data_8T3O # _model_server_result.job_id uu17SNBlMhfrIT_qSqhFbA _model_server_result.datetime_utc '2024-11-04 22:49:34' _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 8t3o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":402}' # _entry.id 8T3O # _exptl.entry_id 8T3O _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 967.108 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-1-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate' _entity.pdbx_number_of_molecules 1 _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 8T3O _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8T3O _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 ? _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 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id G _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 90 R CYS 111 1_555 A SG CYS 163 R CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 E SG CYS 21 N CYS 22 1_555 E SG CYS 95 N CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 E SG CYS 159 N CYS 160 1_555 E SG CYS 229 N CYS 230 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C47 H84 O16 P2' _chem_comp.formula_weight 967.108 _chem_comp.id 2Y5 _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-1-{[(R)-hydroxy{[(1R,2R,3R,4R,5S,6R)-2,3,5,6-tetrahydroxy-4-(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Phosphatidylinositol-4-phosphate;PI4P # 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 C16 C15 2Y5 doub 1 z n C16 C17 2Y5 sing 2 n n C30 C29 2Y5 sing 3 n n C15 C14 2Y5 sing 4 n n C18 C17 2Y5 sing 5 n n C18 C19 2Y5 doub 6 z n C28 C29 2Y5 sing 7 n n C28 C27 2Y5 sing 8 n n C19 C20 2Y5 sing 9 n n C14 C13 2Y5 sing 10 n n C27 C26 2Y5 sing 11 n n C13 C12 2Y5 sing 12 n n C26 C25 2Y5 sing 13 n n C20 C21 2Y5 sing 14 n n O17 C10 2Y5 doub 15 n n C21 C22 2Y5 doub 16 z n C23 C22 2Y5 sing 17 n n C23 C24 2Y5 sing 18 n n C12 C10 2Y5 sing 19 n n C25 C24 2Y5 doub 20 z n C35 C36 2Y5 sing 21 n n C35 C34 2Y5 sing 22 n n C36 C37 2Y5 sing 23 n n C10 O16 2Y5 sing 24 n n C38 C37 2Y5 sing 25 n n C38 C39 2Y5 sing 26 n n C33 C34 2Y5 sing 27 n n C33 C32 2Y5 sing 28 n n C42 C43 2Y5 sing 29 n n C42 C41 2Y5 sing 30 n n C44 C45 2Y5 sing 31 n n C44 C43 2Y5 sing 32 n n C45 C46 2Y5 sing 33 n n C40 C39 2Y5 sing 34 n n C40 C41 2Y5 sing 35 n n C31 C32 2Y5 sing 36 n n C31 C11 2Y5 sing 37 n n O16 C8 2Y5 sing 38 n n O18 C11 2Y5 sing 39 n n O18 C9 2Y5 sing 40 n n C8 C9 2Y5 sing 41 n n C8 C7 2Y5 sing 42 n n C11 O19 2Y5 doub 43 n n C47 C46 2Y5 sing 44 n n C7 O13 2Y5 sing 45 n n O13 P1 2Y5 sing 46 n n O5 C5 2Y5 sing 47 n n O6 C6 2Y5 sing 48 n n O43 P4 2Y5 doub 49 n n C6 C5 2Y5 sing 50 n n C6 C1 2Y5 sing 51 n n C5 C4 2Y5 sing 52 n n P1 O1 2Y5 sing 53 n n P1 O11 2Y5 doub 54 n n P1 O12 2Y5 sing 55 n n O1 C1 2Y5 sing 56 n n C1 C2 2Y5 sing 57 n n P4 O42 2Y5 sing 58 n n P4 O4 2Y5 sing 59 n n P4 O41 2Y5 sing 60 n n C4 O4 2Y5 sing 61 n n C4 C3 2Y5 sing 62 n n C2 C3 2Y5 sing 63 n n C2 O2 2Y5 sing 64 n n C3 O3 2Y5 sing 65 n n C1 H1 2Y5 sing 66 n n C2 H2 2Y5 sing 67 n n O2 H3 2Y5 sing 68 n n C3 H4 2Y5 sing 69 n n O3 H5 2Y5 sing 70 n n C4 H6 2Y5 sing 71 n n C5 H7 2Y5 sing 72 n n O5 H8 2Y5 sing 73 n n C6 H9 2Y5 sing 74 n n O6 H10 2Y5 sing 75 n n C7 H11 2Y5 sing 76 n n C7 H12 2Y5 sing 77 n n C8 H13 2Y5 sing 78 n n C9 H14 2Y5 sing 79 n n C9 H15 2Y5 sing 80 n n C12 H16 2Y5 sing 81 n n C12 H17 2Y5 sing 82 n n O12 H18 2Y5 sing 83 n n C13 H19 2Y5 sing 84 n n C13 H20 2Y5 sing 85 n n C14 H21 2Y5 sing 86 n n C14 H22 2Y5 sing 87 n n C15 H23 2Y5 sing 88 n n C16 H25 2Y5 sing 89 n n C17 H27 2Y5 sing 90 n n C17 H28 2Y5 sing 91 n n C18 H29 2Y5 sing 92 n n C19 H31 2Y5 sing 93 n n C20 H33 2Y5 sing 94 n n C20 H34 2Y5 sing 95 n n C21 H35 2Y5 sing 96 n n C22 H37 2Y5 sing 97 n n C23 H39 2Y5 sing 98 n n C23 H40 2Y5 sing 99 n n C24 H41 2Y5 sing 100 n n C25 H43 2Y5 sing 101 n n C26 H45 2Y5 sing 102 n n C26 H46 2Y5 sing 103 n n C27 H47 2Y5 sing 104 n n C27 H48 2Y5 sing 105 n n C28 H49 2Y5 sing 106 n n C28 H50 2Y5 sing 107 n n C29 H51 2Y5 sing 108 n n C29 H52 2Y5 sing 109 n n C30 H53 2Y5 sing 110 n n C30 H54 2Y5 sing 111 n n C30 H55 2Y5 sing 112 n n C31 H56 2Y5 sing 113 n n C31 H57 2Y5 sing 114 n n C32 H58 2Y5 sing 115 n n C32 H59 2Y5 sing 116 n n C33 H60 2Y5 sing 117 n n C33 H61 2Y5 sing 118 n n C34 H62 2Y5 sing 119 n n C34 H63 2Y5 sing 120 n n C35 H64 2Y5 sing 121 n n C35 H65 2Y5 sing 122 n n C36 H66 2Y5 sing 123 n n C36 H67 2Y5 sing 124 n n C37 H68 2Y5 sing 125 n n C37 H69 2Y5 sing 126 n n C38 H70 2Y5 sing 127 n n C38 H71 2Y5 sing 128 n n C39 H72 2Y5 sing 129 n n C39 H73 2Y5 sing 130 n n C40 H74 2Y5 sing 131 n n C40 H75 2Y5 sing 132 n n C41 H76 2Y5 sing 133 n n C41 H77 2Y5 sing 134 n n O41 H78 2Y5 sing 135 n n C42 H79 2Y5 sing 136 n n C42 H80 2Y5 sing 137 n n O42 H81 2Y5 sing 138 n n C43 H82 2Y5 sing 139 n n C43 H83 2Y5 sing 140 n n C44 H84 2Y5 sing 141 n n C44 H85 2Y5 sing 142 n n C45 H86 2Y5 sing 143 n n C45 H87 2Y5 sing 144 n n C46 H88 2Y5 sing 145 n n C46 H89 2Y5 sing 146 n n C47 H90 2Y5 sing 147 n n C47 H91 2Y5 sing 148 n n C47 H92 2Y5 sing 149 n n # _atom_sites.entry_id 8T3O _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 F 6 YN9 R 1 401 1 YN9 TUG . G 7 2Y5 R 1 402 1 2Y5 2Y5 . H 8 PLM R 1 403 9 PLM PLM . # 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 2Y5 . . . G 7 101.349 97.75 109.83 1 107.3 ? C1 2Y5 402 R 1 HETATM 2 O O1 2Y5 . . . G 7 100.978 97.745 111.184 1 108.34 ? O1 2Y5 402 R 1 HETATM 3 P P1 2Y5 . . . G 7 100.517 96.311 111.849 1 120.5 ? P1 2Y5 402 R 1 HETATM 4 C C2 2Y5 . . . G 7 102.87 97.54 109.729 1 108.54 ? C2 2Y5 402 R 1 HETATM 5 O O2 2Y5 . . . G 7 103.432 97.687 111.008 1 107.45 ? O2 2Y5 402 R 1 HETATM 6 C C3 2Y5 . . . G 7 103.56 98.526 108.773 1 107.65 ? C3 2Y5 402 R 1 HETATM 7 O O3 2Y5 . . . G 7 104.823 98.009 108.439 1 106.79 ? O3 2Y5 402 R 1 HETATM 8 C C4 2Y5 . . . G 7 102.763 98.757 107.48 1 108.7 ? C4 2Y5 402 R 1 HETATM 9 O O4 2Y5 . . . G 7 103.401 99.757 106.727 1 109.43 ? O4 2Y5 402 R 1 HETATM 10 P P4 2Y5 . . . G 7 104.464 99.308 105.55 1 121.63 ? P4 2Y5 402 R 1 HETATM 11 C C5 2Y5 . . . G 7 101.31 99.196 107.734 1 109.17 ? C5 2Y5 402 R 1 HETATM 12 O O5 2Y5 . . . G 7 100.456 98.403 106.95 1 109.18 ? O5 2Y5 402 R 1 HETATM 13 C C6 2Y5 . . . G 7 100.885 99.069 109.205 1 107.64 ? C6 2Y5 402 R 1 HETATM 14 O O6 2Y5 . . . G 7 99.483 99.127 109.281 1 104.01 ? O6 2Y5 402 R 1 HETATM 15 C C7 2Y5 . . . G 7 98.642 97.504 113.237 1 109.3 ? C7 2Y5 402 R 1 HETATM 16 C C8 2Y5 . . . G 7 97.799 97.335 114.499 1 110.05 ? C8 2Y5 402 R 1 HETATM 17 C C9 2Y5 . . . G 7 96.324 97.528 114.154 1 108.23 ? C9 2Y5 402 R 1 HETATM 18 C C10 2Y5 . . . G 7 98.287 96.017 116.379 1 108.53 ? C10 2Y5 402 R 1 HETATM 19 C C11 2Y5 . . . G 7 95.393 98.114 112.077 1 110.06 ? C11 2Y5 402 R 1 HETATM 20 O O11 2Y5 . . . G 7 99.627 95.576 110.876 1 113.96 ? O11 2Y5 402 R 1 HETATM 21 C C12 2Y5 . . . G 7 99.737 96.049 116.849 1 107.15 ? C12 2Y5 402 R 1 HETATM 22 O O12 2Y5 . . . G 7 101.743 95.48 112.136 1 112.65 ? O12 2Y5 402 R 1 HETATM 23 C C13 2Y5 . . . G 7 100.565 95.056 116.039 1 107.63 ? C13 2Y5 402 R 1 HETATM 24 O O13 2Y5 . . . G 7 99.688 96.575 113.248 1 111.22 ? O13 2Y5 402 R 1 HETATM 25 C C14 2Y5 . . . G 7 102.043 95.32 116.31 1 107.93 ? C14 2Y5 402 R 1 HETATM 26 C C15 2Y5 . . . G 7 102.849 95.178 115.022 1 108.94 ? C15 2Y5 402 R 1 HETATM 27 C C16 2Y5 . . . G 7 103.973 95.848 114.879 1 110.97 ? C16 2Y5 402 R 1 HETATM 28 O O16 2Y5 . . . G 7 97.997 96.05 115.011 1 109.94 ? O16 2Y5 402 R 1 HETATM 29 C C17 2Y5 . . . G 7 104.795 95.714 113.599 1 108.8 ? C17 2Y5 402 R 1 HETATM 30 O O17 2Y5 . . . G 7 97.41 95.97 117.173 1 109.44 ? O17 2Y5 402 R 1 HETATM 31 C C18 2Y5 . . . G 7 106.247 96.09 113.891 1 107.8 ? C18 2Y5 402 R 1 HETATM 32 O O18 2Y5 . . . G 7 96.114 97.174 112.819 1 111.58 ? O18 2Y5 402 R 1 HETATM 33 C C19 2Y5 . . . G 7 107.116 95.18 114.277 1 106.21 ? C19 2Y5 402 R 1 HETATM 34 O O19 2Y5 . . . G 7 94.224 97.989 111.934 1 109.75 ? O19 2Y5 402 R 1 HETATM 35 C C20 2Y5 . . . G 7 106.687 93.724 114.437 1 108.44 ? C20 2Y5 402 R 1 HETATM 36 C C21 2Y5 . . . G 7 106.338 93.443 115.896 1 106.05 ? C21 2Y5 402 R 1 HETATM 37 C C22 2Y5 . . . G 7 105.183 92.886 116.195 1 104.41 ? C22 2Y5 402 R 1 HETATM 38 C C23 2Y5 . . . G 7 104.823 92.595 117.648 1 104.62 ? C23 2Y5 402 R 1 HETATM 39 C C24 2Y5 . . . G 7 103.312 92.416 117.762 1 106.38 ? C24 2Y5 402 R 1 HETATM 40 C C25 2Y5 . . . G 7 102.786 91.809 118.805 1 107.84 ? C25 2Y5 402 R 1 HETATM 41 C C26 2Y5 . . . G 7 103.679 91.266 119.917 1 107.54 ? C26 2Y5 402 R 1 HETATM 42 C C27 2Y5 . . . G 7 102.807 90.584 120.97 1 107.54 ? C27 2Y5 402 R 1 HETATM 43 C C28 2Y5 . . . G 7 103.681 90.1 122.124 1 106.91 ? C28 2Y5 402 R 1 HETATM 44 C C29 2Y5 . . . G 7 102.828 89.283 123.091 1 106.8 ? C29 2Y5 402 R 1 HETATM 45 C C30 2Y5 . . . G 7 103.705 88.759 124.225 1 106.32 ? C30 2Y5 402 R 1 HETATM 46 C C31 2Y5 . . . G 7 96.115 99.304 111.452 1 107.35 ? C31 2Y5 402 R 1 HETATM 47 C C32 2Y5 . . . G 7 95.384 99.727 110.183 1 107.06 ? C32 2Y5 402 R 1 HETATM 48 C C33 2Y5 . . . G 7 96.408 99.924 109.068 1 108.79 ? C33 2Y5 402 R 1 HETATM 49 C C34 2Y5 . . . G 7 95.976 99.14 107.832 1 109.22 ? C34 2Y5 402 R 1 HETATM 50 C C35 2Y5 . . . G 7 94.55 99.536 107.458 1 110.35 ? C35 2Y5 402 R 1 HETATM 51 C C36 2Y5 . . . G 7 94.572 100.409 106.206 1 109.33 ? C36 2Y5 402 R 1 HETATM 52 C C37 2Y5 . . . G 7 93.139 100.6 105.715 1 109.35 ? C37 2Y5 402 R 1 HETATM 53 C C38 2Y5 . . . G 7 92.959 102.017 105.172 1 108.45 ? C38 2Y5 402 R 1 HETATM 54 C C39 2Y5 . . . G 7 91.47 102.36 105.15 1 108.43 ? C39 2Y5 402 R 1 HETATM 55 C C40 2Y5 . . . G 7 91.032 102.786 106.549 1 110.15 ? C40 2Y5 402 R 1 HETATM 56 C C41 2Y5 . . . G 7 90.043 101.768 107.113 1 108.33 ? C41 2Y5 402 R 1 HETATM 57 O O41 2Y5 . . . G 7 104.337 100.241 104.37 1 112.23 ? O41 2Y5 402 R 1 HETATM 58 C C42 2Y5 . . . G 7 90.12 101.783 108.638 1 109.59 ? C42 2Y5 402 R 1 HETATM 59 O O42 2Y5 . . . G 7 105.873 99.37 106.09 1 113.1 ? O42 2Y5 402 R 1 HETATM 60 C C43 2Y5 . . . G 7 90.848 100.53 109.117 1 108.22 ? C43 2Y5 402 R 1 HETATM 61 O O43 2Y5 . . . G 7 104.156 97.899 105.108 1 111.88 ? O43 2Y5 402 R 1 HETATM 62 C C44 2Y5 . . . G 7 90.155 99.979 110.361 1 109.16 ? C44 2Y5 402 R 1 HETATM 63 C C45 2Y5 . . . G 7 91.108 99.038 111.094 1 108.79 ? C45 2Y5 402 R 1 HETATM 64 C C46 2Y5 . . . G 7 91.387 99.582 112.493 1 110.52 ? C46 2Y5 402 R 1 HETATM 65 C C47 2Y5 . . . G 7 90.097 99.57 113.309 1 110.35 ? C47 2Y5 402 R 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 65 #