data_5YS8 # _model_server_result.job_id kLWoSgCaeOY44ELE6BXsqA _model_server_result.datetime_utc '2024-12-26 21:10:53' _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 5ys8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":203}' # _entry.id 5YS8 # _exptl.entry_id 5YS8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 314.46 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE _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 5YS8 _cell.length_a 79.874 _cell.length_b 79.874 _cell.length_c 88.501 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5YS8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 77 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 42' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,L,M _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 79.874 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 H N N ? 3 J N N # _chem_comp.formula 'C18 H34 O4' _chem_comp.formula_weight 314.46 _chem_comp.id 78M _chem_comp.mon_nstd_flag . _chem_comp.name (2S)-2,3-DIHYDROXYPROPYL(7Z)-PENTADEC-7-ENOATE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '7.8 MONOACYLGLYCEROL' # 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 O21 C20 78M sing 1 n n C20 C18 78M sing 2 n n C18 O19 78M sing 3 n n C18 C17 78M sing 4 n n C17 O2 78M sing 5 n n O2 C1 78M sing 6 n n C1 O1 78M doub 7 n n C1 C2 78M sing 8 n n C2 C3 78M sing 9 n n C3 C4 78M sing 10 n n C4 C5 78M sing 11 n n C5 C6 78M sing 12 n n C6 C7 78M sing 13 n n C7 C8 78M doub 14 z n C8 C9 78M sing 15 n n C9 C10 78M sing 16 n n C10 C11 78M sing 17 n n C11 C12 78M sing 18 n n C12 C13 78M sing 19 n n C15 C14 78M sing 20 n n C13 C14 78M sing 21 n n O21 H21 78M sing 22 n n C20 H201 78M sing 23 n n C20 H202 78M sing 24 n n C18 H18 78M sing 25 n n O19 H19 78M sing 26 n n C17 H171 78M sing 27 n n C17 H172 78M sing 28 n n C2 H21C 78M sing 29 n n C2 H22C 78M sing 30 n n C3 H31C 78M sing 31 n n C3 H32C 78M sing 32 n n C4 H41C 78M sing 33 n n C4 H42C 78M sing 34 n n C5 H51C 78M sing 35 n n C5 H52C 78M sing 36 n n C6 H61C 78M sing 37 n n C6 H62C 78M sing 38 n n C7 H7 78M sing 39 n n C8 H8 78M sing 40 n n C9 H91C 78M sing 41 n n C9 H92C 78M sing 42 n n C10 H101 78M sing 43 n n C10 H102 78M sing 44 n n C11 H111 78M sing 45 n n C11 H112 78M sing 46 n n C12 H121 78M sing 47 n n C12 H122 78M sing 48 n n C13 H131 78M sing 49 n n C13 H132 78M sing 50 n n C15 H151 78M sing 51 n n C15 H152 78M sing 52 n n C15 H153 78M sing 53 n n C14 H141 78M sing 54 n n C14 H142 78M sing 55 n n # _atom_sites.entry_id 5YS8 _atom_sites.fract_transf_matrix[1][1] 0.01252 _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] 0.01252 _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] 0.011299 _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 D 2 ACT A 1 201 201 ACT ACT . E 2 ACT A 1 202 202 ACT ACT . F 2 ACT B 1 201 201 ACT ACT . G 3 78M B 1 202 1 78M 78M . H 3 78M B 1 203 2 78M 78M . I 2 ACT C 1 201 201 ACT ACT . J 3 78M C 1 202 3 78M 78M . K 4 HOH A 1 301 301 HOH HOH . K 4 HOH A 2 302 302 HOH HOH . L 4 HOH B 1 301 301 HOH HOH . L 4 HOH B 2 302 302 HOH HOH . M 4 HOH C 1 301 302 HOH HOH . M 4 HOH C 2 302 301 HOH HOH . M 4 HOH C 3 303 303 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 O O21 78M . . . H 3 -6.483 44.185 -3.667 1 48.42 ? O21 78M 203 B 1 HETATM 2 C C20 78M . . . H 3 -5.473 45.189 -3.572 1 49.92 ? C20 78M 203 B 1 HETATM 3 C C18 78M . . . H 3 -4.375 44.683 -2.667 1 55.27 ? C18 78M 203 B 1 HETATM 4 O O19 78M . . . H 3 -4.475 45.307 -1.437 1 44.09 ? O19 78M 203 B 1 HETATM 5 C C17 78M . . . H 3 -3.006 44.994 -3.297 1 59.4 ? C17 78M 203 B 1 HETATM 6 O O2 78M . . . H 3 -2.23 45.756 -2.35 1 57.12 ? O2 78M 203 B 1 HETATM 7 C C1 78M . . . H 3 -1.408 44.957 -1.48 1 56.98 ? C1 78M 203 B 1 HETATM 8 O O1 78M . . . H 3 -0.975 43.895 -1.864 1 57.96 ? O1 78M 203 B 1 HETATM 9 C C2 78M . . . H 3 -1.089 45.451 -0.063 1 52.05 ? C2 78M 203 B 1 HETATM 10 C C3 78M . . . H 3 0.222 46.22 0.031 1 40.44 ? C3 78M 203 B 1 HETATM 11 C C4 78M . . . H 3 0.756 46.669 -1.338 1 42.21 ? C4 78M 203 B 1 HETATM 12 C C5 78M . . . H 3 2.072 45.985 -1.686 1 42.43 ? C5 78M 203 B 1 HETATM 13 C C6 78M . . . H 3 2.197 45.689 -3.182 1 40.33 ? C6 78M 203 B 1 HETATM 14 C C7 78M . . . H 3 3.51 44.979 -3.525 1 57.86 ? C7 78M 203 B 1 HETATM 15 C C8 78M . . . H 3 3.385 43.44 -3.464 1 57.36 ? C8 78M 203 B 1 HETATM 16 C C9 78M . . . H 3 4.751 42.758 -3.493 1 57.6 ? C9 78M 203 B 1 HETATM 17 C C10 78M . . . H 3 4.944 41.738 -2.324 1 52.32 ? C10 78M 203 B 1 HETATM 18 C C11 78M . . . H 3 5.882 42.264 -1.223 1 45.8 ? C11 78M 203 B 1 HETATM 19 C C12 78M . . . H 3 5.3 43.488 -0.475 1 53.97 ? C12 78M 203 B 1 HETATM 20 C C13 78M . . . H 3 5.581 43.436 1.025 1 55.54 ? C13 78M 203 B 1 HETATM 21 C C15 78M . . . H 3 4.561 43.804 3.27 1 35.09 ? C15 78M 203 B 1 HETATM 22 C C14 78M . . . H 3 4.563 44.206 1.824 1 36.04 ? C14 78M 203 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 365 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 22 #