data_8C6D # _model_server_result.job_id IAnPfVTmHqERgCI0GHlyoQ _model_server_result.datetime_utc '2024-11-09 23:17:39' _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 8c6d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 8C6D # _exptl.entry_id 8C6D _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 299.492 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2S,3R,4E)-2-aminooctadec-4-ene-1,3-diol _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 8C6D _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8C6D _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 180-meric _pdbx_struct_assembly.oligomeric_count 180 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,10,11,12,13,14,15,16,17,18,19,2,20,21,22,23,24,25,26,27,28,29,3,30,31,32,33,34,35,36,37,38,39,4,40,41,42,43,44,45,46,47,48,49,5,50,51,52,53,54,55,56,57,58,59,6,60,7,8,9 # 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 'point symmetry operation' ? ? -0.809017 -0.5 0.309017 -0.5 0.309017 -0.809017 0.309017 -0.809017 -0.5 360.27574 359.26597 358.64189 3 'point symmetry operation' ? ? 0 1 0 0 0 -1 -1 0 0 -0.0037 359.0945 359.0908 4 'point symmetry operation' ? ? 0.809017 -0.5 -0.309017 -0.5 -0.309017 -0.809017 0.309017 0.809017 -0.5 179.71986 470.5127 67.39416 5 'point symmetry operation' ? ? 0.5 0.309017 -0.809017 -0.309017 -0.809017 -0.5 -0.809017 0.5 -0.309017 179.26497 470.79384 290.05681 6 'point symmetry operation' ? ? -0.309017 -0.809017 -0.5 -0.809017 0.5 -0.309017 0.5 0.309017 -0.809017 470.79014 290.96431 178.36117 7 'point symmetry operation' ? ? -0.809017 0.5 -0.309017 0.5 0.309017 -0.809017 -0.309017 -0.809017 -0.5 290.96061 179.26867 469.88634 8 'point symmetry operation' ? ? -0.809017 -0.5 -0.309017 0.5 -0.309017 -0.809017 0.309017 -0.809017 0.5 470.96161 290.5154 179.54839 9 'point symmetry operation' ? ? -0.309017 0.809017 -0.5 -0.809017 -0.5 -0.309017 -0.5 0.309017 0.809017 179.54241 470.96531 68.5791 10 'point symmetry operation' ? ? 0.5 -0.309017 -0.809017 -0.309017 0.809017 -0.5 0.809017 0.5 0.309017 290.5117 179.54611 -111.87081 11 'point symmetry operation' ? ? 0 0 -1 -1 0 0 0 1 0 359.0908 359.9983 -0.9075 12 'point symmetry operation' ? ? -0.5 -0.309017 -0.809017 0.309017 0.809017 -0.5 0.809017 -0.5 -0.309017 470.509 68.30166 178.81606 13 'point symmetry operation' ? ? -0.5 0.309017 -0.809017 0.309017 -0.809017 -0.5 -0.809017 -0.5 0.309017 359.26227 359.54939 359.37194 14 'point symmetry operation' ? ? -0.309017 -0.809017 -0.5 0.809017 -0.5 0.309017 -0.5 -0.309017 0.809017 470.79014 69.03769 179.82583 15 'point symmetry operation' ? ? -0.809017 0.5 -0.309017 -0.5 -0.309017 0.809017 0.309017 0.809017 0.5 290.96061 180.73333 -111.69934 16 'point symmetry operation' ? ? 0.5 0.309017 -0.809017 0.309017 0.809017 0.5 0.809017 -0.5 0.309017 179.26497 -110.79184 68.13019 17 'point symmetry operation' ? ? -0.5 0.309017 -0.809017 -0.309017 0.809017 0.5 0.809017 0.5 -0.309017 359.26227 0.45261 -1.18494 18 'point symmetry operation' ? ? 0 0 -1 1 0 0 0 -1 0 359.0908 0.0037 359.0945 19 'point symmetry operation' ? ? -0.5 -0.309017 -0.809017 -0.309017 -0.809017 0.5 -0.809017 0.5 0.309017 470.509 291.70034 179.37094 20 'point symmetry operation' ? ? 0 -1 0 0 0 1 -1 0 0 359.9983 0.9075 359.0908 21 'point symmetry operation' ? ? -0.809017 0.5 0.309017 0.5 0.309017 0.809017 0.309017 0.809017 -0.5 180.27474 -110.5107 67.39416 22 'point symmetry operation' ? ? 0.809017 0.5 -0.309017 0.5 -0.309017 0.809017 0.309017 -0.809017 -0.5 -0.28114 0.73603 358.64189 23 'point symmetry operation' ? ? -0.309017 0.809017 -0.5 0.809017 0.5 0.309017 0.5 -0.309017 -0.809017 179.54241 -110.96331 289.6079 24 'point symmetry operation' ? ? 0.5 -0.309017 -0.809017 0.309017 -0.809017 0.5 -0.809017 -0.5 -0.309017 290.5117 180.45589 470.05781 25 'point symmetry operation' ? ? -0.809017 -0.5 -0.309017 -0.5 0.309017 0.809017 -0.309017 0.809017 -0.5 470.96161 69.4866 178.63861 26 'point symmetry operation' ? ? -0.309017 -0.809017 0.5 -0.809017 0.5 0.309017 -0.5 -0.309017 -0.809017 291.69664 180.27844 469.6052 27 'point symmetry operation' ? ? -0.309017 0.809017 0.5 0.809017 0.5 -0.309017 -0.5 0.309017 -0.809017 0.44891 -0.27744 358.35847 28 'point symmetry operation' ? ? 1 0 0 0 -1 0 0 0 -1 0 360.002 358.187 29 'point symmetry operation' ? ? 0.309017 0.809017 -0.5 0.809017 -0.5 -0.309017 -0.5 -0.309017 -0.809017 68.29796 179.72356 469.6052 30 'point symmetry operation' ? ? 0.309017 -0.809017 -0.5 -0.809017 -0.5 0.309017 -0.5 0.309017 -0.809017 359.54569 360.27944 358.35847 31 'point symmetry operation' ? ? -1 0 0 0 1 0 0 0 -1 359.9946 0 358.187 32 'point symmetry operation' ? ? 0.809017 0.5 -0.309017 -0.5 0.309017 -0.809017 -0.309017 0.809017 0.5 -0.28114 359.26597 -0.45489 33 'point symmetry operation' ? ? 0 -1 0 0 0 -1 1 0 0 359.9983 359.0945 -0.9038 34 'point symmetry operation' ? ? -0.809017 0.5 0.309017 -0.5 -0.309017 -0.809017 -0.309017 -0.809017 0.5 180.27474 470.5127 290.79284 35 'point symmetry operation' ? ? -0.5 -0.309017 0.809017 -0.309017 -0.809017 -0.5 0.809017 -0.5 0.309017 180.72963 470.79384 68.13019 36 'point symmetry operation' ? ? 0.309017 0.809017 0.5 -0.809017 0.5 -0.309017 -0.5 -0.309017 0.809017 -110.79554 290.96431 179.82583 37 'point symmetry operation' ? ? 0.809017 -0.5 0.309017 0.5 0.309017 -0.809017 0.309017 0.809017 0.5 69.03399 179.26867 -111.69934 38 'point symmetry operation' ? ? 0.809017 0.5 0.309017 0.5 -0.309017 -0.809017 -0.309017 0.809017 -0.5 -110.96701 290.5154 178.63861 39 'point symmetry operation' ? ? 0.309017 -0.809017 0.5 -0.809017 -0.5 -0.309017 0.5 -0.309017 -0.809017 180.45219 470.96531 289.6079 40 'point symmetry operation' ? ? -0.5 0.309017 0.809017 -0.309017 0.809017 -0.5 -0.809017 -0.5 -0.309017 69.4829 179.54611 470.05781 41 'point symmetry operation' ? ? 0 0 1 -1 0 0 0 -1 0 0.9038 359.9983 359.0945 42 'point symmetry operation' ? ? 0.5 0.309017 0.809017 0.309017 0.809017 -0.5 -0.809017 0.5 0.309017 -110.5144 68.30166 179.37094 43 'point symmetry operation' ? ? 0.5 -0.309017 0.809017 0.309017 -0.809017 -0.5 0.809017 0.5 -0.309017 0.73233 359.54939 -1.18494 44 'point symmetry operation' ? ? 0.309017 0.809017 0.5 0.809017 -0.5 0.309017 0.5 0.309017 -0.809017 -110.79554 69.03769 178.36117 45 'point symmetry operation' ? ? 0.809017 -0.5 0.309017 -0.5 -0.309017 0.809017 -0.309017 -0.809017 -0.5 69.03399 180.73333 469.88634 46 'point symmetry operation' ? ? -0.5 -0.309017 0.809017 0.309017 0.809017 0.5 -0.809017 0.5 -0.309017 180.72963 -110.79184 290.05681 47 'point symmetry operation' ? ? 0.5 -0.309017 0.809017 -0.309017 0.809017 0.5 -0.809017 -0.5 0.309017 0.73233 0.45261 359.37194 48 'point symmetry operation' ? ? 0 0 1 1 0 0 0 1 0 0.9038 0.0037 -0.9075 49 'point symmetry operation' ? ? 0.5 0.309017 0.809017 -0.309017 -0.809017 0.5 0.809017 -0.5 -0.309017 -110.5144 291.70034 178.81606 50 'point symmetry operation' ? ? 0 1 0 0 0 1 1 0 0 -0.0037 0.9075 -0.9038 51 'point symmetry operation' ? ? 0.809017 -0.5 -0.309017 0.5 0.309017 0.809017 -0.309017 -0.809017 0.5 179.71986 -110.5107 290.79284 52 'point symmetry operation' ? ? -0.809017 -0.5 0.309017 0.5 -0.309017 0.809017 -0.309017 0.809017 0.5 360.27574 0.73603 -0.45489 53 'point symmetry operation' ? ? 0.309017 -0.809017 0.5 0.809017 0.5 0.309017 -0.5 0.309017 0.809017 180.45219 -110.96331 68.5791 54 'point symmetry operation' ? ? -0.5 0.309017 0.809017 0.309017 -0.809017 0.5 0.809017 0.5 0.309017 69.4829 180.45589 -111.87081 55 'point symmetry operation' ? ? 0.809017 0.5 0.309017 -0.5 0.309017 0.809017 0.309017 -0.809017 0.5 -110.96701 69.4866 179.54839 56 'point symmetry operation' ? ? 0.309017 0.809017 -0.5 -0.809017 0.5 0.309017 0.5 0.309017 0.809017 68.29796 180.27844 -111.4182 57 'point symmetry operation' ? ? 0.309017 -0.809017 -0.5 0.809017 0.5 -0.309017 0.5 -0.309017 0.809017 359.54569 -0.27744 -0.17147 58 'point symmetry operation' ? ? -1 0 0 0 -1 0 0 0 1 359.9946 360.002 0 59 'point symmetry operation' ? ? -0.309017 -0.809017 0.5 0.809017 -0.5 -0.309017 0.5 0.309017 0.809017 291.69664 179.72356 -111.4182 60 'point symmetry operation' ? ? -0.309017 0.809017 0.5 -0.809017 -0.5 0.309017 0.5 -0.309017 0.809017 0.44891 360.27944 -0.17147 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C18 H37 N O2' _chem_comp.formula_weight 299.492 _chem_comp.id SQS _chem_comp.mon_nstd_flag . _chem_comp.name (2S,3R,4E)-2-aminooctadec-4-ene-1,3-diol _chem_comp.type non-polymer _chem_comp.pdbx_synonyms D-Sphingosine # 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 O1 C1 SQS sing 288 n n C1 C2 SQS sing 289 n n N2 C2 SQS sing 290 n n C2 C3 SQS sing 291 n n O3 C3 SQS sing 292 n n C3 C4 SQS sing 293 n n C4 C5 SQS doub 294 e n C5 C6 SQS sing 295 n n C6 C7 SQS sing 296 n n C7 C8 SQS sing 297 n n C8 C9 SQS sing 298 n n C9 C10 SQS sing 299 n n C10 C11 SQS sing 300 n n C11 C12 SQS sing 301 n n C12 C13 SQS sing 302 n n C18 C17 SQS sing 303 n n C13 C14 SQS sing 304 n n C17 C16 SQS sing 305 n n C16 C15 SQS sing 306 n n C14 C15 SQS sing 307 n n C4 H1 SQS sing 308 n n C5 H2 SQS sing 309 n n C6 H3 SQS sing 310 n n C6 H4 SQS sing 311 n n C7 H5 SQS sing 312 n n C7 H6 SQS sing 313 n n C8 H7 SQS sing 314 n n C8 H8 SQS sing 315 n n C10 H9 SQS sing 316 n n C10 H10 SQS sing 317 n n C13 H11 SQS sing 318 n n C13 H12 SQS sing 319 n n C15 H13 SQS sing 320 n n C15 H14 SQS sing 321 n n C17 H15 SQS sing 322 n n C17 H16 SQS sing 323 n n O3 H17 SQS sing 324 n n C3 H18 SQS sing 325 n n C2 H19 SQS sing 326 n n N2 H20 SQS sing 327 n n N2 H21 SQS sing 328 n n C1 H23 SQS sing 329 n n C1 H24 SQS sing 330 n n O1 H25 SQS sing 331 n n C9 H26 SQS sing 332 n n C9 H27 SQS sing 333 n n C11 H28 SQS sing 334 n n C11 H29 SQS sing 335 n n C12 H30 SQS sing 336 n n C12 H31 SQS sing 337 n n C14 H32 SQS sing 338 n n C14 H33 SQS sing 339 n n C16 H34 SQS sing 340 n n C16 H35 SQS sing 341 n n C18 H36 SQS sing 342 n n C18 H37 SQS sing 343 n n C18 H38 SQS sing 344 n n # _atom_sites.entry_id 8C6D _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 # _pdbx_nonpoly_scheme.asym_id D _pdbx_nonpoly_scheme.entity_id 4 _pdbx_nonpoly_scheme.mon_id SQS _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 401 _pdbx_nonpoly_scheme.auth_seq_num 401 _pdbx_nonpoly_scheme.pdb_mon_id SQS _pdbx_nonpoly_scheme.auth_mon_id SQS _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C4 SQS . . . D 4 174.992 215.791 301.638 1 6.02 ? C4 SQS 401 A 1 HETATM 2 C C5 SQS . . . D 4 175.308 216.314 300.384 1 6.02 ? C5 SQS 401 A 1 HETATM 3 C C6 SQS . . . D 4 175.717 217.759 300.176 1 6.02 ? C6 SQS 401 A 1 HETATM 4 C C7 SQS . . . D 4 176.074 218.025 298.656 1 6.02 ? C7 SQS 401 A 1 HETATM 5 C C8 SQS . . . D 4 176.502 219.509 298.32 1 6.02 ? C8 SQS 401 A 1 HETATM 6 C C10 SQS . . . D 4 178.955 220.465 298.666 1 6.02 ? C10 SQS 401 A 1 HETATM 7 C C13 SQS . . . D 4 181.315 223.713 298.467 1 6.02 ? C13 SQS 401 A 1 HETATM 8 C C15 SQS . . . D 4 182.166 226.104 297.727 1 6.02 ? C15 SQS 401 A 1 HETATM 9 C C17 SQS . . . D 4 183.684 228.233 297.511 1 6.02 ? C17 SQS 401 A 1 HETATM 10 O O3 SQS . . . D 4 173.818 217.453 302.855 1 6.02 ? O3 SQS 401 A 1 HETATM 11 C C3 SQS . . . D 4 175.043 216.653 302.898 1 6.02 ? C3 SQS 401 A 1 HETATM 12 C C2 SQS . . . D 4 175.028 215.693 304.185 1 6.02 ? C2 SQS 401 A 1 HETATM 13 N N2 SQS . . . D 4 175.628 216.298 305.387 1 6.02 ? N2 SQS 401 A 1 HETATM 14 C C1 SQS . . . D 4 173.552 215.252 304.471 1 6.02 ? C1 SQS 401 A 1 HETATM 15 O O1 SQS . . . D 4 173.724 214.054 305.344 1 6.02 ? O1 SQS 401 A 1 HETATM 16 C C9 SQS . . . D 4 177.959 219.678 297.726 1 6.02 ? C9 SQS 401 A 1 HETATM 17 C C11 SQS . . . D 4 179.816 221.603 298.021 1 6.02 ? C11 SQS 401 A 1 HETATM 18 C C12 SQS . . . D 4 180.02 222.914 298.849 1 6.02 ? C12 SQS 401 A 1 HETATM 19 C C14 SQS . . . D 4 181.255 225.265 298.691 1 6.02 ? C14 SQS 401 A 1 HETATM 20 C C16 SQS . . . D 4 183.09 227.147 298.439 1 6.02 ? C16 SQS 401 A 1 HETATM 21 C C18 SQS . . . D 4 185.062 227.878 296.925 1 6.02 ? C18 SQS 401 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 21 #