data_1JAI # _model_server_result.job_id ntLpVTDZ0hI9pIW3wwl4Nw _model_server_result.datetime_utc '2024-12-22 06:31:22' _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 1jai # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":167}' # _entry.id 1JAI # _exptl.entry_id 1JAI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 521.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOMETHYLPHOSPHONIC 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 1JAI _cell.length_a 40 _cell.length_b 40 _cell.length_c 160.4 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1JAI _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 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 17 A SER 17 1_555 B MN MN . A MN 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc2 A OG1 THR 35 A THR 35 1_555 B MN MN . A MN 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc3 C O2G GCP . A GCP 167 1_555 B MN MN . A MN 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.233 ? metalc ? metalc4 C O2B GCP . A GCP 167 1_555 B MN MN . A MN 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc5 B MN MN . A MN 168 1_555 D O HOH . A HOH 170 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? metalc ? metalc6 B MN MN . A MN 168 1_555 D O HOH . A HOH 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.442 ? # _chem_comp.formula 'C11 H18 N5 O13 P3' _chem_comp.formula_weight 521.208 _chem_comp.id GCP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOMETHYLPHOSPHONIC 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 GCP doub 83 n n PG O2G GCP sing 84 n n PG O3G GCP sing 85 n n PG C3B GCP sing 86 n n O2G HOG2 GCP sing 87 n n O3G HOG3 GCP sing 88 n n C3B PB GCP sing 89 n n C3B H3B1 GCP sing 90 n n C3B H3B2 GCP sing 91 n n PB O1B GCP doub 92 n n PB O2B GCP sing 93 n n PB O3A GCP sing 94 n n O2B HOB2 GCP sing 95 n n O3A PA GCP sing 96 n n PA O1A GCP doub 97 n n PA O2A GCP sing 98 n n PA O5' GCP sing 99 n n O2A HOA2 GCP sing 100 n n O5' C5' GCP sing 101 n n C5' C4' GCP sing 102 n n C5' "H5'2" GCP sing 103 n n C5' "H5'1" GCP sing 104 n n C4' O4' GCP sing 105 n n C4' C3' GCP sing 106 n n C4' H4' GCP sing 107 n n O4' C1' GCP sing 108 n n C3' O3' GCP sing 109 n n C3' C2' GCP sing 110 n n C3' H3' GCP sing 111 n n O3' HO3' GCP sing 112 n n C2' O2' GCP sing 113 n n C2' C1' GCP sing 114 n n C2' H2' GCP sing 115 n n O2' HO2' GCP sing 116 n n C1' N9 GCP sing 117 n n C1' H1' GCP sing 118 n n N9 C8 GCP sing 119 n y N9 C4 GCP sing 120 n y C8 N7 GCP doub 121 n y C8 H8 GCP sing 122 n n N7 C5 GCP sing 123 n y C5 C6 GCP sing 124 n y C5 C4 GCP doub 125 n y C6 O6 GCP doub 126 n n C6 N1 GCP sing 127 n y N1 C2 GCP sing 128 n y N1 HN1 GCP sing 129 n n C2 N2 GCP sing 130 n n C2 N3 GCP doub 131 n y N2 HN21 GCP sing 132 n n N2 HN22 GCP sing 133 n n N3 C4 GCP sing 134 n y # _atom_sites.entry_id 1JAI _atom_sites.fract_transf_matrix[1][1] 0.025 _atom_sites.fract_transf_matrix[1][2] 0.014434 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.028868 _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] 0.006234 _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 B 2 MN A 1 168 168 MN MN . C 3 GCP A 1 167 167 GCP GCP . D 4 HOH A 1 169 169 HOH HOH . D 4 HOH A 2 170 170 HOH HOH . D 4 HOH A 3 171 171 HOH HOH . D 4 HOH A 4 172 172 HOH HOH . D 4 HOH A 5 173 173 HOH HOH . D 4 HOH A 6 174 174 HOH HOH . D 4 HOH A 7 175 175 HOH HOH . D 4 HOH A 8 176 176 HOH HOH . D 4 HOH A 9 177 177 HOH HOH . D 4 HOH A 10 178 178 HOH HOH . D 4 HOH A 11 179 179 HOH HOH . D 4 HOH A 12 180 180 HOH HOH . D 4 HOH A 13 181 181 HOH HOH . D 4 HOH A 14 182 182 HOH HOH . D 4 HOH A 15 183 183 HOH HOH . D 4 HOH A 16 184 184 HOH HOH . D 4 HOH A 17 185 185 HOH HOH . D 4 HOH A 18 186 186 HOH HOH . D 4 HOH A 19 187 187 HOH HOH . D 4 HOH A 20 188 188 HOH HOH . D 4 HOH A 21 189 189 HOH HOH . D 4 HOH A 22 191 191 HOH HOH . D 4 HOH A 23 192 192 HOH HOH . D 4 HOH A 24 194 194 HOH HOH . D 4 HOH A 25 195 195 HOH HOH . D 4 HOH A 26 196 196 HOH HOH . D 4 HOH A 27 197 197 HOH HOH . D 4 HOH A 28 198 198 HOH HOH . D 4 HOH A 29 199 199 HOH HOH . D 4 HOH A 30 200 200 HOH HOH . D 4 HOH A 31 201 201 HOH HOH . D 4 HOH A 32 202 202 HOH HOH . D 4 HOH A 33 203 203 HOH HOH . D 4 HOH A 34 204 204 HOH HOH . D 4 HOH A 35 205 205 HOH HOH . D 4 HOH A 36 206 206 HOH HOH . D 4 HOH A 37 207 207 HOH HOH . D 4 HOH A 38 208 208 HOH HOH . D 4 HOH A 39 209 209 HOH HOH . D 4 HOH A 40 210 210 HOH HOH . D 4 HOH A 41 211 211 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 GCP . . . C 3 4.723 31.82 22.015 1 9.89 ? PG GCP 167 A 1 HETATM 2 O O1G GCP . . . C 3 4.39 32.301 23.391 1 10.64 ? O1G GCP 167 A 1 HETATM 3 O O2G GCP . . . C 3 3.774 32.298 21.027 1 13.8 ? O2G GCP 167 A 1 HETATM 4 O O3G GCP . . . C 3 4.475 30.301 22.029 1 10.15 ? O3G GCP 167 A 1 HETATM 5 C C3B GCP . . . C 3 6.33 31.998 21.586 1 7.75 ? C3B GCP 167 A 1 HETATM 6 P PB GCP . . . C 3 6.939 31.564 20.087 1 8.78 ? PB GCP 167 A 1 HETATM 7 O O1B GCP . . . C 3 7.137 30.115 19.959 1 6.69 ? O1B GCP 167 A 1 HETATM 8 O O2B GCP . . . C 3 6.177 32.134 18.982 1 7.89 ? O2B GCP 167 A 1 HETATM 9 O O3A GCP . . . C 3 8.368 32.222 19.952 1 6.82 ? O3A GCP 167 A 1 HETATM 10 P PA GCP . . . C 3 8.934 33.678 19.503 1 9.66 ? PA GCP 167 A 1 HETATM 11 O O1A GCP . . . C 3 8.97 33.758 18.003 1 9.6 ? O1A GCP 167 A 1 HETATM 12 O O2A GCP . . . C 3 8.198 34.753 20.206 1 9.37 ? O2A GCP 167 A 1 HETATM 13 O O5' GCP . . . C 3 10.426 33.577 20.071 1 9.31 ? O5' GCP 167 A 1 HETATM 14 C C5' GCP . . . C 3 10.717 33.285 21.449 1 11.08 ? C5' GCP 167 A 1 HETATM 15 C C4' GCP . . . C 3 12.077 33.771 21.714 1 11.69 ? C4' GCP 167 A 1 HETATM 16 O O4' GCP . . . C 3 13.051 32.954 20.971 1 12.86 ? O4' GCP 167 A 1 HETATM 17 C C3' GCP . . . C 3 12.298 35.248 21.244 1 11.55 ? C3' GCP 167 A 1 HETATM 18 O O3' GCP . . . C 3 13.16 35.948 22.159 1 14.32 ? O3' GCP 167 A 1 HETATM 19 C C2' GCP . . . C 3 12.977 35.073 19.878 1 7.97 ? C2' GCP 167 A 1 HETATM 20 O O2' GCP . . . C 3 13.797 36.187 19.572 1 8.58 ? O2' GCP 167 A 1 HETATM 21 C C1' GCP . . . C 3 13.83 33.817 20.1 1 9.09 ? C1' GCP 167 A 1 HETATM 22 N N9 GCP . . . C 3 14.083 33.129 18.866 1 10.49 ? N9 GCP 167 A 1 HETATM 23 C C8 GCP . . . C 3 13.203 32.672 17.969 1 7.92 ? C8 GCP 167 A 1 HETATM 24 N N7 GCP . . . C 3 13.718 32.242 16.896 1 8.89 ? N7 GCP 167 A 1 HETATM 25 C C5 GCP . . . C 3 15.05 32.194 17.159 1 9.52 ? C5 GCP 167 A 1 HETATM 26 C C6 GCP . . . C 3 16.098 31.709 16.401 1 11.71 ? C6 GCP 167 A 1 HETATM 27 O O6 GCP . . . C 3 16.089 30.994 15.397 1 12.03 ? O6 GCP 167 A 1 HETATM 28 N N1 GCP . . . C 3 17.303 32.005 16.955 1 9.72 ? N1 GCP 167 A 1 HETATM 29 C C2 GCP . . . C 3 17.509 32.546 18.149 1 11.9 ? C2 GCP 167 A 1 HETATM 30 N N2 GCP . . . C 3 18.744 32.919 18.346 1 11.96 ? N2 GCP 167 A 1 HETATM 31 N N3 GCP . . . C 3 16.505 32.893 18.979 1 10.06 ? N3 GCP 167 A 1 HETATM 32 C C4 GCP . . . C 3 15.304 32.753 18.366 1 11.03 ? C4 GCP 167 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 32 #