data_5DYK
#
_model_server_result.job_id            vGQ6y09WMLX0tk4vz5WVDQ 
_model_server_result.datetime_utc      '2024-11-01 07:19:38' 
_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          5dyk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":901}' 
#
_entry.id    5DYK 
#
_exptl.entry_id    5DYK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_entity.pdbx_number_of_molecules    2 
_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            5DYK 
_cell.length_a            94.509 
_cell.length_b            127.284 
_cell.length_c            215.104 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5DYK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
PISA dimeric 2 software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H 1 1 
A,B,C,D,E,F,G,H 2 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_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -127.284 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 B N N 
? 2 C N N 
#
_chem_comp.formula           'C2 H6 O2' 
_chem_comp.formula_weight    62.068 
_chem_comp.id                EDO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-ETHANEDIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'ETHYLENE GLYCOL' 
#
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 EDO sing 83 n n 
C1 C2 EDO sing 84 n n 
C1 H11 EDO sing 85 n n 
C1 H12 EDO sing 86 n n 
O1 HO1 EDO sing 87 n n 
C2 O2 EDO sing 88 n n 
C2 H21 EDO sing 89 n n 
C2 H22 EDO sing 90 n n 
O2 HO2 EDO sing 91 n n 
#
_atom_sites.entry_id                     5DYK 
_atom_sites.fract_transf_matrix[1][1]    0.010581 
_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]    0.007856 
_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]    0.004649 
_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 EDO A 1 901 901 EDO EDO . 
C 2 EDO A 1 902 902 EDO EDO . 
D 3 SO4 A 1 903 903 SO4 SO4 . 
E 3 SO4 A 1 904 904 SO4 SO4 . 
F 4 GOL A 1 905 905 GOL GOL . 
G 4 GOL A 1 906 906 GOL GOL . 
H 5 HOH A 1 1001 1170 HOH HOH . 
H 5 HOH A 2 1002 1106 HOH HOH . 
H 5 HOH A 3 1003 1147 HOH HOH . 
H 5 HOH A 4 1004 1069 HOH HOH . 
H 5 HOH A 5 1005 1029 HOH HOH . 
H 5 HOH A 6 1006 1111 HOH HOH . 
H 5 HOH A 7 1007 1161 HOH HOH . 
H 5 HOH A 8 1008 1021 HOH HOH . 
H 5 HOH A 9 1009 1007 HOH HOH . 
H 5 HOH A 10 1010 1062 HOH HOH . 
H 5 HOH A 11 1011 1138 HOH HOH . 
H 5 HOH A 12 1012 1059 HOH HOH . 
H 5 HOH A 13 1013 1023 HOH HOH . 
H 5 HOH A 14 1014 1012 HOH HOH . 
H 5 HOH A 15 1015 1046 HOH HOH . 
H 5 HOH A 16 1016 1031 HOH HOH . 
H 5 HOH A 17 1017 1107 HOH HOH . 
H 5 HOH A 18 1018 1044 HOH HOH . 
H 5 HOH A 19 1019 1025 HOH HOH . 
H 5 HOH A 20 1020 1159 HOH HOH . 
H 5 HOH A 21 1021 1127 HOH HOH . 
H 5 HOH A 22 1022 1003 HOH HOH . 
H 5 HOH A 23 1023 1152 HOH HOH . 
H 5 HOH A 24 1024 1075 HOH HOH . 
H 5 HOH A 25 1025 1133 HOH HOH . 
H 5 HOH A 26 1026 1054 HOH HOH . 
H 5 HOH A 27 1027 1165 HOH HOH . 
H 5 HOH A 28 1028 1150 HOH HOH . 
H 5 HOH A 29 1029 1171 HOH HOH . 
H 5 HOH A 30 1030 1068 HOH HOH . 
H 5 HOH A 31 1031 1040 HOH HOH . 
H 5 HOH A 32 1032 1028 HOH HOH . 
H 5 HOH A 33 1033 1038 HOH HOH . 
H 5 HOH A 34 1034 1057 HOH HOH . 
H 5 HOH A 35 1035 1083 HOH HOH . 
H 5 HOH A 36 1036 1155 HOH HOH . 
H 5 HOH A 37 1037 1103 HOH HOH . 
H 5 HOH A 38 1038 1005 HOH HOH . 
H 5 HOH A 39 1039 1013 HOH HOH . 
H 5 HOH A 40 1040 1105 HOH HOH . 
H 5 HOH A 41 1041 1018 HOH HOH . 
H 5 HOH A 42 1042 1008 HOH HOH . 
H 5 HOH A 43 1043 1120 HOH HOH . 
H 5 HOH A 44 1044 1134 HOH HOH . 
H 5 HOH A 45 1045 1050 HOH HOH . 
H 5 HOH A 46 1046 1163 HOH HOH . 
H 5 HOH A 47 1047 1136 HOH HOH . 
H 5 HOH A 48 1048 1035 HOH HOH . 
H 5 HOH A 49 1049 1095 HOH HOH . 
H 5 HOH A 50 1050 1130 HOH HOH . 
H 5 HOH A 51 1051 1158 HOH HOH . 
H 5 HOH A 52 1052 1110 HOH HOH . 
H 5 HOH A 53 1053 1144 HOH HOH . 
H 5 HOH A 54 1054 1145 HOH HOH . 
H 5 HOH A 55 1055 1064 HOH HOH . 
H 5 HOH A 56 1056 1122 HOH HOH . 
H 5 HOH A 57 1057 1123 HOH HOH . 
H 5 HOH A 58 1058 1027 HOH HOH . 
H 5 HOH A 59 1059 1047 HOH HOH . 
H 5 HOH A 60 1060 1066 HOH HOH . 
H 5 HOH A 61 1061 1104 HOH HOH . 
H 5 HOH A 62 1062 1004 HOH HOH . 
H 5 HOH A 63 1063 1162 HOH HOH . 
H 5 HOH A 64 1064 1010 HOH HOH . 
H 5 HOH A 65 1065 1146 HOH HOH . 
H 5 HOH A 66 1066 1109 HOH HOH . 
H 5 HOH A 67 1067 1168 HOH HOH . 
H 5 HOH A 68 1068 1011 HOH HOH . 
H 5 HOH A 69 1069 1142 HOH HOH . 
H 5 HOH A 70 1070 1032 HOH HOH . 
H 5 HOH A 71 1071 1089 HOH HOH . 
H 5 HOH A 72 1072 1017 HOH HOH . 
H 5 HOH A 73 1073 1135 HOH HOH . 
H 5 HOH A 74 1074 1041 HOH HOH . 
H 5 HOH A 75 1075 1014 HOH HOH . 
H 5 HOH A 76 1076 1139 HOH HOH . 
H 5 HOH A 77 1077 1071 HOH HOH . 
H 5 HOH A 78 1078 1009 HOH HOH . 
H 5 HOH A 79 1079 1154 HOH HOH . 
H 5 HOH A 80 1080 1094 HOH HOH . 
H 5 HOH A 81 1081 1036 HOH HOH . 
H 5 HOH A 82 1082 1058 HOH HOH . 
H 5 HOH A 83 1083 1085 HOH HOH . 
H 5 HOH A 84 1084 1048 HOH HOH . 
H 5 HOH A 85 1085 1114 HOH HOH . 
H 5 HOH A 86 1086 1060 HOH HOH . 
H 5 HOH A 87 1087 1045 HOH HOH . 
H 5 HOH A 88 1088 1093 HOH HOH . 
H 5 HOH A 89 1089 1065 HOH HOH . 
H 5 HOH A 90 1090 1042 HOH HOH . 
H 5 HOH A 91 1091 1015 HOH HOH . 
H 5 HOH A 92 1092 1037 HOH HOH . 
H 5 HOH A 93 1093 1034 HOH HOH . 
H 5 HOH A 94 1094 1084 HOH HOH . 
H 5 HOH A 95 1095 1096 HOH HOH . 
H 5 HOH A 96 1096 1129 HOH HOH . 
H 5 HOH A 97 1097 1117 HOH HOH . 
H 5 HOH A 98 1098 1002 HOH HOH . 
H 5 HOH A 99 1099 1074 HOH HOH . 
H 5 HOH A 100 1100 1149 HOH HOH . 
H 5 HOH A 101 1101 1020 HOH HOH . 
H 5 HOH A 102 1102 1024 HOH HOH . 
H 5 HOH A 103 1103 1001 HOH HOH . 
H 5 HOH A 104 1104 1116 HOH HOH . 
H 5 HOH A 105 1105 1052 HOH HOH . 
H 5 HOH A 106 1106 1081 HOH HOH . 
H 5 HOH A 107 1107 1137 HOH HOH . 
H 5 HOH A 108 1108 1112 HOH HOH . 
H 5 HOH A 109 1109 1053 HOH HOH . 
H 5 HOH A 110 1110 1119 HOH HOH . 
H 5 HOH A 111 1111 1140 HOH HOH . 
H 5 HOH A 112 1112 1039 HOH HOH . 
H 5 HOH A 113 1113 1067 HOH HOH . 
H 5 HOH A 114 1114 1113 HOH HOH . 
H 5 HOH A 115 1115 1026 HOH HOH . 
H 5 HOH A 116 1116 1118 HOH HOH . 
H 5 HOH A 117 1117 1051 HOH HOH . 
H 5 HOH A 118 1118 1082 HOH HOH . 
H 5 HOH A 119 1119 1022 HOH HOH . 
H 5 HOH A 120 1120 1019 HOH HOH . 
H 5 HOH A 121 1121 1055 HOH HOH . 
H 5 HOH A 122 1122 1016 HOH HOH . 
H 5 HOH A 123 1123 1128 HOH HOH . 
H 5 HOH A 124 1124 1164 HOH HOH . 
H 5 HOH A 125 1125 1108 HOH HOH . 
H 5 HOH A 126 1126 1061 HOH HOH . 
H 5 HOH A 127 1127 1072 HOH HOH . 
H 5 HOH A 128 1128 1078 HOH HOH . 
H 5 HOH A 129 1129 1099 HOH HOH . 
H 5 HOH A 130 1130 1148 HOH HOH . 
H 5 HOH A 131 1131 1132 HOH HOH . 
H 5 HOH A 132 1132 1157 HOH HOH . 
H 5 HOH A 133 1133 1090 HOH HOH . 
H 5 HOH A 134 1134 1073 HOH HOH . 
H 5 HOH A 135 1135 1126 HOH HOH . 
H 5 HOH A 136 1136 1167 HOH HOH . 
H 5 HOH A 137 1137 1156 HOH HOH . 
H 5 HOH A 138 1138 1077 HOH HOH . 
H 5 HOH A 139 1139 1033 HOH HOH . 
H 5 HOH A 140 1140 1030 HOH HOH . 
H 5 HOH A 141 1141 1070 HOH HOH . 
H 5 HOH A 142 1142 1076 HOH HOH . 
H 5 HOH A 143 1143 1153 HOH HOH . 
H 5 HOH A 144 1144 1125 HOH HOH . 
H 5 HOH A 145 1145 1151 HOH HOH . 
H 5 HOH A 146 1146 1080 HOH HOH . 
H 5 HOH A 147 1147 1143 HOH HOH . 
H 5 HOH A 148 1148 1088 HOH HOH . 
H 5 HOH A 149 1149 1006 HOH HOH . 
H 5 HOH A 150 1150 1087 HOH HOH . 
H 5 HOH A 151 1151 1166 HOH HOH . 
H 5 HOH A 152 1152 1097 HOH HOH . 
H 5 HOH A 153 1153 1141 HOH HOH . 
H 5 HOH A 154 1154 1079 HOH HOH . 
H 5 HOH A 155 1155 1049 HOH HOH . 
H 5 HOH A 156 1156 1056 HOH HOH . 
H 5 HOH A 157 1157 1100 HOH HOH . 
H 5 HOH A 158 1158 1098 HOH HOH . 
H 5 HOH A 159 1159 1169 HOH HOH . 
H 5 HOH A 160 1160 1124 HOH HOH . 
H 5 HOH A 161 1161 1160 HOH HOH . 
H 5 HOH A 162 1162 1121 HOH HOH . 
H 5 HOH A 163 1163 1115 HOH HOH . 
H 5 HOH A 164 1164 1092 HOH HOH . 
H 5 HOH A 165 1165 1086 HOH HOH . 
H 5 HOH A 166 1166 1091 HOH HOH . 
H 5 HOH A 167 1167 1101 HOH HOH . 
H 5 HOH A 168 1168 1043 HOH HOH . 
H 5 HOH A 169 1169 1102 HOH HOH . 
H 5 HOH A 170 1170 1131 HOH HOH . 
H 5 HOH A 171 1171 1063 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 EDO . . . B 2 13.089 -58.255 -18.11 1 55.18 ? C1 EDO 901 A 1 
HETATM 2 O O1 EDO . . . B 2 12.958 -59.488 -17.392 1 56.1 ? O1 EDO 901 A 1 
HETATM 3 C C2 EDO . . . B 2 11.708 -57.783 -18.559 1 55.26 ? C2 EDO 901 A 1 
HETATM 4 O O2 EDO . . . B 2 10.72 -57.987 -17.534 1 54.67 ? O2 EDO 901 A 1 
#
_model_server_stats.io_time_ms              30 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           270 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           4 
#