data_6XHA # _model_server_result.job_id VwV8sJOkgUb3WzCJYCdcng _model_server_result.datetime_utc '2024-11-02 14:34:54' _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 6xha # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 6XHA # _exptl.entry_id 6XHA _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 6XHA _cell.length_a 132.1 _cell.length_b 132.1 _cell.length_c 90.17 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6XHA _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,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 # _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 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 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 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? metalc ? metalc2 A OG1 THR 36 A THR 35 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc3 C O2G GNP . A GNP 201 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc4 C O1B GNP . A GNP 201 1_555 E MG MG . A MG 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc5 E MG MG . A MG 203 1_555 M O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc6 E MG MG . A MG 203 1_555 M O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc7 B ND1 HIS 88 B HIS 139 1_555 J ZN ZN . B ZN 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.445 ? metalc ? metalc8 B SG CYS 101 B CYS 152 1_555 K ZN ZN . B ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc9 B SG CYS 104 B CYS 155 1_555 K ZN ZN . B ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc10 B SG CYS 114 B CYS 165 1_555 J ZN ZN . B ZN 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc11 B SG CYS 117 B CYS 168 1_555 J ZN ZN . B ZN 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? metalc ? metalc12 B ND1 HIS 122 B HIS 173 1_555 K ZN ZN . B ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc13 B SG CYS 125 B CYS 176 1_555 K ZN ZN . B ZN 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc14 B SG CYS 133 B CYS 184 1_555 J ZN ZN . B ZN 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? # _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 6XHA _atom_sites.fract_transf_matrix[1][1] 0.00757 _atom_sites.fract_transf_matrix[1][2] 0.004371 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008741 _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] 0.01109 _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 GOL A 1 202 4 GOL GOL . E 5 MG A 1 203 6 MG MG . F 6 CL A 1 204 9 CL CL . G 4 GOL B 1 201 2 GOL GOL . H 4 GOL B 1 202 3 GOL GOL . I 4 GOL B 1 203 5 GOL GOL . J 7 ZN B 1 204 7 ZN ZN . K 7 ZN B 1 205 8 ZN ZN . L 6 CL B 1 206 10 CL CL . M 8 HOH A 1 301 6 HOH HOH . M 8 HOH A 2 302 9 HOH HOH . M 8 HOH A 3 303 4 HOH HOH . M 8 HOH A 4 304 7 HOH HOH . M 8 HOH A 5 305 10 HOH HOH . N 8 HOH B 1 301 2 HOH HOH . N 8 HOH B 2 302 1 HOH HOH . N 8 HOH B 3 303 11 HOH HOH . N 8 HOH B 4 304 5 HOH HOH . N 8 HOH B 5 305 3 HOH HOH . N 8 HOH B 6 306 8 HOH HOH . N 8 HOH B 7 307 12 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 46.629 42.034 11.308 0.89 92.45 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . C 3 46.347 40.649 11.117 0.89 79.02 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . C 3 46.707 42.371 12.703 0.89 91.03 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . C 3 48.01 42.25 10.995 0.89 96.19 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . C 3 45.595 42.897 10.47 0.89 90.69 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . C 3 44.028 42.615 10.547 0.89 92.83 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . C 3 43.49 42.946 11.882 0.89 98.27 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . C 3 43.501 41.421 9.856 0.89 101.53 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . C 3 43.316 43.752 9.761 0.89 90.05 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . C 3 42.902 45.092 10.454 0.89 88.46 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . C 3 43.888 45.436 11.494 0.89 86.91 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . C 3 41.463 44.967 10.734 0.89 88.43 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . C 3 43.125 46.111 9.294 0.89 97.65 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . C 3 42.385 45.977 8.087 0.89 105.53 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . C 3 42.817 47.118 7.22 0.89 98.45 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . C 3 41.81 47.33 6.215 0.89 110.02 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . C 3 42.831 48.451 7.95 0.89 88.08 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . C 3 43.299 49.461 7.083 0.89 100.43 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . C 3 41.333 48.664 8.075 0.89 97.04 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . C 3 41.04 50.013 8.322 0.89 109.06 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . C 3 40.853 48.232 6.7 0.89 107.3 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . C 3 39.572 47.555 6.702 0.89 105.96 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . C 3 39.202 46.566 7.562 0.89 100.17 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . C 3 37.986 46.134 7.358 0.89 95.3 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . C 3 37.525 46.884 6.293 0.89 103.32 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . C 3 36.273 46.846 5.639 0.89 114.13 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . C 3 35.297 46.129 5.883 0.89 125.16 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . C 3 36.206 47.76 4.6 0.89 112.43 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . C 3 37.225 48.598 4.246 0.89 111.82 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . C 3 36.966 49.41 3.218 0.89 116.89 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . C 3 38.406 48.649 4.862 0.89 111 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . C 3 38.493 47.763 5.878 0.89 106.91 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 32 #