data_8IJQ # _model_server_result.job_id TkKt8bOX-vTi9S7HK_mxmw _model_server_result.datetime_utc '2024-11-22 10:50:02' _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 8ijq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":500}' # _entry.id 8IJQ # _exptl.entry_id 8IJQ _exptl.method 'ELECTRON MICROSCOPY' # _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 6 _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 8IJQ _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8IJQ _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,I,J,K,L _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L 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 118 A CYS 261 1_555 A SG CYS 150 A CYS 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf2 B SG CYS 118 B CYS 261 1_555 B SG CYS 150 B CYS 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 C SG CYS 118 C CYS 261 1_555 C SG CYS 150 C CYS 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 D SG CYS 118 D CYS 261 1_555 D SG CYS 150 D CYS 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 E SG CYS 118 E CYS 261 1_555 E SG CYS 150 E CYS 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf6 F SG CYS 118 F CYS 261 1_555 F SG CYS 150 F CYS 293 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? # _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 8IJQ _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 G 2 16C A 1 500 500 16C CER . H 2 16C B 1 500 500 16C CER . I 2 16C C 1 500 500 16C CER . J 2 16C D 1 500 500 16C CER . K 2 16C E 1 500 500 16C CER . L 2 16C F 1 500 500 16C CER . # 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 . . . K 2 107.663 168.606 172.354 1 86.66 ? O19 16C 500 E 1 HETATM 2 C C19 16C . . . K 2 106.959 168.187 173.21 1 86.66 ? C19 16C 500 E 1 HETATM 3 N N2 16C . . . K 2 107.493 167.926 174.536 1 86.66 ? N2 16C 500 E 1 HETATM 4 C C2 16C . . . K 2 108.891 168.176 174.835 1 86.66 ? C2 16C 500 E 1 HETATM 5 C C1 16C . . . K 2 109.081 169.657 175.151 1 86.66 ? C1 16C 500 E 1 HETATM 6 O O1 16C . . . K 2 108.085 170.047 176.054 1 86.66 ? O1 16C 500 E 1 HETATM 7 C C3 16C . . . K 2 109.306 167.334 176.041 1 86.66 ? C3 16C 500 E 1 HETATM 8 C C4 16C . . . K 2 109.703 165.931 175.582 1 86.66 ? C4 16C 500 E 1 HETATM 9 C C5 16C . . . K 2 110.188 165.757 174.369 1 86.66 ? C5 16C 500 E 1 HETATM 10 C C6 16C . . . K 2 110.595 164.369 173.876 1 86.66 ? C6 16C 500 E 1 HETATM 11 C C7 16C . . . K 2 109.359 163.489 173.684 1 86.66 ? C7 16C 500 E 1 HETATM 12 C C8 16C . . . K 2 108.65 163.687 172.343 1 86.66 ? C8 16C 500 E 1 HETATM 13 C C9 16C . . . K 2 107.564 164.763 172.378 1 86.66 ? C9 16C 500 E 1 HETATM 14 C C10 16C . . . K 2 107.265 165.38 171.009 1 86.66 ? C10 16C 500 E 1 HETATM 15 C C11 16C . . . K 2 107.161 164.342 169.89 1 86.66 ? C11 16C 500 E 1 HETATM 16 C C12 16C . . . K 2 106.163 164.719 168.79 1 86.66 ? C12 16C 500 E 1 HETATM 17 C C13 16C . . . K 2 106.218 163.746 167.606 1 86.66 ? C13 16C 500 E 1 HETATM 18 C C14 16C . . . K 2 105.326 164.156 166.431 1 86.66 ? C14 16C 500 E 1 HETATM 19 C C15 16C . . . K 2 105.641 163.41 165.129 1 86.66 ? C15 16C 500 E 1 HETATM 20 C C16 16C . . . K 2 107.089 162.924 165.049 1 86.66 ? C16 16C 500 E 1 HETATM 21 C C17 16C . . . K 2 107.269 161.714 164.134 1 86.66 ? C17 16C 500 E 1 HETATM 22 C C18 16C . . . K 2 108.742 161.451 163.826 1 86.66 ? C18 16C 500 E 1 HETATM 23 O O3 16C . . . K 2 110.396 167.938 176.677 1 86.66 ? O3 16C 500 E 1 HETATM 24 C C20 16C . . . K 2 105.485 167.911 172.929 1 86.66 ? C20 16C 500 E 1 HETATM 25 C C21 16C . . . K 2 104.94 168.699 171.74 1 86.66 ? C21 16C 500 E 1 HETATM 26 C C22 16C . . . K 2 103.747 167.996 171.096 1 86.66 ? C22 16C 500 E 1 HETATM 27 C C23 16C . . . K 2 102.991 168.889 170.115 1 86.66 ? C23 16C 500 E 1 HETATM 28 C C24 16C . . . K 2 102.3 168.098 169.005 1 86.66 ? C24 16C 500 E 1 HETATM 29 C C25 16C . . . K 2 103.172 166.972 168.453 1 86.66 ? C25 16C 500 E 1 HETATM 30 C C26 16C . . . K 2 102.461 166.161 167.371 1 86.66 ? C26 16C 500 E 1 HETATM 31 C C27 16C . . . K 2 101.964 164.813 167.89 1 86.66 ? C27 16C 500 E 1 HETATM 32 C C28 16C . . . K 2 100.874 164.21 167.007 1 86.66 ? C28 16C 500 E 1 HETATM 33 C C29 16C . . . K 2 100.536 162.778 167.416 1 86.66 ? C29 16C 500 E 1 HETATM 34 C C30 16C . . . K 2 99.162 162.681 168.075 1 86.66 ? C30 16C 500 E 1 HETATM 35 C C31 16C . . . K 2 98.893 161.298 168.665 1 86.66 ? C31 16C 500 E 1 HETATM 36 C C32 16C . . . K 2 98.026 161.371 169.92 1 86.66 ? C32 16C 500 E 1 HETATM 37 C C33 16C . . . K 2 97.281 160.066 170.189 1 86.66 ? C33 16C 500 E 1 HETATM 38 C C34 16C . . . K 2 96.671 160.026 171.588 1 86.66 ? C34 16C 500 E 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 38 #