data_3RDU
#
_model_server_result.job_id            DFS7zNRftBG1VAVx4YpMKA 
_model_server_result.datetime_utc      '2024-11-18 08:38:10' 
_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          3rdu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":501}' 
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_entry.id    3RDU 
#
_exptl.entry_id    3RDU 
_exptl.method      'X-RAY DIFFRACTION' 
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_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    3 
_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            3RDU 
_cell.length_a            57.354 
_cell.length_b            57.354 
_cell.length_c            76.839 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3RDU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        94 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 42 21 2' 
#
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 tetrameric 4 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 1 1 
A,B,C,D,E,F 2 1,2,3,4 
#
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' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 
3 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
4 'crystal symmetry operation' 8_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 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 
? 2 D 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 153 n n 
C1 C2 GOL sing 154 n n 
C1 H11 GOL sing 155 n n 
C1 H12 GOL sing 156 n n 
O1 HO1 GOL sing 157 n n 
C2 O2 GOL sing 158 n n 
C2 C3 GOL sing 159 n n 
C2 H2 GOL sing 160 n n 
O2 HO2 GOL sing 161 n n 
C3 O3 GOL sing 162 n n 
C3 H31 GOL sing 163 n n 
C3 H32 GOL sing 164 n n 
O3 HO3 GOL sing 165 n n 
#
_atom_sites.entry_id                     3RDU 
_atom_sites.fract_transf_matrix[1][1]    0.017436 
_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]    0.017436 
_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]    0.013014 
_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 GOL A 1 500 500 GOL GOL . 
C 2 GOL A 1 501 501 GOL GOL . 
D 2 GOL A 1 503 503 GOL GOL . 
E 3 1PE A 1 700 700 1PE P2K . 
F 4 HOH A 1 141 1 HOH HOH . 
F 4 HOH A 2 142 142 HOH HOH . 
F 4 HOH A 3 143 2 HOH HOH . 
F 4 HOH A 4 144 144 HOH HOH . 
F 4 HOH A 5 145 145 HOH HOH . 
F 4 HOH A 6 146 146 HOH HOH . 
F 4 HOH A 7 147 147 HOH HOH . 
F 4 HOH A 8 148 148 HOH HOH . 
F 4 HOH A 9 149 149 HOH HOH . 
F 4 HOH A 10 150 150 HOH HOH . 
F 4 HOH A 11 151 151 HOH HOH . 
F 4 HOH A 12 152 152 HOH HOH . 
F 4 HOH A 13 153 153 HOH HOH . 
F 4 HOH A 14 154 154 HOH HOH . 
F 4 HOH A 15 155 155 HOH HOH . 
F 4 HOH A 16 156 156 HOH HOH . 
F 4 HOH A 17 157 157 HOH HOH . 
F 4 HOH A 18 158 158 HOH HOH . 
F 4 HOH A 19 159 159 HOH HOH . 
F 4 HOH A 20 160 160 HOH HOH . 
F 4 HOH A 21 161 161 HOH HOH . 
F 4 HOH A 22 162 162 HOH HOH . 
F 4 HOH A 23 163 163 HOH HOH . 
F 4 HOH A 24 164 164 HOH HOH . 
F 4 HOH A 25 165 165 HOH HOH . 
F 4 HOH A 26 166 166 HOH HOH . 
F 4 HOH A 27 167 167 HOH HOH . 
F 4 HOH A 28 168 3 HOH HOH . 
F 4 HOH A 29 169 4 HOH HOH . 
F 4 HOH A 30 170 5 HOH HOH . 
F 4 HOH A 31 171 6 HOH HOH . 
F 4 HOH A 32 172 7 HOH HOH . 
F 4 HOH A 33 173 8 HOH HOH . 
F 4 HOH A 34 174 9 HOH HOH . 
F 4 HOH A 35 175 10 HOH HOH . 
F 4 HOH A 36 176 11 HOH HOH . 
F 4 HOH A 37 177 12 HOH HOH . 
F 4 HOH A 38 178 13 HOH HOH . 
F 4 HOH A 39 179 14 HOH HOH . 
F 4 HOH A 40 180 15 HOH HOH . 
F 4 HOH A 41 181 16 HOH HOH . 
F 4 HOH A 42 182 17 HOH HOH . 
F 4 HOH A 43 183 18 HOH HOH . 
F 4 HOH A 44 184 19 HOH HOH . 
F 4 HOH A 45 185 20 HOH HOH . 
F 4 HOH A 46 186 21 HOH HOH . 
F 4 HOH A 47 187 22 HOH HOH . 
F 4 HOH A 48 188 23 HOH HOH . 
F 4 HOH A 49 189 24 HOH HOH . 
F 4 HOH A 50 190 25 HOH HOH . 
F 4 HOH A 51 191 26 HOH HOH . 
F 4 HOH A 52 192 27 HOH HOH . 
F 4 HOH A 53 193 28 HOH HOH . 
F 4 HOH A 54 194 30 HOH HOH . 
F 4 HOH A 55 195 32 HOH HOH . 
F 4 HOH A 56 196 33 HOH HOH . 
F 4 HOH A 57 197 34 HOH HOH . 
F 4 HOH A 58 198 35 HOH HOH . 
F 4 HOH A 59 199 36 HOH HOH . 
F 4 HOH A 60 200 37 HOH HOH . 
F 4 HOH A 61 201 38 HOH HOH . 
F 4 HOH A 62 202 39 HOH HOH . 
F 4 HOH A 63 203 40 HOH HOH . 
F 4 HOH A 64 204 42 HOH HOH . 
F 4 HOH A 65 205 43 HOH HOH . 
F 4 HOH A 66 206 46 HOH HOH . 
F 4 HOH A 67 207 47 HOH HOH . 
F 4 HOH A 68 208 48 HOH HOH . 
F 4 HOH A 69 209 50 HOH HOH . 
F 4 HOH A 70 210 51 HOH HOH . 
F 4 HOH A 71 211 52 HOH HOH . 
F 4 HOH A 72 212 53 HOH HOH . 
F 4 HOH A 73 213 54 HOH HOH . 
F 4 HOH A 74 214 56 HOH HOH . 
F 4 HOH A 75 215 57 HOH HOH . 
F 4 HOH A 76 216 58 HOH HOH . 
F 4 HOH A 77 217 59 HOH HOH . 
F 4 HOH A 78 218 61 HOH HOH . 
F 4 HOH A 79 219 62 HOH HOH . 
F 4 HOH A 80 220 63 HOH HOH . 
F 4 HOH A 81 221 64 HOH HOH . 
F 4 HOH A 82 222 66 HOH HOH . 
F 4 HOH A 83 223 67 HOH HOH . 
F 4 HOH A 84 224 70 HOH HOH . 
F 4 HOH A 85 225 71 HOH HOH . 
F 4 HOH A 86 226 72 HOH HOH . 
F 4 HOH A 87 227 73 HOH HOH . 
F 4 HOH A 88 228 74 HOH HOH . 
F 4 HOH A 89 229 75 HOH HOH . 
F 4 HOH A 90 230 76 HOH HOH . 
F 4 HOH A 91 231 77 HOH HOH . 
F 4 HOH A 92 232 78 HOH HOH . 
F 4 HOH A 93 233 79 HOH HOH . 
F 4 HOH A 94 234 85 HOH HOH . 
F 4 HOH A 95 235 86 HOH HOH . 
F 4 HOH A 96 236 87 HOH HOH . 
F 4 HOH A 97 237 88 HOH HOH . 
F 4 HOH A 98 238 89 HOH HOH . 
F 4 HOH A 99 239 90 HOH HOH . 
F 4 HOH A 100 240 92 HOH HOH . 
F 4 HOH A 101 241 95 HOH HOH . 
F 4 HOH A 102 242 96 HOH HOH . 
F 4 HOH A 103 243 101 HOH HOH . 
F 4 HOH A 104 244 104 HOH HOH . 
F 4 HOH A 105 245 105 HOH HOH . 
F 4 HOH A 106 246 106 HOH HOH . 
F 4 HOH A 107 247 107 HOH HOH . 
F 4 HOH A 108 248 110 HOH HOH . 
F 4 HOH A 109 249 112 HOH HOH . 
F 4 HOH A 110 250 117 HOH HOH . 
F 4 HOH A 111 251 118 HOH HOH . 
F 4 HOH A 112 252 125 HOH HOH . 
F 4 HOH A 113 253 128 HOH HOH . 
F 4 HOH A 114 254 137 HOH HOH . 
F 4 HOH A 115 255 138 HOH HOH . 
F 4 HOH A 116 256 139 HOH HOH . 
F 4 HOH A 117 257 140 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 . . . C 2 8.836 -0.701 5.795 1 30.52 ? C1 GOL 501 A 1 
HETATM 2 O O1 GOL . . . C 2 7.945 -0.577 4.711 1 25.5 ? O1 GOL 501 A 1 
HETATM 3 C C2 GOL . . . C 2 9.166 -2.157 6.029 1 28.78 ? C2 GOL 501 A 1 
HETATM 4 O O2 GOL . . . C 2 9.772 -2.63 4.869 1 30.76 ? O2 GOL 501 A 1 
HETATM 5 C C3 GOL . . . C 2 10.1 -2.285 7.217 1 30.26 ? C3 GOL 501 A 1 
HETATM 6 O O3 GOL . . . C 2 9.791 -3.461 7.94 1 29.35 ? O3 GOL 501 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           6 
#