data_3ESJ
#
_model_server_result.job_id            01iQtO2C4LFNkzg9PQ03ig 
_model_server_result.datetime_utc      '2024-10-18 21:21:57' 
_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          3esj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":904}' 
#
_entry.id    3ESJ 
#
_exptl.entry_id    3ESJ 
_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            3ESJ 
_cell.length_a            144.498 
_cell.length_b            144.498 
_cell.length_c            144.498 
_cell.Z_PDB               24 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3ESJ 
_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 
_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' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 
3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 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
metalc ? metalc1 A OD2 ASP 14 A ASP 8 1_555 B ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
metalc ? metalc2 A NE2 HIS 16 A HIS 10 1_555 B ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? 
metalc ? metalc3 A ND1 HIS 48 A HIS 42 1_555 B ZN ZN . A ZN 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? 
metalc ? metalc4 A OE1 GLU 155 A GLU 149 1_555 D MG MG . A MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? 
metalc ? metalc5 A OE2 GLU 155 A GLU 149 1_555 D MG MG . A MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
metalc ? metalc6 B ZN ZN . A ZN 900 1_555 F O HOH . A HOH 922 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? 
#
_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 163 n n 
C1 C2 GPP sing 164 n n 
C1 H11 GPP sing 165 n n 
C1 H12 GPP sing 166 n n 
O1 PA GPP sing 167 n n 
C2 C3 GPP doub 168 e n 
C2 H2 GPP sing 169 n n 
C3 C4 GPP sing 170 n n 
C3 C5 GPP sing 171 n n 
C4 H41 GPP sing 172 n n 
C4 H42 GPP sing 173 n n 
C4 H43 GPP sing 174 n n 
C5 C6 GPP sing 175 n n 
C5 H51 GPP sing 176 n n 
C5 H52 GPP sing 177 n n 
C6 C7 GPP sing 178 n n 
C6 H61 GPP sing 179 n n 
C6 H62 GPP sing 180 n n 
C7 C8 GPP doub 181 n n 
C7 H7 GPP sing 182 n n 
C8 C9 GPP sing 183 n n 
C8 C10 GPP sing 184 n n 
C9 H91 GPP sing 185 n n 
C9 H92 GPP sing 186 n n 
C9 H93 GPP sing 187 n n 
C10 H101 GPP sing 188 n n 
C10 H102 GPP sing 189 n n 
C10 H103 GPP sing 190 n n 
PA O1A GPP doub 191 n n 
PA O2A GPP sing 192 n n 
PA O3A GPP sing 193 n n 
O2A HOA2 GPP sing 194 n n 
O3A PB GPP sing 195 n n 
PB O1B GPP doub 196 n n 
PB O2B GPP sing 197 n n 
PB O3B GPP sing 198 n n 
O2B HOB2 GPP sing 199 n n 
O3B HOB3 GPP sing 200 n n 
#
_atom_sites.entry_id                     3ESJ 
_atom_sites.fract_transf_matrix[1][1]    0.006921 
_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]    0.006921 
_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]    0.006921 
_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 1 900 900 ZN ZN . 
C 3 CC7 A 1 901 901 CC7 CC7 . 
D 4 MG A 1 903 903 MG MG . 
E 5 GPP A 1 904 904 GPP GPP . 
F 6 HOH A 1 905 905 HOH HOH . 
F 6 HOH A 2 906 906 HOH HOH . 
F 6 HOH A 3 907 907 HOH HOH . 
F 6 HOH A 4 908 908 HOH HOH . 
F 6 HOH A 5 909 909 HOH HOH . 
F 6 HOH A 6 910 910 HOH HOH . 
F 6 HOH A 7 911 911 HOH HOH . 
F 6 HOH A 8 912 912 HOH HOH . 
F 6 HOH A 9 913 913 HOH HOH . 
F 6 HOH A 10 914 914 HOH HOH . 
F 6 HOH A 11 915 915 HOH HOH . 
F 6 HOH A 12 916 916 HOH HOH . 
F 6 HOH A 13 917 917 HOH HOH . 
F 6 HOH A 14 918 918 HOH HOH . 
F 6 HOH A 15 919 919 HOH HOH . 
F 6 HOH A 16 920 920 HOH HOH . 
F 6 HOH A 17 921 921 HOH HOH . 
F 6 HOH A 18 922 922 HOH HOH . 
F 6 HOH A 19 923 923 HOH HOH . 
F 6 HOH A 20 924 924 HOH HOH . 
F 6 HOH A 21 925 925 HOH HOH . 
F 6 HOH A 22 926 926 HOH HOH . 
F 6 HOH A 23 927 927 HOH HOH . 
F 6 HOH A 24 928 928 HOH HOH . 
F 6 HOH A 25 929 929 HOH HOH . 
F 6 HOH A 26 930 930 HOH HOH . 
F 6 HOH A 27 931 931 HOH HOH . 
F 6 HOH A 28 932 932 HOH HOH . 
F 6 HOH A 29 933 933 HOH HOH . 
F 6 HOH A 30 934 934 HOH HOH . 
F 6 HOH A 31 935 935 HOH HOH . 
F 6 HOH A 32 936 936 HOH HOH . 
F 6 HOH A 33 937 937 HOH HOH . 
F 6 HOH A 34 938 938 HOH HOH . 
F 6 HOH A 35 939 939 HOH HOH . 
F 6 HOH A 36 940 940 HOH HOH . 
F 6 HOH A 37 941 941 HOH HOH . 
F 6 HOH A 38 942 942 HOH HOH . 
F 6 HOH A 39 943 943 HOH HOH . 
F 6 HOH A 40 944 944 HOH HOH . 
F 6 HOH A 41 945 945 HOH HOH . 
F 6 HOH A 42 946 946 HOH HOH . 
F 6 HOH A 43 947 947 HOH HOH . 
F 6 HOH A 44 948 948 HOH HOH . 
F 6 HOH A 45 949 949 HOH HOH . 
F 6 HOH A 46 950 950 HOH HOH . 
F 6 HOH A 47 951 951 HOH HOH . 
F 6 HOH A 48 952 952 HOH HOH . 
F 6 HOH A 49 953 953 HOH HOH . 
F 6 HOH A 50 954 954 HOH HOH . 
F 6 HOH A 51 955 955 HOH HOH . 
F 6 HOH A 52 956 956 HOH HOH . 
F 6 HOH A 53 957 957 HOH HOH . 
F 6 HOH A 54 958 958 HOH HOH . 
F 6 HOH A 55 959 959 HOH HOH . 
F 6 HOH A 56 960 960 HOH HOH . 
F 6 HOH A 57 961 961 HOH HOH . 
F 6 HOH A 58 962 962 HOH HOH . 
F 6 HOH A 59 963 963 HOH HOH . 
F 6 HOH A 60 964 964 HOH HOH . 
F 6 HOH A 61 965 965 HOH HOH . 
F 6 HOH A 62 966 966 HOH HOH . 
F 6 HOH A 63 967 967 HOH HOH . 
F 6 HOH A 64 968 968 HOH HOH . 
F 6 HOH A 65 969 969 HOH HOH . 
F 6 HOH A 66 970 970 HOH HOH . 
F 6 HOH A 67 971 971 HOH HOH . 
F 6 HOH A 68 972 972 HOH HOH . 
F 6 HOH A 69 973 973 HOH HOH . 
F 6 HOH A 70 974 974 HOH HOH . 
F 6 HOH A 71 975 975 HOH HOH . 
F 6 HOH A 72 976 976 HOH HOH . 
F 6 HOH A 73 977 977 HOH HOH . 
F 6 HOH A 74 978 978 HOH HOH . 
F 6 HOH A 75 979 979 HOH HOH . 
F 6 HOH A 76 980 980 HOH HOH . 
F 6 HOH A 77 981 981 HOH HOH . 
F 6 HOH A 78 982 982 HOH HOH . 
F 6 HOH A 79 983 983 HOH HOH . 
F 6 HOH A 80 984 984 HOH HOH . 
F 6 HOH A 81 985 985 HOH HOH . 
F 6 HOH A 82 986 986 HOH HOH . 
F 6 HOH A 83 987 987 HOH HOH . 
F 6 HOH A 84 988 988 HOH HOH . 
F 6 HOH A 85 989 989 HOH HOH . 
F 6 HOH A 86 990 990 HOH HOH . 
F 6 HOH A 87 991 991 HOH HOH . 
F 6 HOH A 88 992 992 HOH HOH . 
F 6 HOH A 89 993 993 HOH HOH . 
F 6 HOH A 90 994 994 HOH HOH . 
F 6 HOH A 91 995 995 HOH HOH . 
F 6 HOH A 92 996 996 HOH HOH . 
F 6 HOH A 93 997 997 HOH HOH . 
F 6 HOH A 94 998 998 HOH HOH . 
F 6 HOH A 95 999 999 HOH HOH . 
F 6 HOH A 96 1000 1000 HOH HOH . 
F 6 HOH A 97 1001 1001 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 . . . E 5 11.296 14.145 13.1 0.33 51.09 ? C1 GPP 904 A 1 
HETATM 2 O O1 GPP . . . E 5 11.765 13.51 11.93 0.33 49.86 ? O1 GPP 904 A 1 
HETATM 3 C C2 GPP . . . E 5 12.322 15.115 13.608 0.33 52.81 ? C2 GPP 904 A 1 
HETATM 4 C C3 GPP . . . E 5 12.233 16.409 13.298 1 54.67 ? C3 GPP 904 A 1 
HETATM 5 C C4 GPP . . . E 5 11.118 16.873 12.4 1 55.95 ? C4 GPP 904 A 1 
HETATM 6 C C5 GPP . . . E 5 12.553 17.401 14.378 1 56.93 ? C5 GPP 904 A 1 
HETATM 7 C C6 GPP . . . E 5 13.718 16.96 15.214 1 60.18 ? C6 GPP 904 A 1 
HETATM 8 C C7 GPP . . . E 5 13.73 17.978 16.31 1 65.64 ? C7 GPP 904 A 1 
HETATM 9 C C8 GPP . . . E 5 14.88 18.603 16.621 1 69.99 ? C8 GPP 904 A 1 
HETATM 10 C C9 GPP . . . E 5 16.138 18.281 15.89 1 71.32 ? C9 GPP 904 A 1 
HETATM 11 C C10 GPP . . . E 5 14.98 19.636 17.706 1 71.53 ? C10 GPP 904 A 1 
HETATM 12 P PA GPP . . . E 5 12.58 12.133 12.037 0.33 48.91 ? PA GPP 904 A 1 
HETATM 13 O O1A GPP . . . E 5 13.64 12.131 10.859 0.33 48.71 ? O1A GPP 904 A 1 
HETATM 14 O O2A GPP . . . E 5 13.313 12.005 13.446 0.33 49.06 ? O2A GPP 904 A 1 
HETATM 15 O O3A GPP . . . E 5 11.443 10.988 11.921 0.33 47.51 ? O3A GPP 904 A 1 
HETATM 16 P PB GPP . . . E 5 10.66 10.557 10.582 0.33 45.51 ? PB GPP 904 A 1 
HETATM 17 O O1B GPP . . . E 5 11.67 10.338 9.386 0.33 45.58 ? O1B GPP 904 A 1 
HETATM 18 O O2B GPP . . . E 5 9.924 9.194 10.892 0.33 45.62 ? O2B GPP 904 A 1 
HETATM 19 O O3B GPP . . . E 5 9.577 11.635 10.162 0.33 45.34 ? O3B GPP 904 A 1 
#
_model_server_stats.io_time_ms              34 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           329 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           19 
#