -1.134 9.853 1 83.07 ? O2' GNP 505 A 1 HETATM 21 C C1' GNP . . . G 4 -19.504 -1.191 12.238 1 75.23 ? C1' GNP 505 A 1 HETATM 22 N N9 GNP . . . G 4 -19.307 0.028 12.943 1 72.64 ? N9 GNP 505 A 1 HETATM 23 C C8 GNP . . . G 4 -18.066 0.828 12.966 1 74.59 ? C8 GNP 505 A 1 HETATM 24 N N7 GNP . . . G 4 -18.338 1.963 13.86 1 68.83 ? N7 GNP 505 A 1 HETATM 25 C C5 GNP . . . G 4 -19.652 1.834 14.338 1 74.8 ? C5 GNP 505 A 1 HETATM 26 C C6 GNP . . . G 4 -20.461 2.58 15.198 1 72.06 ? C6 GNP 505 A 1 HETATM 27 O O6 GNP . . . G 4 -19.933 3.727 15.755 1 64.01 ? O6 GNP 505 A 1 HETATM 28 N N1 GNP . . . G 4 -21.741 2.202 15.495 1 82.4 ? N1 GNP 505 A 1 HETATM 29 C C2 GNP . . . G 4 -22.22 1.046 14.906 1 77.16 ? C2 GNP 505 A 1 HETATM 30 N N2 GNP . . . G 4 -23.524 0.667 15.199 1 80.89 ? N2 GNP 505 A 1 HETATM 31 N N3 GNP . . . G 4 -21.512 0.211 14.028 1 78.27 ? N3 GNP 505 A 1 HETATM 32 C C4 GNP . . . G 4 -20.261 0.627 13.773 1 79.35 ? C4 GNP 505 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 29 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #