data_5I5A # _model_server_result.job_id PLxdK45JPW_z6U9cwDkf0w _model_server_result.datetime_utc '2024-10-18 08:37:56' _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 5i5a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":102}' # _entry.id 5I5A # _exptl.entry_id 5I5A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _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 101.61 _cell.angle_gamma 90 _cell.entry_id 5I5A _cell.length_a 65.849 _cell.length_b 17.656 _cell.length_c 49.469 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5I5A _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # 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 ? monomeric 1 author_defined_assembly 2 PISA tetrameric 4 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,H 1 1 B,G,I 2 1 A,C,D,E,F,H 3 1,2 B,G,I 3 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' 3_445 x-1/2,y-1/2,z 1 0 0 0 1 0 0 0 1 -32.9245 -8.828 0 4 'crystal symmetry operation' 4_545 -x+1/2,y-1/2,-z -1 0 0 0 1 0 0 0 -1 32.9245 -8.828 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D 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 3 A CYS 3 1_555 A SG CYS 35 A CYS 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf2 A SG CYS 12 A CYS 12 1_555 A SG CYS 28 A CYS 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf3 A SG CYS 17 A CYS 17 1_555 A SG CYS 32 A CYS 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? disulf ? disulf4 B SG DCY 3 B DCY 3 1_555 B SG DCY 35 B DCY 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? disulf ? disulf5 B SG DCY 12 B DCY 12 1_555 B SG DCY 28 B DCY 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf6 B SG DCY 17 B DCY 17 1_555 B SG DCY 32 B DCY 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? covale ? covale1 B C DAR 1 B DAR 1 1_555 B N DSN 2 B DSN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.316 ? covale ? covale2 B C DSN 2 B DSN 2 1_555 B N DCY 3 B DCY 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale3 B C DCY 3 B DCY 3 1_555 B N DIL 4 B DIL 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.243 ? covale ? covale4 B C DIL 4 B DIL 4 1_555 B N DAS 5 B DAS 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? covale ? covale5 B C DAS 5 B DAS 5 1_555 B N DTH 6 B DTH 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale6 B C DTH 6 B DTH 6 1_555 B N DIL 7 B DIL 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale7 B C DIL 7 B DIL 7 1_555 B N DPR 8 B DPR 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale8 B C DPR 8 B DPR 8 1_555 B N DLY 9 B DLY 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.314 ? covale ? covale9 B C DLY 9 B DLY 9 1_555 B N DSN 10 B DSN 10 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.329 ? covale ? covale10 B C DLY 9 B DLY 9 1_555 B N DSN 10 B DSN 10 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.33 ? covale ? covale11 B C DSN 10 B DSN 10 1_555 B N DAR 11 B DAR 11 1_555 ? A ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale12 B C DSN 10 B DSN 10 1_555 B N DAR 11 B DAR 11 1_555 ? B ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale13 B C DAR 11 B DAR 11 1_555 B N DCY 12 B DCY 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? covale ? covale14 B C DCY 12 B DCY 12 1_555 B N DTH 13 B DTH 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale15 B C DTH 13 B DTH 13 1_555 B N DAL 14 B DAL 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale16 B C DAL 14 B DAL 14 1_555 B N DPN 15 B DPN 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale17 B C DPN 15 B DPN 15 1_555 B N DGN 16 B DGN 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale18 B C DGN 16 B DGN 16 1_555 B N DCY 17 B DCY 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale19 B C DCY 17 B DCY 17 1_555 B N DLY 18 B DLY 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale20 B C DLY 18 B DLY 18 1_555 B N DHI 19 B DHI 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale21 B C DHI 19 B DHI 19 1_555 B N DSN 20 B DSN 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale22 B C DSN 20 B DSN 20 1_555 B N MED 21 B MED 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale23 B C MED 21 B MED 21 1_555 B N DLY 22 B DLY 22 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? covale ? covale24 B C DLY 22 B DLY 22 1_555 B N DTY 23 B DTY 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale25 B C DTY 23 B DTY 23 1_555 B N DAR 24 B DAR 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale26 B C DAR 24 B DAR 24 1_555 B N DLE 25 B DLE 25 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale27 B C DLE 25 B DLE 25 1_555 B N DSN 26 B DSN 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale28 B C DSN 26 B DSN 26 1_555 B N DPN 27 B DPN 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale29 B C DPN 27 B DPN 27 1_555 B N DCY 28 B DCY 28 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale30 B C DCY 28 B DCY 28 1_555 B N DAR 29 B DAR 29 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale31 B C DAR 29 B DAR 29 1_555 B N DLY 30 B DLY 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale32 B C DLY 30 B DLY 30 1_555 B N DTH 31 B DTH 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale33 B C DTH 31 B DTH 31 1_555 B N DCY 32 B DCY 32 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale34 B C DCY 32 B DCY 32 1_555 B N GLY 33 B GLY 33 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale35 B C GLY 33 B GLY 33 1_555 B N DTH 34 B DTH 34 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.34 ? covale ? covale36 B C DTH 34 B DTH 34 1_555 B N DCY 35 B DCY 35 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? metalc ? metalc1 A O ASP 5 A ASP 5 1_555 E NA NA . A NA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.632 ? metalc ? metalc2 E NA NA . A NA 103 1_555 H O HOH . A HOH 214 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.47 ? metalc ? metalc3 E NA NA . A NA 103 1_555 H O HOH . A HOH 214 1_555 ? ? ? ? B ? ? ? ? ? ? ? 3.091 ? # _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 359 n n C1 C2 GOL sing 360 n n C1 H11 GOL sing 361 n n C1 H12 GOL sing 362 n n O1 HO1 GOL sing 363 n n C2 O2 GOL sing 364 n n C2 C3 GOL sing 365 n n C2 H2 GOL sing 366 n n O2 HO2 GOL sing 367 n n C3 O3 GOL sing 368 n n C3 H31 GOL sing 369 n n C3 H32 GOL sing 370 n n O3 HO3 GOL sing 371 n n # _atom_sites.entry_id 5I5A _atom_sites.fract_transf_matrix[1][1] 0.015186 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003121 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.056638 _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] 0.020637 _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 3 GOL A 1 101 1 GOL GOL . D 3 GOL A 1 102 2 GOL GOL . E 4 NA A 1 103 1 NA NA . F 5 LI A 1 104 1 LI LI . G 6 MLT B 1 101 1 MLT MLT . H 7 HOH A 1 201 55 HOH HOH . H 7 HOH A 2 202 9 HOH HOH . H 7 HOH A 3 203 12 HOH HOH . H 7 HOH A 4 204 63 HOH HOH . H 7 HOH A 5 205 25 HOH HOH . H 7 HOH A 6 206 16 HOH HOH . H 7 HOH A 7 207 68 HOH HOH . H 7 HOH A 8 208 29 HOH HOH . H 7 HOH A 9 209 20 HOH HOH . H 7 HOH A 10 210 36 HOH HOH . H 7 HOH A 11 211 62 HOH HOH . H 7 HOH A 12 212 14 HOH HOH . H 7 HOH A 13 213 60 HOH HOH . H 7 HOH A 14 214 11 HOH HOH . H 7 HOH A 15 215 18 HOH HOH . H 7 HOH A 16 216 71 HOH HOH . H 7 HOH A 17 217 37 HOH HOH . H 7 HOH A 18 218 6 HOH HOH . H 7 HOH A 19 219 1 HOH HOH . H 7 HOH A 20 220 34 HOH HOH . H 7 HOH A 21 221 50 HOH HOH . H 7 HOH A 22 222 21 HOH HOH . H 7 HOH A 23 223 64 HOH HOH . H 7 HOH A 24 224 30 HOH HOH . H 7 HOH A 25 225 45 HOH HOH . H 7 HOH A 26 226 4 HOH HOH . H 7 HOH A 27 227 57 HOH HOH . H 7 HOH A 28 228 28 HOH HOH . H 7 HOH A 29 229 33 HOH HOH . H 7 HOH A 30 230 54 HOH HOH . H 7 HOH A 31 231 15 HOH HOH . H 7 HOH A 32 232 67 HOH HOH . H 7 HOH A 33 233 65 HOH HOH . H 7 HOH A 34 234 77 HOH HOH . H 7 HOH A 35 235 19 HOH HOH . H 7 HOH A 36 236 53 HOH HOH . H 7 HOH A 37 237 43 HOH HOH . H 7 HOH A 38 238 40 HOH HOH . H 7 HOH A 39 239 47 HOH HOH . H 7 HOH A 40 240 76 HOH HOH . H 7 HOH A 41 241 79 HOH HOH . H 7 HOH A 42 242 69 HOH HOH . H 7 HOH A 43 243 80 HOH HOH . H 7 HOH A 44 244 78 HOH HOH . H 7 HOH A 45 245 49 HOH HOH . H 7 HOH A 46 246 48 HOH HOH . I 7 HOH B 1 201 17 HOH HOH . I 7 HOH B 2 202 41 HOH HOH . I 7 HOH B 3 203 61 HOH HOH . I 7 HOH B 4 204 51 HOH HOH . I 7 HOH B 5 205 42 HOH HOH . I 7 HOH B 6 206 59 HOH HOH . I 7 HOH B 7 207 26 HOH HOH . I 7 HOH B 8 208 13 HOH HOH . I 7 HOH B 9 209 75 HOH HOH . I 7 HOH B 10 210 35 HOH HOH . I 7 HOH B 11 211 58 HOH HOH . I 7 HOH B 12 212 2 HOH HOH . I 7 HOH B 13 213 38 HOH HOH . I 7 HOH B 14 214 5 HOH HOH . I 7 HOH B 15 215 24 HOH HOH . I 7 HOH B 16 216 52 HOH HOH . I 7 HOH B 17 217 74 HOH HOH . I 7 HOH B 18 218 22 HOH HOH . I 7 HOH B 19 219 32 HOH HOH . I 7 HOH B 20 220 82 HOH HOH . I 7 HOH B 21 221 7 HOH HOH . I 7 HOH B 22 222 3 HOH HOH . I 7 HOH B 23 223 72 HOH HOH . I 7 HOH B 24 224 10 HOH HOH . I 7 HOH B 25 225 56 HOH HOH . I 7 HOH B 26 226 27 HOH HOH . I 7 HOH B 27 227 70 HOH HOH . I 7 HOH B 28 228 44 HOH HOH . I 7 HOH B 29 229 8 HOH HOH . I 7 HOH B 30 230 23 HOH HOH . I 7 HOH B 31 231 31 HOH HOH . I 7 HOH B 32 232 39 HOH HOH . I 7 HOH B 33 233 46 HOH HOH . I 7 HOH B 34 234 66 HOH HOH . I 7 HOH B 35 235 73 HOH HOH . I 7 HOH B 36 236 81 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 . D 3 14.438 3.492 -6.826 0.5 25.38 ? C1 GOL 102 A 1 HETATM 2 C C1 GOL . B . D 3 14.33 3.453 -6.631 0.5 28.51 ? C1 GOL 102 A 1 HETATM 3 O O1 GOL . A . D 3 13.915 3.428 -8.153 0.5 28.47 ? O1 GOL 102 A 1 HETATM 4 O O1 GOL . B . D 3 14.303 4.528 -7.579 0.5 30.23 ? O1 GOL 102 A 1 HETATM 5 C C2 GOL . A . D 3 15.868 2.97 -6.858 0.5 20.35 ? C2 GOL 102 A 1 HETATM 6 C C2 GOL . B . D 3 15.728 2.85 -6.602 0.5 24.12 ? C2 GOL 102 A 1 HETATM 7 O O2 GOL . A . D 3 16.62 3.41 -5.712 0.5 23.07 ? O2 GOL 102 A 1 HETATM 8 O O2 GOL . B . D 3 16.258 2.861 -5.268 0.5 28.23 ? O2 GOL 102 A 1 HETATM 9 C C3 GOL . A . D 3 15.792 1.45 -6.967 0.5 16.73 ? C3 GOL 102 A 1 HETATM 10 C C3 GOL . B . D 3 15.637 1.431 -7.156 0.5 18.39 ? C3 GOL 102 A 1 HETATM 11 O O3 GOL . A . D 3 14.742 1.09 -7.877 0.5 12.12 ? O3 GOL 102 A 1 HETATM 12 O O3 GOL . B . D 3 16.516 0.554 -6.438 0.5 13.25 ? O3 GOL 102 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 23 _model_server_stats.element_count 12 #