data_6AMB # _model_server_result.job_id 1zr0B2e79NJ2Wnl7bcyzkA _model_server_result.datetime_utc '2024-12-26 17:59:58' _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 6amb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 6AMB # _exptl.entry_id 6AMB _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 90 _cell.entry_id 6AMB _cell.length_a 48.239 _cell.length_b 57.152 _cell.length_c 73.329 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6AMB _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 _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 metalc ? metalc1 A OG SER 19 A SER 17 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc2 A OG1 THR 37 A THR 35 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc3 C O3G GNP . A GNP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc4 C O2B GNP . A GNP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? metalc ? metalc5 D MG MG . A MG 202 1_555 E O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? # _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 6AMB _atom_sites.fract_transf_matrix[1][1] 0.02073 _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] 0.017497 _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] 0.013637 _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 HOH A 1 301 7 HOH HOH . E 5 HOH A 2 302 1 HOH HOH . E 5 HOH A 3 303 4 HOH HOH . E 5 HOH A 4 304 5 HOH HOH . E 5 HOH A 5 305 2 HOH HOH . E 5 HOH A 6 306 10 HOH HOH . E 5 HOH A 7 307 8 HOH HOH . E 5 HOH A 8 308 9 HOH HOH . F 5 HOH B 1 201 3 HOH HOH . F 5 HOH B 2 202 6 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 13.048 -0.144 -17.124 1 39.62 ? PG GNP 201 A 1 HETATM 2 O O1G GNP . . . C 3 13.471 -1.012 -18.283 1 46.8 ? O1G GNP 201 A 1 HETATM 3 O O2G GNP . . . C 3 11.71 0.532 -17.288 1 37.77 ? O2G GNP 201 A 1 HETATM 4 O O3G GNP . . . C 3 13.187 -1.023 -15.905 1 38.16 ? O3G GNP 201 A 1 HETATM 5 N N3B GNP . . . C 3 14.137 1.01 -17.049 1 39.94 ? N3B GNP 201 A 1 HETATM 6 P PB GNP . . . C 3 14.299 1.969 -15.795 1 28.25 ? PB GNP 201 A 1 HETATM 7 O O1B GNP . . . C 3 13.195 2.953 -15.768 1 29.28 ? O1B GNP 201 A 1 HETATM 8 O O2B GNP . . . C 3 14.476 1.108 -14.603 1 33.1 ? O2B GNP 201 A 1 HETATM 9 O O3A GNP . . . C 3 15.594 2.755 -15.994 1 36.23 ? O3A GNP 201 A 1 HETATM 10 P PA GNP . . . C 3 16.931 2.281 -15.429 1 37.03 ? PA GNP 201 A 1 HETATM 11 O O1A GNP . . . C 3 17.178 0.869 -15.795 1 36.23 ? O1A GNP 201 A 1 HETATM 12 O O2A GNP . . . C 3 16.971 2.64 -13.994 1 35.46 ? O2A GNP 201 A 1 HETATM 13 O O5' GNP . . . C 3 18.073 3.122 -16.122 1 35.77 ? O5' GNP 201 A 1 HETATM 14 C C5' GNP . . . C 3 18.09 3.292 -17.531 1 32.64 ? C5' GNP 201 A 1 HETATM 15 C C4' GNP . . . C 3 19.403 3.909 -17.982 1 36.38 ? C4' GNP 201 A 1 HETATM 16 O O4' GNP . . . C 3 19.43 5.325 -17.665 1 35.88 ? O4' GNP 201 A 1 HETATM 17 C C3' GNP . . . C 3 20.65 3.315 -17.337 1 44.51 ? C3' GNP 201 A 1 HETATM 18 O O3' GNP . . . C 3 21.694 3.28 -18.295 1 45.22 ? O3' GNP 201 A 1 HETATM 19 C C2' GNP . . . C 3 20.965 4.29 -16.205 1 38.24 ? C2' GNP 201 A 1 HETATM 20 O O2' GNP . . . C 3 22.344 4.318 -15.894 1 39.89 ? O2' GNP 201 A 1 HETATM 21 C C1' GNP . . . C 3 20.522 5.618 -16.813 1 33.65 ? C1' GNP 201 A 1 HETATM 22 N N9 GNP . . . C 3 20.06 6.593 -15.829 1 39.14 ? N9 GNP 201 A 1 HETATM 23 C C8 GNP . . . C 3 19.132 6.388 -14.835 1 37.16 ? C8 GNP 201 A 1 HETATM 24 N N7 GNP . . . C 3 18.911 7.444 -14.101 1 37.35 ? N7 GNP 201 A 1 HETATM 25 C C5 GNP . . . C 3 19.742 8.416 -14.644 1 38.63 ? C5 GNP 201 A 1 HETATM 26 C C6 GNP . . . C 3 19.933 9.768 -14.267 1 43.72 ? C6 GNP 201 A 1 HETATM 27 O O6 GNP . . . C 3 19.39 10.397 -13.347 1 42.07 ? O6 GNP 201 A 1 HETATM 28 N N1 GNP . . . C 3 20.866 10.404 -15.084 1 43.3 ? N1 GNP 201 A 1 HETATM 29 C C2 GNP . . . C 3 21.532 9.806 -16.128 1 46.02 ? C2 GNP 201 A 1 HETATM 30 N N2 GNP . . . C 3 22.397 10.579 -16.802 1 43.81 ? N2 GNP 201 A 1 HETATM 31 N N3 GNP . . . C 3 21.36 8.54 -16.491 1 45.17 ? N3 GNP 201 A 1 HETATM 32 C C4 GNP . . . C 3 20.453 7.908 -15.709 1 37.28 ? C4 GNP 201 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 32 #