data_8UEC # _model_server_result.job_id HYvZczplz4C_F2yMPVaiKg _model_server_result.datetime_utc '2024-11-23 08:39:36' _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 8uec # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 8UEC # _exptl.entry_id 8UEC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 537.901 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-((E,2S,3R)-1,3-DIHYDROXYOCTADEC-4-EN-2-YL)PALMITAMIDE _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 8UEC _cell.length_a 67.213 _cell.length_b 120.568 _cell.length_c 128.613 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8UEC _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _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 covale ? covale1 A SG CYS 97 A CYS 131 1_555 G C17 WUZ . A WUZ 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.766 ? covale ? covale2 B SG CYS 97 B CYS 131 1_555 U C17 WUZ . B WUZ 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? metalc ? metalc1 A O THR 108 A THR 142 1_555 J K K . A K 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.804 ? metalc ? metalc2 A O GLY 110 A GLY 144 1_555 I K K . A K 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.582 ? metalc ? metalc3 A O GLY 110 A GLY 144 1_555 K K K . A K 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.483 ? metalc ? metalc4 A O PHE 111 A PHE 145 1_555 K K K . A K 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.751 ? metalc ? metalc5 A O THR 217 A THR 251 1_555 J K K . A K 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.734 ? metalc ? metalc6 A O THR 217 A THR 251 1_555 V K K . B K 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.971 ? metalc ? metalc7 A OG1 THR 217 A THR 251 1_555 V K K . B K 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.353 ? metalc ? metalc8 A O ILE 218 A ILE 252 1_555 I K K . A K 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc9 A O ILE 218 A ILE 252 1_555 J K K . A K 408 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.729 ? metalc ? metalc10 A O GLY 219 A GLY 253 1_555 I K K . A K 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.784 ? metalc ? metalc11 A O GLY 219 A GLY 253 1_555 K K K . A K 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.125 ? metalc ? metalc12 A O PHE 220 A PHE 254 1_555 K K K . A K 409 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.776 ? metalc ? metalc13 A OE2 GLU 275 A GLU 309 1_555 N CD CD . A CD 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.679 ? metalc ? metalc14 I K K . A K 407 1_555 B O ILE 109 B ILE 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.756 ? metalc ? metalc15 I K K . A K 407 1_555 B O GLY 110 B GLY 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.704 ? metalc ? metalc16 I K K . A K 407 1_555 B O ILE 218 B ILE 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? metalc ? metalc17 I K K . A K 407 1_555 B O GLY 219 B GLY 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.873 ? metalc ? metalc18 J K K . A K 408 1_555 B O THR 108 B THR 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.682 ? metalc ? metalc19 J K K . A K 408 1_555 B O ILE 109 B ILE 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.048 ? metalc ? metalc20 J K K . A K 408 1_555 B O THR 217 B THR 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc21 J K K . A K 408 1_555 B O ILE 218 B ILE 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.598 ? metalc ? metalc22 K K K . A K 409 1_555 B O GLY 110 B GLY 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.363 ? metalc ? metalc23 K K K . A K 409 1_555 B O PHE 111 B PHE 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.104 ? metalc ? metalc24 K K K . A K 409 1_555 B O GLY 219 B GLY 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.213 ? metalc ? metalc25 K K K . A K 409 1_555 B O PHE 220 B PHE 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.747 ? metalc ? metalc26 B O THR 108 B THR 142 1_555 V K K . B K 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.153 ? metalc ? metalc27 B OG1 THR 108 B THR 142 1_555 V K K . B K 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.832 ? metalc ? metalc28 B O THR 217 B THR 251 1_555 V K K . B K 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? metalc ? metalc29 B OG1 THR 217 B THR 251 1_555 V K K . B K 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.043 ? # _chem_comp.formula 'C34 H67 N O3' _chem_comp.formula_weight 537.901 _chem_comp.id 16C _chem_comp.mon_nstd_flag . _chem_comp.name N-((E,2S,3R)-1,3-DIHYDROXYOCTADEC-4-EN-2-YL)PALMITAMIDE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms C16-CERAMIDE;N-PALMITOYL-D-ERYTHRO-SPHINGOSINE;(2S,3R,4E)-2-PALMITOYLAMINOOCTADEC-4-ENE-1,3-DIOL;(2S,3R,4E)-2-PALMITOYLAMINO-1,3-OCTADEC-4-ENEDIOL # 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 O19 C19 16C doub 1 n n C19 N2 16C sing 2 n n C19 C20 16C sing 3 n n N2 C2 16C sing 4 n n N2 HN2 16C sing 5 n n C2 C1 16C sing 6 n n C2 C3 16C sing 7 n n C2 H2 16C sing 8 n n C1 O1 16C sing 9 n n C1 H11 16C sing 10 n n C1 H12 16C sing 11 n n O1 HO1 16C sing 12 n n C3 C4 16C sing 13 n n C3 O3 16C sing 14 n n C3 H3 16C sing 15 n n C4 C5 16C doub 16 e n C4 H4 16C sing 17 n n C5 C6 16C sing 18 n n C5 H5 16C sing 19 n n C6 C7 16C sing 20 n n C6 H61 16C sing 21 n n C6 H62 16C sing 22 n n C7 C8 16C sing 23 n n C7 H71 16C sing 24 n n C7 H72 16C sing 25 n n C8 C9 16C sing 26 n n C8 H81 16C sing 27 n n C8 H82 16C sing 28 n n C9 C10 16C sing 29 n n C9 H91 16C sing 30 n n C9 H92 16C sing 31 n n C10 C11 16C sing 32 n n C10 H101 16C sing 33 n n C10 H102 16C sing 34 n n C11 C12 16C sing 35 n n C11 H111 16C sing 36 n n C11 H112 16C sing 37 n n C12 C13 16C sing 38 n n C12 H121 16C sing 39 n n C12 H122 16C sing 40 n n C13 C14 16C sing 41 n n C13 H131 16C sing 42 n n C13 H132 16C sing 43 n n C14 C15 16C sing 44 n n C14 H141 16C sing 45 n n C14 H142 16C sing 46 n n C15 C16 16C sing 47 n n C15 H151 16C sing 48 n n C15 H152 16C sing 49 n n C16 C17 16C sing 50 n n C16 H161 16C sing 51 n n C16 H162 16C sing 52 n n C17 C18 16C sing 53 n n C17 H171 16C sing 54 n n C17 H172 16C sing 55 n n C18 H181 16C sing 56 n n C18 H182 16C sing 57 n n C18 H183 16C sing 58 n n O3 HO3 16C sing 59 n n C20 C21 16C sing 60 n n C20 H201 16C sing 61 n n C20 H202 16C sing 62 n n C21 C22 16C sing 63 n n C21 H211 16C sing 64 n n C21 H212 16C sing 65 n n C22 C23 16C sing 66 n n C22 H221 16C sing 67 n n C22 H222 16C sing 68 n n C23 C24 16C sing 69 n n C23 H231 16C sing 70 n n C23 H232 16C sing 71 n n C24 C25 16C sing 72 n n C24 H241 16C sing 73 n n C24 H242 16C sing 74 n n C25 C26 16C sing 75 n n C25 H251 16C sing 76 n n C25 H252 16C sing 77 n n C26 C27 16C sing 78 n n C26 H261 16C sing 79 n n C26 H262 16C sing 80 n n C27 C28 16C sing 81 n n C27 H271 16C sing 82 n n C27 H272 16C sing 83 n n C28 C29 16C sing 84 n n C28 H281 16C sing 85 n n C28 H282 16C sing 86 n n C29 C30 16C sing 87 n n C29 H291 16C sing 88 n n C29 H292 16C sing 89 n n C30 C31 16C sing 90 n n C30 H301 16C sing 91 n n C30 H302 16C sing 92 n n C31 C32 16C sing 93 n n C31 H311 16C sing 94 n n C31 H312 16C sing 95 n n C32 C33 16C sing 96 n n C32 H321 16C sing 97 n n C32 H322 16C sing 98 n n C33 C34 16C sing 99 n n C33 H331 16C sing 100 n n C33 H332 16C sing 101 n n C34 H341 16C sing 102 n n C34 H342 16C sing 103 n n C34 H343 16C sing 104 n n # _atom_sites.entry_id 8UEC _atom_sites.fract_transf_matrix[1][1] 0.014878 _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] 0.008294 _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] 0.007775 _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 2 16C A 1 401 703 16C 16C . D 3 D10 A 1 402 704 D10 D10 . E 3 D10 A 1 403 706 D10 D10 . F 3 D10 A 1 404 707 D10 D10 . G 4 WUZ A 1 405 708 WUZ MLB . H 3 D10 A 1 406 802 D10 D10 . I 5 K A 1 407 9 K K . J 5 K A 1 408 13 K K . K 5 K A 1 409 17 K K . L 6 R16 A 1 410 21 R16 R16 . M 7 CD A 1 411 4 CD CD . N 7 CD A 1 412 5 CD CD . O 3 D10 A 1 413 1 D10 D10 . P 3 D10 A 1 414 3 D10 D10 . Q 3 D10 B 1 401 803 D10 D10 . R 3 D10 B 1 402 804 D10 D10 . S 3 D10 B 1 403 807 D10 D10 . T 3 D10 B 1 404 808 D10 D10 . U 4 WUZ B 1 405 809 WUZ MLB . V 5 K B 1 406 12 K K . W 5 K B 1 407 19 K K . X 6 R16 B 1 408 19 R16 R16 . Y 6 R16 B 1 409 22 R16 R16 . Z 7 CD B 1 410 1 CD CD . AA 3 D10 B 1 411 2 D10 D10 . # 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 O19 16C . . . C 2 28.117 -9.629 -15.39 1 229.85 ? O19 16C 401 A 1 HETATM 2 C C19 16C . . . C 2 29.064 -9.503 -16.074 1 218.95 ? C19 16C 401 A 1 HETATM 3 N N2 16C . . . C 2 28.898 -9.562 -17.546 1 212.85 ? N2 16C 401 A 1 HETATM 4 C C2 16C . . . C 2 27.594 -9.811 -18.129 1 198.05 ? C2 16C 401 A 1 HETATM 5 C C1 16C . . . C 2 27.388 -8.905 -19.322 1 199.56 ? C1 16C 401 A 1 HETATM 6 O O1 16C . . . C 2 26.463 -7.893 -19.037 1 190.49 ? O1 16C 401 A 1 HETATM 7 C C3 16C . . . C 2 27.724 -11.274 -18.601 1 202.73 ? C3 16C 401 A 1 HETATM 8 C C4 16C . . . C 2 26.714 -12.189 -17.836 1 191.96 ? C4 16C 401 A 1 HETATM 9 C C5 16C . . . C 2 25.384 -11.888 -17.754 1 187.63 ? C5 16C 401 A 1 HETATM 10 C C6 16C . . . C 2 24.446 -12.85 -16.957 1 161.68 ? C6 16C 401 A 1 HETATM 11 C C7 16C . . . C 2 25.212 -14.171 -16.66 1 148.99 ? C7 16C 401 A 1 HETATM 12 C C8 16C . . . C 2 24.206 -15.247 -16.164 1 146.1 ? C8 16C 401 A 1 HETATM 13 C C9 16C . . . C 2 23.943 -15.075 -14.655 1 133.63 ? C9 16C 401 A 1 HETATM 14 C C10 16C . . . C 2 22.598 -15.762 -14.309 1 125.38 ? C10 16C 401 A 1 HETATM 15 C C11 16C . . . C 2 22.595 -16.23 -12.847 1 119.79 ? C11 16C 401 A 1 HETATM 16 C C12 16C . . . C 2 22.358 -15.021 -11.917 1 119.5 ? C12 16C 401 A 1 HETATM 17 C C13 16C . . . C 2 21.128 -15.297 -11.013 1 110.29 ? C13 16C 401 A 1 HETATM 18 C C14 16C . . . C 2 19.842 -14.875 -11.77 1 118.62 ? C14 16C 401 A 1 HETATM 19 C C15 16C . . . C 2 18.819 -16.03 -11.722 1 124.36 ? C15 16C 401 A 1 HETATM 20 C C16 16C . . . C 2 17.802 -15.776 -10.599 1 119.98 ? C16 16C 401 A 1 HETATM 21 C C17 16C . . . C 2 16.516 -16.568 -10.903 1 111.37 ? C17 16C 401 A 1 HETATM 22 C C18 16C . . . C 2 15.406 -16.167 -9.922 1 112.93 ? C18 16C 401 A 1 HETATM 23 O O3 16C . . . C 2 27.592 -11.335 -19.979 1 185.98 ? O3 16C 401 A 1 HETATM 24 C C20 16C . . . C 2 30.476 -9.258 -15.458 1 210.28 ? C20 16C 401 A 1 HETATM 25 C C21 16C . . . C 2 31.1 -10.638 -15.115 1 199.62 ? C21 16C 401 A 1 HETATM 26 C C22 16C . . . C 2 30.991 -11.579 -16.337 1 199.47 ? C22 16C 401 A 1 HETATM 27 C C23 16C . . . C 2 30.228 -12.887 -15.98 1 182.42 ? C23 16C 401 A 1 HETATM 28 C C24 16C . . . C 2 30.303 -13.891 -17.172 1 163.07 ? C24 16C 401 A 1 HETATM 29 C C25 16C . . . C 2 29.082 -14.864 -17.159 1 148.06 ? C25 16C 401 A 1 HETATM 30 C C26 16C . . . C 2 29.052 -15.679 -15.84 1 139.79 ? C26 16C 401 A 1 HETATM 31 C C27 16C . . . C 2 30.226 -16.712 -15.842 1 131.96 ? C27 16C 401 A 1 HETATM 32 C C28 16C . . . C 2 30.646 -17.028 -14.391 1 135.95 ? C28 16C 401 A 1 HETATM 33 C C29 16C . . . C 2 31.056 -18.521 -14.291 1 127.81 ? C29 16C 401 A 1 HETATM 34 C C30 16C . . . C 2 32.031 -18.858 -15.434 1 128.74 ? C30 16C 401 A 1 HETATM 35 C C31 16C . . . C 2 31.903 -20.351 -15.789 1 131.43 ? C31 16C 401 A 1 HETATM 36 C C32 16C . . . C 2 30.675 -20.552 -16.706 1 144.31 ? C32 16C 401 A 1 HETATM 37 C C33 16C . . . C 2 30.418 -22.042 -16.89 1 130.86 ? C33 16C 401 A 1 HETATM 38 C C34 16C . . . C 2 29.17 -22.451 -16.091 1 108.52 ? C34 16C 401 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 222 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 38 #