data_7LHV # _model_server_result.job_id vMoBmGGvaJ2lMtz7gH2u8Q _model_server_result.datetime_utc '2024-11-15 17:48:35' _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 7lhv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1001}' # _entry.id 7LHV # _exptl.entry_id 7LHV _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 379.472 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2S,3R,4E)-2-amino-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate' _entity.pdbx_number_of_molecules 4 _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 7LHV _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LHV _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 C N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C18 H38 N O5 P' _chem_comp.formula_weight 379.472 _chem_comp.id S1P _chem_comp.mon_nstd_flag . _chem_comp.name '(2S,3R,4E)-2-amino-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'sphingosine 1-phosphate' # 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 C2 C1 S1P sing 410 n n O1 C1 S1P sing 411 n n C1 H1 S1P sing 412 n n C1 H1A S1P sing 413 n n O1 P22 S1P sing 414 n n C3 C2 S1P sing 415 n n N2 C2 S1P sing 416 n n C2 H2 S1P sing 417 n n N2 HN2 S1P sing 418 n n N2 HN2A S1P sing 419 n n C4 C3 S1P sing 420 n n C3 O3 S1P sing 421 n n C3 H3 S1P sing 422 n n O3 HO3 S1P sing 423 n n C5 C4 S1P doub 424 n n C4 H4 S1P sing 425 e n C6 C5 S1P sing 426 n n C5 H5 S1P sing 427 n n C7 C6 S1P sing 428 n n C6 H6 S1P sing 429 n n C6 H6A S1P sing 430 n n C8 C7 S1P sing 431 n n C7 H7 S1P sing 432 n n C7 H7A S1P sing 433 n n C8 C9 S1P sing 434 n n C8 H8 S1P sing 435 n n C8 H8A S1P sing 436 n n C10 C9 S1P sing 437 n n C9 H9 S1P sing 438 n n C9 H9A S1P sing 439 n n C11 C10 S1P sing 440 n n C10 H10 S1P sing 441 n n C10 H10A S1P sing 442 n n C12 C11 S1P sing 443 n n C11 H11 S1P sing 444 n n C11 H11A S1P sing 445 n n C12 C13 S1P sing 446 n n C12 H12 S1P sing 447 n n C12 H12A S1P sing 448 n n C14 C13 S1P sing 449 n n C13 H13 S1P sing 450 n n C13 H13A S1P sing 451 n n C14 C15 S1P sing 452 n n C14 H14 S1P sing 453 n n C14 H14A S1P sing 454 n n C15 C16 S1P sing 455 n n C15 H15 S1P sing 456 n n C15 H15A S1P sing 457 n n C16 C17 S1P sing 458 n n C16 H16 S1P sing 459 n n C16 H16A S1P sing 460 n n C17 C18 S1P sing 461 n n C17 H17 S1P sing 462 n n C17 H17A S1P sing 463 n n C18 H18 S1P sing 464 n n C18 H18A S1P sing 465 n n C18 H18B S1P sing 466 n n O25 P22 S1P doub 467 n n O24 P22 S1P sing 468 n n P22 O23 S1P sing 469 n n O23 HO23 S1P sing 470 n n O24 HO24 S1P sing 471 n n # _atom_sites.entry_id 7LHV _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 C 2 S1P A 1 1001 1001 S1P S1P . D 3 SO4 A 1 1002 1 SO4 SO4 . E 4 LBN A 1 1003 701 LBN LBN . F 2 S1P A 1 1004 1001 S1P S1P . G 2 S1P B 1 1001 1001 S1P S1P . H 2 S1P B 1 1002 1001 S1P S1P . I 3 SO4 B 1 1003 1 SO4 SO4 . J 4 LBN B 1 1004 701 LBN LBN . K 5 HOH A 1 1101 2 HOH HOH . L 5 HOH B 1 1101 2 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 C C1 S1P . . . C 2 109.413 105.344 112.217 1 66.93 ? C1 S1P 1001 A 1 HETATM 2 O O1 S1P . . . C 2 109.855 105.695 113.538 1 66.93 ? O1 S1P 1001 A 1 HETATM 3 C C2 S1P . . . C 2 109.191 103.848 112.202 1 66.93 ? C2 S1P 1001 A 1 HETATM 4 N N2 S1P . . . C 2 109.871 103.166 113.311 1 66.93 ? N2 S1P 1001 A 1 HETATM 5 C C3 S1P . . . C 2 109.536 103.225 110.841 1 66.93 ? C3 S1P 1001 A 1 HETATM 6 O O3 S1P . . . C 2 108.41 102.419 110.517 1 66.93 ? O3 S1P 1001 A 1 HETATM 7 C C4 S1P . . . C 2 110.787 102.401 110.861 1 66.93 ? C4 S1P 1001 A 1 HETATM 8 C C5 S1P . . . C 2 111.321 101.778 109.824 1 66.93 ? C5 S1P 1001 A 1 HETATM 9 C C6 S1P . . . C 2 110.89 101.706 108.395 1 66.93 ? C6 S1P 1001 A 1 HETATM 10 C C7 S1P . . . C 2 110.94 100.304 107.781 1 66.93 ? C7 S1P 1001 A 1 HETATM 11 C C8 S1P . . . C 2 110.803 100.298 106.268 1 66.93 ? C8 S1P 1001 A 1 HETATM 12 C C9 S1P . . . C 2 110.957 98.94 105.613 1 66.93 ? C9 S1P 1001 A 1 HETATM 13 C C10 S1P . . . C 2 110.953 98.981 104.095 1 66.93 ? C10 S1P 1001 A 1 HETATM 14 C C11 S1P . . . C 2 112.291 98.71 103.44 1 66.93 ? C11 S1P 1001 A 1 HETATM 15 C C12 S1P . . . C 2 112.646 99.695 102.355 1 66.93 ? C12 S1P 1001 A 1 HETATM 16 C C13 S1P . . . C 2 114.1 99.73 101.975 1 66.93 ? C13 S1P 1001 A 1 HETATM 17 C C14 S1P . . . C 2 114.807 100.983 102.424 1 66.93 ? C14 S1P 1001 A 1 HETATM 18 C C15 S1P . . . C 2 115.644 101.67 101.369 1 66.93 ? C15 S1P 1001 A 1 HETATM 19 C C16 S1P . . . C 2 116.31 102.952 101.824 1 66.93 ? C16 S1P 1001 A 1 HETATM 20 C C17 S1P . . . C 2 115.895 104.22 101.115 1 66.93 ? C17 S1P 1001 A 1 HETATM 21 P P22 S1P . . . C 2 109.81 107.235 113.867 1 66.93 ? P22 S1P 1001 A 1 HETATM 22 O O23 S1P . . . C 2 111.126 107.602 114.559 1 66.93 -1 O23 S1P 1001 A 1 HETATM 23 O O24 S1P . . . C 2 109.722 107.918 112.524 1 66.93 ? O24 S1P 1001 A 1 HETATM 24 O O25 S1P . . . C 2 108.624 107.513 114.696 1 66.93 ? O25 S1P 1001 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 24 #