data_4PD1
#
_model_server_result.job_id            wDYWyJtWTRyKCx431LCdUw 
_model_server_result.datetime_utc      '2024-11-25 07:25:47' 
_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          4pd1 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":802}' 
#
_entry.id    4PD1 
#
_exptl.entry_id    4PD1 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    8 
_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            4PD1 
_cell.length_a            85.66 
_cell.length_b            100.06 
_cell.length_c            117.5 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4PD1 
_symmetry.cell_setting             . 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,H,I,J,K,L 
_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' 3_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -85.66 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 C N N 
? 3 D N N 
? 3 E N N 
? 3 F N N 
? 3 G N N 
? 3 H N N 
? 3 I N N 
? 3 J N N 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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 GOL sing 135 n n 
C1 C2 GOL sing 136 n n 
C1 H11 GOL sing 137 n n 
C1 H12 GOL sing 138 n n 
O1 HO1 GOL sing 139 n n 
C2 O2 GOL sing 140 n n 
C2 C3 GOL sing 141 n n 
C2 H2 GOL sing 142 n n 
O2 HO2 GOL sing 143 n n 
C3 O3 GOL sing 144 n n 
C3 H31 GOL sing 145 n n 
C3 H32 GOL sing 146 n n 
O3 HO3 GOL sing 147 n n 
#
_atom_sites.entry_id                     4PD1 
_atom_sites.fract_transf_matrix[1][1]    0.011674 
_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]    0.009994 
_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]    0.008511 
_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 GOL A 1 801 1 GOL GOL . 
D 3 GOL A 1 802 2 GOL GOL . 
E 3 GOL A 1 803 3 GOL GOL . 
F 3 GOL A 1 804 4 GOL GOL . 
G 3 GOL A 1 805 8 GOL GOL . 
H 3 GOL A 1 806 9 GOL GOL . 
I 3 GOL A 1 807 10 GOL GOL . 
J 3 GOL A 1 808 11 GOL GOL . 
K 4 ACT A 1 809 2 ACT ACT . 
L 5 HOH A 1 901 86 HOH HOH . 
L 5 HOH A 2 902 164 HOH HOH . 
L 5 HOH A 3 903 148 HOH HOH . 
L 5 HOH A 4 904 155 HOH HOH . 
L 5 HOH A 5 905 12 HOH HOH . 
L 5 HOH A 6 906 131 HOH HOH . 
L 5 HOH A 7 907 138 HOH HOH . 
L 5 HOH A 8 908 4 HOH HOH . 
L 5 HOH A 9 909 17 HOH HOH . 
L 5 HOH A 10 910 7 HOH HOH . 
L 5 HOH A 11 911 140 HOH HOH . 
L 5 HOH A 12 912 133 HOH HOH . 
L 5 HOH A 13 913 26 HOH HOH . 
L 5 HOH A 14 914 49 HOH HOH . 
L 5 HOH A 15 915 29 HOH HOH . 
L 5 HOH A 16 916 18 HOH HOH . 
L 5 HOH A 17 917 11 HOH HOH . 
L 5 HOH A 18 918 48 HOH HOH . 
L 5 HOH A 19 919 61 HOH HOH . 
L 5 HOH A 20 920 30 HOH HOH . 
L 5 HOH A 21 921 24 HOH HOH . 
L 5 HOH A 22 922 158 HOH HOH . 
L 5 HOH A 23 923 31 HOH HOH . 
L 5 HOH A 24 924 37 HOH HOH . 
L 5 HOH A 25 925 28 HOH HOH . 
L 5 HOH A 26 926 141 HOH HOH . 
L 5 HOH A 27 927 42 HOH HOH . 
L 5 HOH A 28 928 47 HOH HOH . 
L 5 HOH A 29 929 78 HOH HOH . 
L 5 HOH A 30 930 14 HOH HOH . 
L 5 HOH A 31 931 3 HOH HOH . 
L 5 HOH A 32 932 2 HOH HOH . 
L 5 HOH A 33 933 21 HOH HOH . 
L 5 HOH A 34 934 89 HOH HOH . 
L 5 HOH A 35 935 82 HOH HOH . 
L 5 HOH A 36 936 6 HOH HOH . 
L 5 HOH A 37 937 72 HOH HOH . 
L 5 HOH A 38 938 8 HOH HOH . 
L 5 HOH A 39 939 9 HOH HOH . 
L 5 HOH A 40 940 122 HOH HOH . 
L 5 HOH A 41 941 107 HOH HOH . 
L 5 HOH A 42 942 33 HOH HOH . 
L 5 HOH A 43 943 55 HOH HOH . 
L 5 HOH A 44 944 35 HOH HOH . 
L 5 HOH A 45 945 144 HOH HOH . 
L 5 HOH A 46 946 54 HOH HOH . 
L 5 HOH A 47 947 137 HOH HOH . 
L 5 HOH A 48 948 142 HOH HOH . 
L 5 HOH A 49 949 70 HOH HOH . 
L 5 HOH A 50 950 58 HOH HOH . 
L 5 HOH A 51 951 64 HOH HOH . 
L 5 HOH A 52 952 22 HOH HOH . 
L 5 HOH A 53 953 84 HOH HOH . 
L 5 HOH A 54 954 32 HOH HOH . 
L 5 HOH A 55 955 174 HOH HOH . 
L 5 HOH A 56 956 115 HOH HOH . 
L 5 HOH A 57 957 60 HOH HOH . 
L 5 HOH A 58 958 103 HOH HOH . 
L 5 HOH A 59 959 123 HOH HOH . 
L 5 HOH A 60 960 80 HOH HOH . 
L 5 HOH A 61 961 130 HOH HOH . 
L 5 HOH A 62 962 151 HOH HOH . 
L 5 HOH A 63 963 39 HOH HOH . 
L 5 HOH A 64 964 162 HOH HOH . 
L 5 HOH A 65 965 118 HOH HOH . 
L 5 HOH A 66 966 167 HOH HOH . 
L 5 HOH A 67 967 152 HOH HOH . 
L 5 HOH A 68 968 126 HOH HOH . 
L 5 HOH A 69 969 132 HOH HOH . 
L 5 HOH A 70 970 165 HOH HOH . 
L 5 HOH A 71 971 74 HOH HOH . 
L 5 HOH A 72 972 129 HOH HOH . 
L 5 HOH A 73 973 44 HOH HOH . 
L 5 HOH A 74 974 88 HOH HOH . 
L 5 HOH A 75 975 120 HOH HOH . 
L 5 HOH A 76 976 173 HOH HOH . 
L 5 HOH A 77 977 125 HOH HOH . 
L 5 HOH A 78 978 1 HOH HOH . 
L 5 HOH A 79 979 5 HOH HOH . 
L 5 HOH A 80 980 10 HOH HOH . 
L 5 HOH A 81 981 13 HOH HOH . 
L 5 HOH A 82 982 15 HOH HOH . 
L 5 HOH A 83 983 16 HOH HOH . 
L 5 HOH A 84 984 19 HOH HOH . 
L 5 HOH A 85 985 20 HOH HOH . 
L 5 HOH A 86 986 23 HOH HOH . 
L 5 HOH A 87 987 25 HOH HOH . 
L 5 HOH A 88 988 27 HOH HOH . 
L 5 HOH A 89 989 34 HOH HOH . 
L 5 HOH A 90 990 36 HOH HOH . 
L 5 HOH A 91 991 38 HOH HOH . 
L 5 HOH A 92 992 40 HOH HOH . 
L 5 HOH A 93 993 41 HOH HOH . 
L 5 HOH A 94 994 43 HOH HOH . 
L 5 HOH A 95 995 45 HOH HOH . 
L 5 HOH A 96 996 46 HOH HOH . 
L 5 HOH A 97 997 50 HOH HOH . 
L 5 HOH A 98 998 51 HOH HOH . 
L 5 HOH A 99 999 52 HOH HOH . 
L 5 HOH A 100 1000 53 HOH HOH . 
L 5 HOH A 101 1001 56 HOH HOH . 
L 5 HOH A 102 1002 57 HOH HOH . 
L 5 HOH A 103 1003 59 HOH HOH . 
L 5 HOH A 104 1004 62 HOH HOH . 
L 5 HOH A 105 1005 63 HOH HOH . 
L 5 HOH A 106 1006 65 HOH HOH . 
L 5 HOH A 107 1007 66 HOH HOH . 
L 5 HOH A 108 1008 67 HOH HOH . 
L 5 HOH A 109 1009 68 HOH HOH . 
L 5 HOH A 110 1010 69 HOH HOH . 
L 5 HOH A 111 1011 71 HOH HOH . 
L 5 HOH A 112 1012 73 HOH HOH . 
L 5 HOH A 113 1013 75 HOH HOH . 
L 5 HOH A 114 1014 76 HOH HOH . 
L 5 HOH A 115 1015 77 HOH HOH . 
L 5 HOH A 116 1016 79 HOH HOH . 
L 5 HOH A 117 1017 81 HOH HOH . 
L 5 HOH A 118 1018 83 HOH HOH . 
L 5 HOH A 119 1019 85 HOH HOH . 
L 5 HOH A 120 1020 87 HOH HOH . 
L 5 HOH A 121 1021 90 HOH HOH . 
L 5 HOH A 122 1022 91 HOH HOH . 
L 5 HOH A 123 1023 92 HOH HOH . 
L 5 HOH A 124 1024 93 HOH HOH . 
L 5 HOH A 125 1025 94 HOH HOH . 
L 5 HOH A 126 1026 95 HOH HOH . 
L 5 HOH A 127 1027 96 HOH HOH . 
L 5 HOH A 128 1028 97 HOH HOH . 
L 5 HOH A 129 1029 98 HOH HOH . 
L 5 HOH A 130 1030 99 HOH HOH . 
L 5 HOH A 131 1031 100 HOH HOH . 
L 5 HOH A 132 1032 101 HOH HOH . 
L 5 HOH A 133 1033 102 HOH HOH . 
L 5 HOH A 134 1034 104 HOH HOH . 
L 5 HOH A 135 1035 105 HOH HOH . 
L 5 HOH A 136 1036 106 HOH HOH . 
L 5 HOH A 137 1037 108 HOH HOH . 
L 5 HOH A 138 1038 109 HOH HOH . 
L 5 HOH A 139 1039 110 HOH HOH . 
L 5 HOH A 140 1040 111 HOH HOH . 
L 5 HOH A 141 1041 112 HOH HOH . 
L 5 HOH A 142 1042 113 HOH HOH . 
L 5 HOH A 143 1043 114 HOH HOH . 
L 5 HOH A 144 1044 116 HOH HOH . 
L 5 HOH A 145 1045 117 HOH HOH . 
L 5 HOH A 146 1046 119 HOH HOH . 
L 5 HOH A 147 1047 121 HOH HOH . 
L 5 HOH A 148 1048 124 HOH HOH . 
L 5 HOH A 149 1049 127 HOH HOH . 
L 5 HOH A 150 1050 128 HOH HOH . 
L 5 HOH A 151 1051 134 HOH HOH . 
L 5 HOH A 152 1052 135 HOH HOH . 
L 5 HOH A 153 1053 136 HOH HOH . 
L 5 HOH A 154 1054 139 HOH HOH . 
L 5 HOH A 155 1055 143 HOH HOH . 
L 5 HOH A 156 1056 145 HOH HOH . 
L 5 HOH A 157 1057 146 HOH HOH . 
L 5 HOH A 158 1058 147 HOH HOH . 
L 5 HOH A 159 1059 149 HOH HOH . 
L 5 HOH A 160 1060 150 HOH HOH . 
L 5 HOH A 161 1061 153 HOH HOH . 
L 5 HOH A 162 1062 154 HOH HOH . 
L 5 HOH A 163 1063 156 HOH HOH . 
L 5 HOH A 164 1064 157 HOH HOH . 
L 5 HOH A 165 1065 159 HOH HOH . 
L 5 HOH A 166 1066 160 HOH HOH . 
L 5 HOH A 167 1067 161 HOH HOH . 
L 5 HOH A 168 1068 163 HOH HOH . 
L 5 HOH A 169 1069 166 HOH HOH . 
L 5 HOH A 170 1070 168 HOH HOH . 
L 5 HOH A 171 1071 169 HOH HOH . 
L 5 HOH A 172 1072 170 HOH HOH . 
L 5 HOH A 173 1073 171 HOH HOH . 
L 5 HOH A 174 1074 172 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 GOL . . . D 3 -21.523 -35.237 -8.023 1 52.52 ? C1 GOL 802 A 1 
HETATM 2 O O1 GOL . . . D 3 -20.941 -35.593 -6.777 1 41.53 ? O1 GOL 802 A 1 
HETATM 3 C C2 GOL . . . D 3 -20.452 -35.16 -9.113 1 63.66 ? C2 GOL 802 A 1 
HETATM 4 O O2 GOL . . . D 3 -19.806 -36.406 -9.247 1 76.09 ? O2 GOL 802 A 1 
HETATM 5 C C3 GOL . . . D 3 -21.057 -34.774 -10.461 1 67.38 ? C3 GOL 802 A 1 
HETATM 6 O O3 GOL . . . D 3 -20.225 -35.246 -11.505 1 72.15 ? O3 GOL 802 A 1 
HETATM 7 H H11 GOL . . . D 3 -22.273 -35.978 -8.3 1 63.02 ? H11 GOL 802 A 1 
HETATM 8 H H12 GOL . . . D 3 -22.021 -34.272 -7.93 1 63.02 ? H12 GOL 802 A 1 
HETATM 9 H HO1 GOL . . . D 3 -21.628 -35.574 -6.078 1 49.84 ? HO1 GOL 802 A 1 
HETATM 10 H H2 GOL . . . D 3 -19.725 -34.399 -8.83 1 76.39 ? H2 GOL 802 A 1 
HETATM 11 H HO2 GOL . . . D 3 -20.454 -37.081 -9.537 1 91.31 ? HO2 GOL 802 A 1 
HETATM 12 H H31 GOL . . . D 3 -22.052 -35.209 -10.557 1 80.86 ? H31 GOL 802 A 1 
HETATM 13 H H32 GOL . . . D 3 -21.151 -33.69 -10.526 1 80.86 ? H32 GOL 802 A 1 
HETATM 14 H HO3 GOL . . . D 3 -20.019 -34.508 -12.117 1 86.58 ? HO3 GOL 802 A 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           41 
_model_server_stats.create_model_time_ms    15 
_model_server_stats.query_time_ms           657 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           14 
#