data_3EOR # _model_server_result.job_id XxJ40oxWCY9swGg113tF7A _model_server_result.datetime_utc '2024-11-08 01:48:09' _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 3eor # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":902}' # _entry.id 3EOR # _exptl.entry_id 3EOR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 314.209 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'GERANYL DIPHOSPHATE' _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 3EOR _cell.length_a 145.681 _cell.length_b 145.681 _cell.length_c 145.681 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3EOR _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 6_566 z+1/2,-x+3/2,-y+1 0 0 1 -1 0 0 0 -1 0 72.8405 218.5215 145.681 3 'crystal symmetry operation' 12_664 -y+3/2,-z+1,x-1/2 0 -1 0 0 0 -1 1 0 0 218.5215 145.681 -72.8405 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _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 OD2 ASP 14 A ASP 8 1_555 B ZN ZN . A ZN 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc2 A OD1 ASP 14 A ASP 8 1_555 C NA NA . A NA 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.776 ? metalc ? metalc3 A ND1 HIS 48 A HIS 42 1_555 B ZN ZN . A ZN 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? # _chem_comp.formula 'C10 H20 O7 P2' _chem_comp.formula_weight 314.209 _chem_comp.id GPP _chem_comp.mon_nstd_flag . _chem_comp.name 'GERANYL DIPHOSPHATE' _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 C1 O1 GPP sing 161 n n C1 C2 GPP sing 162 n n C1 H11 GPP sing 163 n n C1 H12 GPP sing 164 n n O1 PA GPP sing 165 n n C2 C3 GPP doub 166 e n C2 H2 GPP sing 167 n n C3 C4 GPP sing 168 n n C3 C5 GPP sing 169 n n C4 H41 GPP sing 170 n n C4 H42 GPP sing 171 n n C4 H43 GPP sing 172 n n C5 C6 GPP sing 173 n n C5 H51 GPP sing 174 n n C5 H52 GPP sing 175 n n C6 C7 GPP sing 176 n n C6 H61 GPP sing 177 n n C6 H62 GPP sing 178 n n C7 C8 GPP doub 179 n n C7 H7 GPP sing 180 n n C8 C9 GPP sing 181 n n C8 C10 GPP sing 182 n n C9 H91 GPP sing 183 n n C9 H92 GPP sing 184 n n C9 H93 GPP sing 185 n n C10 H101 GPP sing 186 n n C10 H102 GPP sing 187 n n C10 H103 GPP sing 188 n n PA O1A GPP doub 189 n n PA O2A GPP sing 190 n n PA O3A GPP sing 191 n n O2A HOA2 GPP sing 192 n n O3A PB GPP sing 193 n n PB O1B GPP doub 194 n n PB O2B GPP sing 195 n n PB O3B GPP sing 196 n n O2B HOB2 GPP sing 197 n n O3B HOB3 GPP sing 198 n n # _atom_sites.entry_id 3EOR _atom_sites.fract_transf_matrix[1][1] 0.006864 _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] 0.006864 _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] 0.006864 _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 ZN A 1 800 800 ZN ZN . C 3 NA A 1 801 801 NA NA . D 3 NA A 1 802 802 NA NA . E 4 CFV A 1 901 901 CFV CFV . F 5 GPP A 1 902 902 GPP GPP . G 6 HOH A 1 903 1 HOH HOH . G 6 HOH A 2 904 2 HOH HOH . G 6 HOH A 3 905 3 HOH HOH . G 6 HOH A 4 906 4 HOH HOH . G 6 HOH A 5 907 5 HOH HOH . G 6 HOH A 6 908 6 HOH HOH . G 6 HOH A 7 909 7 HOH HOH . G 6 HOH A 8 910 8 HOH HOH . G 6 HOH A 9 911 9 HOH HOH . G 6 HOH A 10 912 10 HOH HOH . G 6 HOH A 11 913 11 HOH HOH . G 6 HOH A 12 914 12 HOH HOH . G 6 HOH A 13 915 13 HOH HOH . G 6 HOH A 14 916 14 HOH HOH . G 6 HOH A 15 917 15 HOH HOH . G 6 HOH A 16 918 16 HOH HOH . G 6 HOH A 17 919 17 HOH HOH . G 6 HOH A 18 920 18 HOH HOH . G 6 HOH A 19 921 19 HOH HOH . G 6 HOH A 20 922 20 HOH HOH . G 6 HOH A 21 923 21 HOH HOH . G 6 HOH A 22 924 22 HOH HOH . G 6 HOH A 23 925 23 HOH HOH . G 6 HOH A 24 926 24 HOH HOH . G 6 HOH A 25 927 25 HOH HOH . G 6 HOH A 26 928 26 HOH HOH . G 6 HOH A 27 929 27 HOH HOH . G 6 HOH A 28 930 28 HOH HOH . G 6 HOH A 29 931 29 HOH HOH . G 6 HOH A 30 932 30 HOH HOH . G 6 HOH A 31 933 31 HOH HOH . G 6 HOH A 32 934 32 HOH HOH . G 6 HOH A 33 935 33 HOH HOH . G 6 HOH A 34 936 34 HOH HOH . G 6 HOH A 35 937 35 HOH HOH . G 6 HOH A 36 938 36 HOH HOH . G 6 HOH A 37 939 37 HOH HOH . G 6 HOH A 38 940 38 HOH HOH . G 6 HOH A 39 941 39 HOH HOH . G 6 HOH A 40 942 40 HOH HOH . G 6 HOH A 41 943 41 HOH HOH . G 6 HOH A 42 944 42 HOH HOH . G 6 HOH A 43 945 43 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 C C1 GPP . . . F 5 122.342 95.971 48.918 0.33 73.57 ? C1 GPP 902 A 1 HETATM 2 O O1 GPP . . . F 5 121.737 97.408 48.896 0.33 80.97 ? O1 GPP 902 A 1 HETATM 3 C C2 GPP . . . F 5 123.126 95.425 50.22 0.33 69.26 ? C2 GPP 902 A 1 HETATM 4 C C3 GPP . . . F 5 124.226 95.798 50.53 0.33 62.78 ? C3 GPP 902 A 1 HETATM 5 C C4 GPP . . . F 5 125.216 96.809 49.881 0.33 57.86 ? C4 GPP 902 A 1 HETATM 6 C C5 GPP . . . F 5 124.385 95.014 51.728 0.33 60.3 ? C5 GPP 902 A 1 HETATM 7 C C6 GPP . . . F 5 125.799 95.279 52.058 0.33 58.82 ? C6 GPP 902 A 1 HETATM 8 C C7 GPP . . . F 5 126.362 94.097 52.534 0.33 63.59 ? C7 GPP 902 A 1 HETATM 9 C C8 GPP . . . F 5 125.752 93.042 53.252 0.33 63.72 ? C8 GPP 902 A 1 HETATM 10 C C9 GPP . . . F 5 126.601 91.862 53.648 0.33 58.36 ? C9 GPP 902 A 1 HETATM 11 C C10 GPP . . . F 5 124.245 93.066 53.652 0.33 66.24 ? C10 GPP 902 A 1 HETATM 12 P PA GPP . . . F 5 120.462 98.028 48.001 0.33 82.81 ? PA GPP 902 A 1 HETATM 13 O O1A GPP . . . F 5 119.498 96.972 47.717 0.33 83.33 ? O1A GPP 902 A 1 HETATM 14 O O2A GPP . . . F 5 120.042 99.339 48.522 0.33 83.51 ? O2A GPP 902 A 1 HETATM 15 O O3A GPP . . . F 5 120.9 98.264 46.754 0.33 76.49 ? O3A GPP 902 A 1 HETATM 16 P PB GPP . . . F 5 119.69 98.815 46.239 0.33 69.65 ? PB GPP 902 A 1 HETATM 17 O O1B GPP . . . F 5 118.332 98.784 47.161 0.33 69.5 ? O1B GPP 902 A 1 HETATM 18 O O2B GPP . . . F 5 120.2 100.303 46.37 0.33 70.39 ? O2B GPP 902 A 1 HETATM 19 O O3B GPP . . . F 5 119.466 98.289 44.9 0.33 68.88 ? O3B GPP 902 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 19 #