data_3CBY
#
_model_server_result.job_id            4JemD8y6m2PiQidHgj40RA 
_model_server_result.datetime_utc      '2024-10-12 19:22:37' 
_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          3cby 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":2001}' 
#
_entry.id    3CBY 
#
_exptl.entry_id    3CBY 
_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          100.33 
_cell.angle_gamma         90 
_cell.entry_id            3CBY 
_cell.length_a            136.303 
_cell.length_b            52.187 
_cell.length_c            31.911 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3CBY 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D 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                     3CBY 
_atom_sites.fract_transf_matrix[1][1]    0.007337 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001337 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.019162 
_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]    0.031853 
_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 2 EDO A 1 2002 2002 EDO EDO . 
D 2 EDO B 1 2001 2001 EDO EDO . 
E 3 HOH A 1 1001 1001 HOH HOH . 
E 3 HOH A 2 1002 1002 HOH HOH . 
E 3 HOH A 3 1003 1003 HOH HOH . 
E 3 HOH A 4 1004 1004 HOH HOH . 
E 3 HOH A 5 1006 1006 HOH HOH . 
E 3 HOH A 6 1007 1007 HOH HOH . 
E 3 HOH A 7 1008 1008 HOH HOH . 
E 3 HOH A 8 1009 1009 HOH HOH . 
E 3 HOH A 9 1010 1010 HOH HOH . 
E 3 HOH A 10 1013 1013 HOH HOH . 
E 3 HOH A 11 1014 1014 HOH HOH . 
E 3 HOH A 12 1016 1016 HOH HOH . 
E 3 HOH A 13 1017 1017 HOH HOH . 
E 3 HOH A 14 1019 1019 HOH HOH . 
E 3 HOH A 15 1021 1021 HOH HOH . 
E 3 HOH A 16 1024 1024 HOH HOH . 
E 3 HOH A 17 1026 1026 HOH HOH . 
E 3 HOH A 18 1028 1028 HOH HOH . 
E 3 HOH A 19 1029 1029 HOH HOH . 
E 3 HOH A 20 1033 1033 HOH HOH . 
E 3 HOH A 21 1034 1034 HOH HOH . 
E 3 HOH A 22 1035 1035 HOH HOH . 
E 3 HOH A 23 1036 1036 HOH HOH . 
E 3 HOH A 24 1037 1037 HOH HOH . 
E 3 HOH A 25 1038 1038 HOH HOH . 
E 3 HOH A 26 1039 1039 HOH HOH . 
E 3 HOH A 27 1041 1041 HOH HOH . 
E 3 HOH A 28 1042 1042 HOH HOH . 
E 3 HOH A 29 1043 1043 HOH HOH . 
E 3 HOH A 30 1044 1044 HOH HOH . 
E 3 HOH A 31 1048 1048 HOH HOH . 
E 3 HOH A 32 1049 1049 HOH HOH . 
E 3 HOH A 33 1050 1050 HOH HOH . 
E 3 HOH A 34 1052 1052 HOH HOH . 
E 3 HOH A 35 1053 1053 HOH HOH . 
E 3 HOH A 36 1054 1054 HOH HOH . 
E 3 HOH A 37 1055 1055 HOH HOH . 
E 3 HOH A 38 1056 1056 HOH HOH . 
E 3 HOH A 39 1059 1059 HOH HOH . 
E 3 HOH A 40 1060 1060 HOH HOH . 
E 3 HOH A 41 1061 1061 HOH HOH . 
E 3 HOH A 42 1062 1062 HOH HOH . 
E 3 HOH A 43 1063 1063 HOH HOH . 
E 3 HOH A 44 1064 1064 HOH HOH . 
E 3 HOH A 45 1067 1067 HOH HOH . 
E 3 HOH A 46 1069 1069 HOH HOH . 
E 3 HOH A 47 1070 1070 HOH HOH . 
E 3 HOH A 48 1072 1072 HOH HOH . 
E 3 HOH A 49 1073 1073 HOH HOH . 
E 3 HOH A 50 1074 1074 HOH HOH . 
E 3 HOH A 51 1077 1077 HOH HOH . 
E 3 HOH A 52 1080 1080 HOH HOH . 
E 3 HOH A 53 1081 1081 HOH HOH . 
E 3 HOH A 54 1082 1082 HOH HOH . 
E 3 HOH A 55 1083 1083 HOH HOH . 
E 3 HOH A 56 1084 1084 HOH HOH . 
E 3 HOH A 57 1088 1088 HOH HOH . 
E 3 HOH A 58 1091 1091 HOH HOH . 
E 3 HOH A 59 1092 1092 HOH HOH . 
E 3 HOH A 60 1094 1094 HOH HOH . 
E 3 HOH A 61 1095 1095 HOH HOH . 
E 3 HOH A 62 1098 1098 HOH HOH . 
E 3 HOH A 63 1102 1102 HOH HOH . 
E 3 HOH A 64 1105 1105 HOH HOH . 
E 3 HOH A 65 1106 1106 HOH HOH . 
E 3 HOH A 66 1107 1107 HOH HOH . 
E 3 HOH A 67 1108 1108 HOH HOH . 
E 3 HOH A 68 1110 1110 HOH HOH . 
E 3 HOH A 69 1111 1111 HOH HOH . 
E 3 HOH A 70 1117 1117 HOH HOH . 
E 3 HOH A 71 1119 1119 HOH HOH . 
E 3 HOH A 72 1126 1126 HOH HOH . 
E 3 HOH A 73 1127 1127 HOH HOH . 
E 3 HOH A 74 1128 1128 HOH HOH . 
E 3 HOH A 75 1130 1130 HOH HOH . 
E 3 HOH A 76 1133 1133 HOH HOH . 
E 3 HOH A 77 1136 1136 HOH HOH . 
E 3 HOH A 78 1138 1138 HOH HOH . 
E 3 HOH A 79 1140 1140 HOH HOH . 
E 3 HOH A 80 1141 1141 HOH HOH . 
E 3 HOH A 81 1142 1142 HOH HOH . 
E 3 HOH A 82 1144 1144 HOH HOH . 
E 3 HOH A 83 1146 1146 HOH HOH . 
E 3 HOH A 84 1152 1152 HOH HOH . 
E 3 HOH A 85 1155 1155 HOH HOH . 
E 3 HOH A 86 1157 1157 HOH HOH . 
E 3 HOH A 87 1159 1159 HOH HOH . 
E 3 HOH A 88 1161 1161 HOH HOH . 
E 3 HOH A 89 1162 1162 HOH HOH . 
E 3 HOH A 90 1163 1163 HOH HOH . 
E 3 HOH A 91 1164 1164 HOH HOH . 
E 3 HOH A 92 1165 1165 HOH HOH . 
E 3 HOH A 93 1166 1166 HOH HOH . 
E 3 HOH A 94 1167 1167 HOH HOH . 
E 3 HOH A 95 1168 1168 HOH HOH . 
E 3 HOH A 96 1169 1169 HOH HOH . 
E 3 HOH A 97 1171 1171 HOH HOH . 
E 3 HOH A 98 1173 1173 HOH HOH . 
E 3 HOH A 99 1175 1175 HOH HOH . 
E 3 HOH A 100 1177 1177 HOH HOH . 
E 3 HOH A 101 1178 1178 HOH HOH . 
E 3 HOH A 102 1179 1179 HOH HOH . 
E 3 HOH A 103 1180 1180 HOH HOH . 
E 3 HOH A 104 1181 1181 HOH HOH . 
E 3 HOH A 105 1182 1182 HOH HOH . 
E 3 HOH A 106 1185 1185 HOH HOH . 
E 3 HOH A 107 1186 1186 HOH HOH . 
E 3 HOH A 108 1187 1187 HOH HOH . 
E 3 HOH A 109 1188 1188 HOH HOH . 
E 3 HOH A 110 1190 1190 HOH HOH . 
E 3 HOH A 111 1191 1191 HOH HOH . 
E 3 HOH A 112 1192 1192 HOH HOH . 
E 3 HOH A 113 1194 1194 HOH HOH . 
E 3 HOH A 114 1195 1195 HOH HOH . 
E 3 HOH A 115 1196 1196 HOH HOH . 
F 3 HOH B 1 1005 1005 HOH HOH . 
F 3 HOH B 2 1011 1011 HOH HOH . 
F 3 HOH B 3 1012 1012 HOH HOH . 
F 3 HOH B 4 1015 1015 HOH HOH . 
F 3 HOH B 5 1018 1018 HOH HOH . 
F 3 HOH B 6 1020 1020 HOH HOH . 
F 3 HOH B 7 1022 1022 HOH HOH . 
F 3 HOH B 8 1023 1023 HOH HOH . 
F 3 HOH B 9 1025 1025 HOH HOH . 
F 3 HOH B 10 1027 1027 HOH HOH . 
F 3 HOH B 11 1030 1030 HOH HOH . 
F 3 HOH B 12 1031 1031 HOH HOH . 
F 3 HOH B 13 1032 1032 HOH HOH . 
F 3 HOH B 14 1040 1040 HOH HOH . 
F 3 HOH B 15 1045 1045 HOH HOH . 
F 3 HOH B 16 1046 1046 HOH HOH . 
F 3 HOH B 17 1047 1047 HOH HOH . 
F 3 HOH B 18 1051 1051 HOH HOH . 
F 3 HOH B 19 1057 1057 HOH HOH . 
F 3 HOH B 20 1058 1058 HOH HOH . 
F 3 HOH B 21 1065 1065 HOH HOH . 
F 3 HOH B 22 1066 1066 HOH HOH . 
F 3 HOH B 23 1068 1068 HOH HOH . 
F 3 HOH B 24 1071 1071 HOH HOH . 
F 3 HOH B 25 1075 1075 HOH HOH . 
F 3 HOH B 26 1076 1076 HOH HOH . 
F 3 HOH B 27 1078 1078 HOH HOH . 
F 3 HOH B 28 1079 1079 HOH HOH . 
F 3 HOH B 29 1085 1085 HOH HOH . 
F 3 HOH B 30 1086 1086 HOH HOH . 
F 3 HOH B 31 1087 1087 HOH HOH . 
F 3 HOH B 32 1089 1089 HOH HOH . 
F 3 HOH B 33 1090 1090 HOH HOH . 
F 3 HOH B 34 1093 1093 HOH HOH . 
F 3 HOH B 35 1096 1096 HOH HOH . 
F 3 HOH B 36 1097 1097 HOH HOH . 
F 3 HOH B 37 1099 1099 HOH HOH . 
F 3 HOH B 38 1100 1100 HOH HOH . 
F 3 HOH B 39 1101 1101 HOH HOH . 
F 3 HOH B 40 1103 1103 HOH HOH . 
F 3 HOH B 41 1104 1104 HOH HOH . 
F 3 HOH B 42 1109 1109 HOH HOH . 
F 3 HOH B 43 1112 1112 HOH HOH . 
F 3 HOH B 44 1113 1113 HOH HOH . 
F 3 HOH B 45 1114 1114 HOH HOH . 
F 3 HOH B 46 1115 1115 HOH HOH . 
F 3 HOH B 47 1116 1116 HOH HOH . 
F 3 HOH B 48 1118 1118 HOH HOH . 
F 3 HOH B 49 1120 1120 HOH HOH . 
F 3 HOH B 50 1121 1121 HOH HOH . 
F 3 HOH B 51 1122 1122 HOH HOH . 
F 3 HOH B 52 1123 1123 HOH HOH . 
F 3 HOH B 53 1124 1124 HOH HOH . 
F 3 HOH B 54 1125 1125 HOH HOH . 
F 3 HOH B 55 1129 1129 HOH HOH . 
F 3 HOH B 56 1131 1131 HOH HOH . 
F 3 HOH B 57 1132 1132 HOH HOH . 
F 3 HOH B 58 1134 1134 HOH HOH . 
F 3 HOH B 59 1135 1135 HOH HOH . 
F 3 HOH B 60 1137 1137 HOH HOH . 
F 3 HOH B 61 1139 1139 HOH HOH . 
F 3 HOH B 62 1143 1143 HOH HOH . 
F 3 HOH B 63 1145 1145 HOH HOH . 
F 3 HOH B 64 1147 1147 HOH HOH . 
F 3 HOH B 65 1148 1148 HOH HOH . 
F 3 HOH B 66 1149 1149 HOH HOH . 
F 3 HOH B 67 1150 1150 HOH HOH . 
F 3 HOH B 68 1151 1151 HOH HOH . 
F 3 HOH B 69 1153 1153 HOH HOH . 
F 3 HOH B 70 1154 1154 HOH HOH . 
F 3 HOH B 71 1156 1156 HOH HOH . 
F 3 HOH B 72 1158 1158 HOH HOH . 
F 3 HOH B 73 1160 1160 HOH HOH . 
F 3 HOH B 74 1170 1170 HOH HOH . 
F 3 HOH B 75 1172 1172 HOH HOH . 
F 3 HOH B 76 1174 1174 HOH HOH . 
F 3 HOH B 77 1176 1176 HOH HOH . 
F 3 HOH B 78 1183 1183 HOH HOH . 
F 3 HOH B 79 1184 1184 HOH HOH . 
F 3 HOH B 80 1189 1189 HOH HOH . 
F 3 HOH B 81 1193 1193 HOH HOH . 
F 3 HOH B 82 1197 1197 HOH HOH . 
F 3 HOH B 83 1198 1198 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 . . . D 2 39.283 8.859 12.529 1 32.45 ? C1 EDO 2001 B 1 
HETATM 2 O O1 EDO . . . D 2 39.847 9.299 11.274 1 37.15 ? O1 EDO 2001 B 1 
HETATM 3 C C2 EDO . . . D 2 37.985 9.604 12.798 1 31.77 ? C2 EDO 2001 B 1 
HETATM 4 O O2 EDO . . . D 2 38.252 11.002 13.086 1 35.26 ? O2 EDO 2001 B 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           267 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           4 
#