data_8T7V # _model_server_result.job_id D09b2kyErZovgXI6wTntnA _model_server_result.datetime_utc '2024-11-15 08:24:04' _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 8t7v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 8T7V # _exptl.entry_id 8T7V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 522.196 _entity.id 5 _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 92.194 _cell.angle_gamma 90 _cell.entry_id 8T7V _cell.length_a 57.546 _cell.length_b 77.805 _cell.length_c 58.827 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8T7V _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 5 _struct_asym.id E _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 A NZ LYS 304 A LYS 720 1_555 C C11 ZTA . A ZTA 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 doub metalc ? metalc1 B OG SER 17 B SER 17 1_555 D MG MG . B MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc2 B OG1 THR 35 B THR 35 1_555 D MG MG . B MG 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc3 D MG MG . B MG 200 1_555 E O1B GNP . B GNP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc4 D MG MG . B MG 200 1_555 E O1G GNP . B GNP 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc5 D MG MG . B MG 200 1_555 G O HOH . B HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.215 ? metalc ? metalc6 D MG MG . B MG 200 1_555 G O HOH . B HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? # _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 8T7V _atom_sites.fract_transf_matrix[1][1] 0.017377 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000666 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012853 _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] 0.017011 _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 ZTA A 1 801 801 ZTA LIG . D 4 MG B 1 200 200 MG MG . E 5 GNP B 1 201 201 GNP GNP . F 6 HOH A 1 901 21 HOH HOH . F 6 HOH A 2 902 19 HOH HOH . F 6 HOH A 3 903 1 HOH HOH . F 6 HOH A 4 904 9 HOH HOH . F 6 HOH A 5 905 10 HOH HOH . F 6 HOH A 6 906 6 HOH HOH . F 6 HOH A 7 907 11 HOH HOH . F 6 HOH A 8 908 3 HOH HOH . F 6 HOH A 9 909 23 HOH HOH . F 6 HOH A 10 910 8 HOH HOH . F 6 HOH A 11 911 2 HOH HOH . F 6 HOH A 12 912 24 HOH HOH . F 6 HOH A 13 913 17 HOH HOH . F 6 HOH A 14 914 25 HOH HOH . F 6 HOH A 15 915 14 HOH HOH . F 6 HOH A 16 916 15 HOH HOH . F 6 HOH A 17 917 18 HOH HOH . F 6 HOH A 18 918 16 HOH HOH . F 6 HOH A 19 919 20 HOH HOH . F 6 HOH A 20 920 7 HOH HOH . F 6 HOH A 21 921 22 HOH HOH . G 6 HOH B 1 301 13 HOH HOH . G 6 HOH B 2 302 12 HOH HOH . G 6 HOH B 3 303 27 HOH HOH . G 6 HOH B 4 304 5 HOH HOH . G 6 HOH B 5 305 26 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 . . . E 5 2.35 7.544 31.318 1 34.57 ? PG GNP 201 B 1 HETATM 2 O O1G GNP . . . E 5 3.073 8.333 30.266 1 44.13 ? O1G GNP 201 B 1 HETATM 3 O O2G GNP . . . E 5 1.101 8.302 31.765 1 36.15 ? O2G GNP 201 B 1 HETATM 4 O O3G GNP . . . E 5 3.285 7.333 32.539 1 35.21 ? O3G GNP 201 B 1 HETATM 5 N N3B GNP . . . E 5 1.906 6.026 30.67 1 25.29 ? N3B GNP 201 B 1 HETATM 6 P PB GNP . . . E 5 0.896 5.953 29.38 1 36.01 ? PB GNP 201 B 1 HETATM 7 O O1B GNP . . . E 5 1.363 6.906 28.308 1 32.66 ? O1B GNP 201 B 1 HETATM 8 O O2B GNP . . . E 5 -0.497 6.323 29.809 1 34.78 ? O2B GNP 201 B 1 HETATM 9 O O3A GNP . . . E 5 0.871 4.419 28.798 1 40.45 ? O3A GNP 201 B 1 HETATM 10 P PA GNP . . . E 5 1.855 3.901 27.665 1 30.79 ? PA GNP 201 B 1 HETATM 11 O O1A GNP . . . E 5 1.273 4.355 26.329 1 31.34 -1 O1A GNP 201 B 1 HETATM 12 O O2A GNP . . . E 5 3.239 4.331 27.936 1 32.36 ? O2A GNP 201 B 1 HETATM 13 O O5' GNP . . . E 5 1.718 2.335 27.77 1 39.19 ? O5' GNP 201 B 1 HETATM 14 C C5' GNP . . . E 5 2.207 1.615 28.92 1 37.6 ? C5' GNP 201 B 1 HETATM 15 C C4' GNP . . . E 5 2.41 0.166 28.546 1 39.41 ? C4' GNP 201 B 1 HETATM 16 O O4' GNP . . . E 5 1.148 -0.418 28.151 1 28.95 ? O4' GNP 201 B 1 HETATM 17 C C3' GNP . . . E 5 3.387 -0.091 27.396 1 30.04 ? C3' GNP 201 B 1 HETATM 18 O O3' GNP . . . E 5 4.218 -1.212 27.671 1 46.03 ? O3' GNP 201 B 1 HETATM 19 C C2' GNP . . . E 5 2.462 -0.351 26.204 1 27.06 ? C2' GNP 201 B 1 HETATM 20 O O2' GNP . . . E 5 3.051 -1.232 25.255 1 37.44 ? O2' GNP 201 B 1 HETATM 21 C C1' GNP . . . E 5 1.276 -1.03 26.885 1 34.07 ? C1' GNP 201 B 1 HETATM 22 N N9 GNP . . . E 5 0.011 -0.85 26.157 1 30.95 ? N9 GNP 201 B 1 HETATM 23 C C8 GNP . . . E 5 -0.588 0.34 25.838 1 32.86 ? C8 GNP 201 B 1 HETATM 24 N N7 GNP . . . E 5 -1.715 0.194 25.181 1 38.97 ? N7 GNP 201 B 1 HETATM 25 C C5 GNP . . . E 5 -1.865 -1.177 25.062 1 29.35 ? C5 GNP 201 B 1 HETATM 26 C C6 GNP . . . E 5 -2.902 -1.968 24.443 1 39.48 ? C6 GNP 201 B 1 HETATM 27 O O6 GNP . . . E 5 -3.91 -1.558 23.869 1 35.9 ? O6 GNP 201 B 1 HETATM 28 N N1 GNP . . . E 5 -2.655 -3.322 24.554 1 45.94 ? N1 GNP 201 B 1 HETATM 29 C C2 GNP . . . E 5 -1.565 -3.877 25.172 1 45.05 ? C2 GNP 201 B 1 HETATM 30 N N2 GNP . . . E 5 -1.492 -5.209 25.184 1 47.97 ? N2 GNP 201 B 1 HETATM 31 N N3 GNP . . . E 5 -0.6 -3.159 25.748 1 39.19 ? N3 GNP 201 B 1 HETATM 32 C C4 GNP . . . E 5 -0.81 -1.833 25.658 1 27.38 ? C4 GNP 201 B 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #