data_2ZDN
#
_model_server_result.job_id            8xVxDMF87E2CTQJhGtlDvw 
_model_server_result.datetime_utc      '2024-11-01 08:16:35' 
_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          2zdn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":902}' 
#
_entry.id    2ZDN 
#
_exptl.entry_id    2ZDN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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         120 
_cell.entry_id            2ZDN 
_cell.length_a            54.6 
_cell.length_b            54.6 
_cell.length_c            108.5 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2ZDN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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
? 4 D N N 
? 4 E N 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
disulf ? disulf1 A SG CYS 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? 
disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
#
_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 188 n n 
C1 C2 GOL sing 189 n n 
C1 H11 GOL sing 190 n n 
C1 H12 GOL sing 191 n n 
O1 HO1 GOL sing 192 n n 
C2 O2 GOL sing 193 n n 
C2 C3 GOL sing 194 n n 
C2 H2 GOL sing 195 n n 
O2 HO2 GOL sing 196 n n 
C3 O3 GOL sing 197 n n 
C3 H31 GOL sing 198 n n 
C3 H32 GOL sing 199 n n 
O3 HO3 GOL sing 200 n n 
#
_atom_sites.entry_id                     2ZDN 
_atom_sites.fract_transf_matrix[1][1]    0.018315 
_atom_sites.fract_transf_matrix[1][2]    0.010574 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.021148 
_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]    0.009217 
_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 CA A 1 601 601 CA CA . 
C 3 49U A 1 501 501 49U 49U . 
D 4 GOL A 1 902 902 GOL GOL . 
E 4 GOL A 1 903 903 GOL GOL . 
F 5 HOH A 1 1001 1001 HOH HOH . 
F 5 HOH A 2 1002 1002 HOH HOH . 
F 5 HOH A 3 1003 1003 HOH HOH . 
F 5 HOH A 4 1004 1004 HOH HOH . 
F 5 HOH A 5 1005 1005 HOH HOH . 
F 5 HOH A 6 1006 1006 HOH HOH . 
F 5 HOH A 7 1007 1007 HOH HOH . 
F 5 HOH A 8 1008 1008 HOH HOH . 
F 5 HOH A 9 1009 1009 HOH HOH . 
F 5 HOH A 10 1010 1010 HOH HOH . 
F 5 HOH A 11 1011 1011 HOH HOH . 
F 5 HOH A 12 1012 1012 HOH HOH . 
F 5 HOH A 13 1013 1013 HOH HOH . 
F 5 HOH A 14 1014 1014 HOH HOH . 
F 5 HOH A 15 1015 1015 HOH HOH . 
F 5 HOH A 16 1016 1016 HOH HOH . 
F 5 HOH A 17 1017 1017 HOH HOH . 
F 5 HOH A 18 1018 1018 HOH HOH . 
F 5 HOH A 19 1019 1019 HOH HOH . 
F 5 HOH A 20 1020 1020 HOH HOH . 
F 5 HOH A 21 1021 1021 HOH HOH . 
F 5 HOH A 22 1022 1022 HOH HOH . 
F 5 HOH A 23 1023 1023 HOH HOH . 
F 5 HOH A 24 1024 1024 HOH HOH . 
F 5 HOH A 25 1025 1025 HOH HOH . 
F 5 HOH A 26 1026 1026 HOH HOH . 
F 5 HOH A 27 1027 1027 HOH HOH . 
F 5 HOH A 28 1028 1028 HOH HOH . 
F 5 HOH A 29 1029 1029 HOH HOH . 
F 5 HOH A 30 1030 1030 HOH HOH . 
F 5 HOH A 31 1031 1031 HOH HOH . 
F 5 HOH A 32 1032 1032 HOH HOH . 
F 5 HOH A 33 1033 1033 HOH HOH . 
F 5 HOH A 34 1034 1034 HOH HOH . 
F 5 HOH A 35 1035 1035 HOH HOH . 
F 5 HOH A 36 1036 1036 HOH HOH . 
F 5 HOH A 37 1037 1037 HOH HOH . 
F 5 HOH A 38 1038 1038 HOH HOH . 
F 5 HOH A 39 1039 1039 HOH HOH . 
F 5 HOH A 40 1040 1040 HOH HOH . 
F 5 HOH A 41 1041 1041 HOH HOH . 
F 5 HOH A 42 1042 1042 HOH HOH . 
F 5 HOH A 43 1043 1043 HOH HOH . 
F 5 HOH A 44 1044 1044 HOH HOH . 
F 5 HOH A 45 1045 1045 HOH HOH . 
F 5 HOH A 46 1046 1046 HOH HOH . 
F 5 HOH A 47 1047 1047 HOH HOH . 
F 5 HOH A 48 1048 1048 HOH HOH . 
F 5 HOH A 49 1049 1049 HOH HOH . 
F 5 HOH A 50 1050 1050 HOH HOH . 
F 5 HOH A 51 1051 1051 HOH HOH . 
F 5 HOH A 52 1052 1052 HOH HOH . 
F 5 HOH A 53 1053 1053 HOH HOH . 
F 5 HOH A 54 1054 1054 HOH HOH . 
F 5 HOH A 55 1055 1055 HOH HOH . 
F 5 HOH A 56 1056 1056 HOH HOH . 
F 5 HOH A 57 1057 1057 HOH HOH . 
F 5 HOH A 58 1058 1058 HOH HOH . 
F 5 HOH A 59 1059 1059 HOH HOH . 
F 5 HOH A 60 1060 1060 HOH HOH . 
F 5 HOH A 61 1061 1061 HOH HOH . 
F 5 HOH A 62 1062 1062 HOH HOH . 
F 5 HOH A 63 1063 1063 HOH HOH . 
F 5 HOH A 64 1064 1064 HOH HOH . 
F 5 HOH A 65 1065 1065 HOH HOH . 
F 5 HOH A 66 1066 1066 HOH HOH . 
F 5 HOH A 67 1067 1067 HOH HOH . 
F 5 HOH A 68 1068 1068 HOH HOH . 
F 5 HOH A 69 1069 1069 HOH HOH . 
F 5 HOH A 70 1070 1070 HOH HOH . 
F 5 HOH A 71 1071 1071 HOH HOH . 
F 5 HOH A 72 1072 1072 HOH HOH . 
F 5 HOH A 73 1073 1073 HOH HOH . 
F 5 HOH A 74 1074 1074 HOH HOH . 
F 5 HOH A 75 1075 1075 HOH HOH . 
F 5 HOH A 76 1076 1076 HOH HOH . 
F 5 HOH A 77 1077 1077 HOH HOH . 
F 5 HOH A 78 1078 1078 HOH HOH . 
F 5 HOH A 79 1079 1079 HOH HOH . 
F 5 HOH A 80 1080 1080 HOH HOH . 
F 5 HOH A 81 1081 1081 HOH HOH . 
F 5 HOH A 82 1082 1082 HOH HOH . 
F 5 HOH A 83 1083 1083 HOH HOH . 
F 5 HOH A 84 1084 1084 HOH HOH . 
F 5 HOH A 85 1085 1085 HOH HOH . 
F 5 HOH A 86 1086 1086 HOH HOH . 
F 5 HOH A 87 1087 1087 HOH HOH . 
F 5 HOH A 88 1088 1088 HOH HOH . 
F 5 HOH A 89 1089 1089 HOH HOH . 
F 5 HOH A 90 1090 1090 HOH HOH . 
F 5 HOH A 91 1091 1091 HOH HOH . 
F 5 HOH A 92 1092 1092 HOH HOH . 
F 5 HOH A 93 1093 1093 HOH HOH . 
F 5 HOH A 94 1094 1094 HOH HOH . 
F 5 HOH A 95 1095 1095 HOH HOH . 
F 5 HOH A 96 1096 1096 HOH HOH . 
F 5 HOH A 97 1097 1097 HOH HOH . 
F 5 HOH A 98 1098 1098 HOH HOH . 
F 5 HOH A 99 1099 1099 HOH HOH . 
F 5 HOH A 100 1100 1100 HOH HOH . 
F 5 HOH A 101 1101 1101 HOH HOH . 
F 5 HOH A 102 1102 1102 HOH HOH . 
F 5 HOH A 103 1103 1103 HOH HOH . 
F 5 HOH A 104 1104 1104 HOH HOH . 
F 5 HOH A 105 1105 1105 HOH HOH . 
F 5 HOH A 106 1106 1106 HOH HOH . 
F 5 HOH A 107 1107 1107 HOH HOH . 
F 5 HOH A 108 1108 1108 HOH HOH . 
F 5 HOH A 109 1109 1109 HOH HOH . 
F 5 HOH A 110 1110 1110 HOH HOH . 
F 5 HOH A 111 1111 1111 HOH HOH . 
F 5 HOH A 112 1112 1112 HOH HOH . 
F 5 HOH A 113 1113 1113 HOH HOH . 
F 5 HOH A 114 1114 1114 HOH HOH . 
F 5 HOH A 115 1115 1115 HOH HOH . 
F 5 HOH A 116 1116 1116 HOH HOH . 
F 5 HOH A 117 1117 1117 HOH HOH . 
F 5 HOH A 118 1118 1118 HOH HOH . 
F 5 HOH A 119 1119 1119 HOH HOH . 
F 5 HOH A 120 1120 1120 HOH HOH . 
F 5 HOH A 121 1121 1121 HOH HOH . 
F 5 HOH A 122 1122 1122 HOH HOH . 
F 5 HOH A 123 1123 1123 HOH HOH . 
F 5 HOH A 124 1124 1124 HOH HOH . 
F 5 HOH A 125 1125 1125 HOH HOH . 
F 5 HOH A 126 1126 1126 HOH HOH . 
F 5 HOH A 127 1127 1127 HOH HOH . 
F 5 HOH A 128 1128 1128 HOH HOH . 
F 5 HOH A 129 1129 1129 HOH HOH . 
F 5 HOH A 130 1130 1130 HOH HOH . 
F 5 HOH A 131 1131 1131 HOH HOH . 
F 5 HOH A 132 1132 1132 HOH HOH . 
F 5 HOH A 133 1133 1133 HOH HOH . 
F 5 HOH A 134 1134 1134 HOH HOH . 
F 5 HOH A 135 1135 1135 HOH HOH . 
F 5 HOH A 136 1136 1136 HOH HOH . 
F 5 HOH A 137 1137 1137 HOH HOH . 
F 5 HOH A 138 1138 1138 HOH HOH . 
F 5 HOH A 139 1139 1139 HOH HOH . 
F 5 HOH A 140 1140 1140 HOH HOH . 
F 5 HOH A 141 1141 1141 HOH HOH . 
F 5 HOH A 142 1142 1142 HOH HOH . 
F 5 HOH A 143 1143 1143 HOH HOH . 
F 5 HOH A 144 1144 1144 HOH HOH . 
F 5 HOH A 145 1145 1145 HOH HOH . 
F 5 HOH A 146 1146 1146 HOH HOH . 
F 5 HOH A 147 1147 1147 HOH HOH . 
F 5 HOH A 148 1148 1148 HOH HOH . 
F 5 HOH A 149 1149 1149 HOH HOH . 
F 5 HOH A 150 1150 1150 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 4 -21.274 9.062 -4.045 1 42.87 ? C1 GOL 902 A 1 
HETATM 2 O O1 GOL . . . D 4 -22.623 9.573 -4.008 1 30.31 ? O1 GOL 902 A 1 
HETATM 3 C C2 GOL . . . D 4 -20.399 9.91 -3.085 1 46.42 ? C2 GOL 902 A 1 
HETATM 4 O O2 GOL . . . D 4 -19.217 10.342 -3.785 1 66.83 ? O2 GOL 902 A 1 
HETATM 5 C C3 GOL . . . D 4 -19.978 9.117 -1.821 1 45.07 ? C3 GOL 902 A 1 
HETATM 6 O O3 GOL . . . D 4 -20.855 9.437 -0.723 1 25.7 ? O3 GOL 902 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           307 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           6 
#