data_5D8V
#
_model_server_result.job_id            qgKqJkabyegefEmrnfRRXw 
_model_server_result.datetime_utc      '2024-12-26 10:18:32' 
_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          5d8v 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":92}' 
#
_entry.id    5D8V 
#
_exptl.entry_id    5D8V 
_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    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            5D8V 
_cell.length_a            46.478 
_cell.length_b            58.905 
_cell.length_c            23.436 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5D8V 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_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,G,H,I,J,K 
_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 H N N 
? 4 I N N 
? 4 J 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
metalc ? metalc1 A SG CYS 43 A CYS 43 1_555 B FE1 SF4 . A SF4 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? 
metalc ? metalc2 A SG CYS 46 A CYS 46 1_555 B FE2 SF4 . A SF4 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? 
metalc ? metalc3 A SG CYS 61 A CYS 61 1_555 B FE3 SF4 . A SF4 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
metalc ? metalc4 A SG CYS 75 A CYS 75 1_555 B FE4 SF4 . A SF4 84 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? 
#
_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 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     5D8V 
_atom_sites.fract_transf_matrix[1][1]    0.021516 
_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]    0.016976 
_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]    0.042669 
_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 SF4 A 1 84 84 SF4 SF4 . 
C 3 SO4 A 1 85 85 SO4 SO4 . 
D 3 SO4 A 1 86 86 SO4 SO4 . 
E 3 SO4 A 1 87 87 SO4 SO4 . 
F 3 SO4 A 1 88 88 SO4 SO4 . 
G 3 SO4 A 1 89 89 SO4 SO4 . 
H 4 GOL A 1 90 90 GOL GOL . 
I 4 GOL A 1 91 91 GOL GOL . 
J 4 GOL A 1 92 92 GOL GOL . 
K 5 HOH A 1 93 93 HOH HOH . 
K 5 HOH A 2 94 94 HOH HOH . 
K 5 HOH A 3 95 95 HOH HOH . 
K 5 HOH A 4 96 96 HOH HOH . 
K 5 HOH A 5 97 97 HOH HOH . 
K 5 HOH A 6 98 98 HOH HOH . 
K 5 HOH A 7 99 99 HOH HOH . 
K 5 HOH A 8 100 100 HOH HOH . 
K 5 HOH A 9 101 101 HOH HOH . 
K 5 HOH A 10 102 102 HOH HOH . 
K 5 HOH A 11 103 103 HOH HOH . 
K 5 HOH A 12 104 104 HOH HOH . 
K 5 HOH A 13 105 105 HOH HOH . 
K 5 HOH A 14 106 106 HOH HOH . 
K 5 HOH A 15 107 107 HOH HOH . 
K 5 HOH A 16 108 108 HOH HOH . 
K 5 HOH A 17 109 109 HOH HOH . 
K 5 HOH A 18 110 110 HOH HOH . 
K 5 HOH A 19 111 111 HOH HOH . 
K 5 HOH A 20 112 112 HOH HOH . 
K 5 HOH A 21 113 113 HOH HOH . 
K 5 HOH A 22 114 114 HOH HOH . 
K 5 HOH A 23 115 115 HOH HOH . 
K 5 HOH A 24 116 116 HOH HOH . 
K 5 HOH A 25 117 117 HOH HOH . 
K 5 HOH A 26 118 118 HOH HOH . 
K 5 HOH A 27 119 119 HOH HOH . 
K 5 HOH A 28 120 120 HOH HOH . 
K 5 HOH A 29 121 121 HOH HOH . 
K 5 HOH A 30 122 122 HOH HOH . 
K 5 HOH A 31 123 123 HOH HOH . 
K 5 HOH A 32 124 124 HOH HOH . 
K 5 HOH A 33 125 125 HOH HOH . 
K 5 HOH A 34 126 126 HOH HOH . 
K 5 HOH A 35 127 127 HOH HOH . 
K 5 HOH A 36 128 128 HOH HOH . 
K 5 HOH A 37 129 129 HOH HOH . 
K 5 HOH A 38 130 130 HOH HOH . 
K 5 HOH A 39 131 131 HOH HOH . 
K 5 HOH A 40 132 132 HOH HOH . 
K 5 HOH A 41 133 133 HOH HOH . 
K 5 HOH A 42 134 134 HOH HOH . 
K 5 HOH A 43 135 135 HOH HOH . 
K 5 HOH A 44 136 136 HOH HOH . 
K 5 HOH A 45 137 137 HOH HOH . 
K 5 HOH A 46 138 138 HOH HOH . 
K 5 HOH A 47 139 139 HOH HOH . 
K 5 HOH A 48 140 140 HOH HOH . 
K 5 HOH A 49 141 141 HOH HOH . 
K 5 HOH A 50 142 142 HOH HOH . 
K 5 HOH A 51 143 143 HOH HOH . 
K 5 HOH A 52 144 144 HOH HOH . 
K 5 HOH A 53 145 145 HOH HOH . 
K 5 HOH A 54 146 146 HOH HOH . 
K 5 HOH A 55 147 147 HOH HOH . 
K 5 HOH A 56 148 148 HOH HOH . 
K 5 HOH A 57 149 149 HOH HOH . 
K 5 HOH A 58 150 150 HOH HOH . 
K 5 HOH A 59 151 151 HOH HOH . 
K 5 HOH A 60 152 152 HOH HOH . 
K 5 HOH A 61 153 153 HOH HOH . 
K 5 HOH A 62 154 154 HOH HOH . 
K 5 HOH A 63 155 155 HOH HOH . 
K 5 HOH A 64 156 156 HOH HOH . 
K 5 HOH A 65 157 157 HOH HOH . 
K 5 HOH A 66 158 158 HOH HOH . 
K 5 HOH A 67 159 159 HOH HOH . 
K 5 HOH A 68 160 160 HOH HOH . 
K 5 HOH A 69 161 161 HOH HOH . 
K 5 HOH A 70 162 162 HOH HOH . 
K 5 HOH A 71 163 163 HOH HOH . 
K 5 HOH A 72 164 164 HOH HOH . 
K 5 HOH A 73 165 165 HOH HOH . 
K 5 HOH A 74 166 166 HOH HOH . 
K 5 HOH A 75 167 167 HOH HOH . 
K 5 HOH A 76 168 168 HOH HOH . 
K 5 HOH A 77 169 169 HOH HOH . 
K 5 HOH A 78 170 170 HOH HOH . 
K 5 HOH A 79 171 171 HOH HOH . 
K 5 HOH A 80 172 172 HOH HOH . 
K 5 HOH A 81 173 173 HOH HOH . 
K 5 HOH A 82 174 174 HOH HOH . 
K 5 HOH A 83 175 175 HOH HOH . 
K 5 HOH A 84 176 176 HOH HOH . 
K 5 HOH A 85 177 177 HOH HOH . 
K 5 HOH A 86 178 178 HOH HOH . 
K 5 HOH A 87 179 179 HOH HOH . 
K 5 HOH A 88 180 180 HOH HOH . 
K 5 HOH A 89 181 181 HOH HOH . 
K 5 HOH A 90 182 182 HOH HOH . 
K 5 HOH A 91 183 183 HOH HOH . 
K 5 HOH A 92 184 184 HOH HOH . 
K 5 HOH A 93 185 185 HOH HOH . 
K 5 HOH A 94 186 186 HOH HOH . 
K 5 HOH A 95 187 187 HOH HOH . 
K 5 HOH A 96 188 188 HOH HOH . 
K 5 HOH A 97 189 189 HOH HOH . 
K 5 HOH A 98 190 190 HOH HOH . 
K 5 HOH A 99 191 191 HOH HOH . 
K 5 HOH A 100 192 192 HOH HOH . 
K 5 HOH A 101 193 193 HOH HOH . 
K 5 HOH A 102 194 194 HOH HOH . 
K 5 HOH A 103 195 195 HOH HOH . 
K 5 HOH A 104 196 196 HOH HOH . 
K 5 HOH A 105 197 197 HOH HOH . 
K 5 HOH A 106 198 198 HOH HOH . 
K 5 HOH A 107 199 199 HOH HOH . 
K 5 HOH A 108 200 200 HOH HOH . 
K 5 HOH A 109 201 201 HOH HOH . 
K 5 HOH A 110 202 202 HOH HOH . 
K 5 HOH A 111 203 203 HOH HOH . 
K 5 HOH A 112 204 204 HOH HOH . 
K 5 HOH A 113 205 205 HOH HOH . 
K 5 HOH A 114 206 206 HOH HOH . 
K 5 HOH A 115 207 207 HOH HOH . 
K 5 HOH A 116 208 208 HOH HOH . 
K 5 HOH A 117 209 209 HOH HOH . 
K 5 HOH A 118 210 210 HOH HOH . 
K 5 HOH A 119 211 211 HOH HOH . 
K 5 HOH A 120 212 212 HOH HOH . 
K 5 HOH A 121 213 213 HOH HOH . 
K 5 HOH A 122 214 214 HOH HOH . 
K 5 HOH A 123 215 215 HOH HOH . 
K 5 HOH A 124 216 216 HOH HOH . 
K 5 HOH A 125 217 217 HOH HOH . 
K 5 HOH A 126 218 218 HOH HOH . 
K 5 HOH A 127 219 219 HOH HOH . 
K 5 HOH A 128 220 220 HOH HOH . 
K 5 HOH A 129 221 221 HOH HOH . 
K 5 HOH A 130 222 222 HOH HOH . 
K 5 HOH A 131 223 223 HOH HOH . 
K 5 HOH A 132 224 224 HOH HOH . 
K 5 HOH A 133 225 225 HOH HOH . 
K 5 HOH A 134 226 226 HOH HOH . 
K 5 HOH A 135 227 227 HOH HOH . 
K 5 HOH A 136 228 228 HOH HOH . 
K 5 HOH A 137 229 229 HOH HOH . 
K 5 HOH A 138 230 230 HOH HOH . 
K 5 HOH A 139 231 231 HOH HOH . 
K 5 HOH A 140 232 232 HOH HOH . 
K 5 HOH A 141 233 233 HOH HOH . 
K 5 HOH A 142 234 234 HOH HOH . 
K 5 HOH A 143 235 235 HOH HOH . 
K 5 HOH A 144 236 236 HOH HOH . 
K 5 HOH A 145 237 237 HOH HOH . 
K 5 HOH A 146 238 238 HOH HOH . 
K 5 HOH A 147 239 239 HOH HOH . 
K 5 HOH A 148 240 240 HOH HOH . 
K 5 HOH A 149 241 241 HOH HOH . 
K 5 HOH A 150 242 242 HOH HOH . 
K 5 HOH A 151 243 243 HOH HOH . 
K 5 HOH A 152 244 244 HOH HOH . 
K 5 HOH A 153 245 245 HOH HOH . 
K 5 HOH A 154 246 246 HOH HOH . 
K 5 HOH A 155 247 247 HOH HOH . 
K 5 HOH A 156 248 248 HOH HOH . 
K 5 HOH A 157 249 249 HOH HOH . 
K 5 HOH A 158 250 250 HOH HOH . 
K 5 HOH A 159 251 251 HOH HOH . 
K 5 HOH A 160 252 252 HOH HOH . 
K 5 HOH A 161 253 253 HOH HOH . 
K 5 HOH A 162 254 254 HOH HOH . 
K 5 HOH A 163 255 255 HOH HOH . 
K 5 HOH A 164 256 256 HOH HOH . 
K 5 HOH A 165 257 257 HOH HOH . 
K 5 HOH A 166 258 258 HOH HOH . 
K 5 HOH A 167 259 259 HOH HOH . 
K 5 HOH A 168 260 260 HOH HOH . 
K 5 HOH A 169 261 261 HOH HOH . 
K 5 HOH A 170 262 262 HOH HOH . 
K 5 HOH A 171 263 263 HOH HOH . 
K 5 HOH A 172 264 264 HOH HOH . 
K 5 HOH A 173 265 265 HOH HOH . 
K 5 HOH A 174 266 266 HOH HOH . 
K 5 HOH A 175 267 267 HOH HOH . 
K 5 HOH A 176 268 268 HOH HOH . 
K 5 HOH A 177 269 269 HOH HOH . 
K 5 HOH A 178 270 270 HOH HOH . 
K 5 HOH A 179 271 271 HOH HOH . 
K 5 HOH A 180 272 272 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 . A . J 4 13.142 27.81 15.012 0.28 4.5 ? C1 GOL 92 A 1 
HETATM 2 O O1 GOL . A . J 4 12.283 28.642 14.287 0.28 4.81 ? O1 GOL 92 A 1 
HETATM 3 C C2 GOL . A . J 4 12.46 26.664 15.683 0.28 4.28 ? C2 GOL 92 A 1 
HETATM 4 O O2 GOL . A . J 4 11.962 25.681 14.745 0.28 4.67 ? O2 GOL 92 A 1 
HETATM 5 C C3 GOL . A . J 4 11.337 27.107 16.59 0.28 5.21 ? C3 GOL 92 A 1 
HETATM 6 O O3 GOL . A . J 4 10.854 26.031 17.386 0.28 6.05 ? O3 GOL 92 A 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           20 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           362 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#