data_S1P # _chem_comp.id S1P _chem_comp.name "(2S,3R,4E)-2-amino-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H38 N O5 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "sphingosine 1-phosphate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-07-14 _chem_comp.pdbx_modified_date 2020-06-17 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 379.472 _chem_comp.one_letter_code ? _chem_comp.three_letter_code S1P _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 3I9G _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal S1P C1 C1 C 0 1 N N N 1.176 14.756 38.557 -6.232 0.235 -0.103 C1 S1P 1 S1P O1 O1 O 0 1 N N N 2.576 15.024 38.468 -6.676 -1.041 0.364 O1 S1P 2 S1P C2 C2 C 0 1 N N S 0.688 14.320 37.182 -4.845 0.533 0.470 C2 S1P 3 S1P N2 N2 N 0 1 N N N 1.387 13.099 36.758 -4.935 0.664 1.930 N2 S1P 4 S1P C3 C3 C 0 1 N N R 0.926 15.438 36.154 -4.317 1.839 -0.127 C3 S1P 5 S1P O3 O3 O 0 1 N N N 0.042 16.520 36.452 -4.228 1.712 -1.548 O3 S1P 6 S1P C4 C4 C 0 1 N N N 0.619 14.958 34.749 -2.950 2.133 0.437 C4 S1P 7 S1P C5 C5 C 0 1 N N N 1.576 15.002 33.828 -1.937 2.329 -0.370 C5 S1P 8 S1P C6 C6 C 0 1 N N N 1.297 14.528 32.422 -0.571 2.622 0.194 C6 S1P 9 S1P C7 C7 C 0 1 N N N 1.727 15.648 31.470 0.438 1.615 -0.362 C7 S1P 10 S1P C8 C8 C 0 1 N N N 0.517 16.100 30.691 1.825 1.913 0.210 C8 S1P 11 S1P C9 C9 C 0 1 N N N -0.211 17.316 31.203 2.833 0.905 -0.345 C9 S1P 12 S1P C10 C10 C 0 1 N N N -0.685 18.029 29.949 4.221 1.204 0.227 C10 S1P 13 S1P C11 C11 C 0 1 N N N -2.190 17.987 29.693 5.229 0.196 -0.329 C11 S1P 14 S1P C12 C12 C 0 1 N N N -2.461 18.528 28.287 6.616 0.494 0.244 C12 S1P 15 S1P C13 C13 C 0 1 N N N -3.474 19.662 28.391 7.625 -0.513 -0.312 C13 S1P 16 S1P C14 C14 C 0 1 N N N -3.533 20.629 27.190 9.012 -0.215 0.260 C14 S1P 17 S1P C15 C15 C 0 1 N N N -2.735 21.920 27.414 10.020 -1.223 -0.295 C15 S1P 18 S1P C16 C16 C 0 1 N N N -3.160 22.741 28.632 11.407 -0.924 0.277 C16 S1P 19 S1P C17 C17 C 0 1 N N N -2.258 23.951 28.796 12.416 -1.932 -0.279 C17 S1P 20 S1P C18 C18 C 0 1 N N N -2.816 24.962 29.780 13.803 -1.634 0.294 C18 S1P 21 S1P P22 P22 P 0 1 N N N 3.627 14.289 39.455 -8.098 -1.677 -0.041 P22 S1P 22 S1P O23 O23 O 0 1 N N N 3.053 14.337 40.809 -8.123 -1.972 -1.624 O23 S1P 23 S1P O24 O24 O 0 1 N N N 4.897 15.019 39.186 -8.320 -3.052 0.765 O24 S1P 24 S1P O25 O25 O 0 1 N N N 3.775 12.880 38.888 -9.179 -0.725 0.300 O25 S1P 25 S1P H1 H1 H 0 1 N N N 0.640 15.663 38.874 -6.181 0.226 -1.191 H1 S1P 26 S1P H1A H1A H 0 1 N N N 0.993 13.957 39.290 -6.932 1.004 0.222 H1A S1P 27 S1P H2 H2 H 0 1 N N N -0.391 14.113 37.244 -4.165 -0.282 0.219 H2 S1P 28 S1P HN2 HN2 H 0 1 N N N 1.058 12.823 35.855 -4.022 0.797 2.339 HN2 S1P 29 S1P HN2A HN2A H 0 0 N N N 2.370 13.276 36.715 -5.560 1.413 2.188 HN2A S1P 30 S1P H3 H3 H 0 1 N N N 1.980 15.747 36.207 -4.996 2.654 0.123 H3 S1P 31 S1P HO3 HO3 H 0 1 N N N 0.176 17.221 35.825 -3.639 1.004 -1.844 HO3 S1P 32 S1P H4 H4 H 0 1 N N N -0.364 14.586 34.500 -2.806 2.182 1.506 H4 S1P 33 S1P H5 H5 H 0 1 N N N 2.555 15.378 34.086 -2.081 2.280 -1.439 H5 S1P 34 S1P H6 H6 H 0 1 N N N 1.866 13.611 32.211 -0.270 3.631 -0.089 H6 S1P 35 S1P H6A H6A H 0 1 N N N 0.225 14.315 32.299 -0.601 2.544 1.280 H6A S1P 36 S1P H7 H7 H 0 1 N N N 2.137 16.491 32.046 0.137 0.606 -0.079 H7 S1P 37 S1P H7A H7A H 0 1 N N N 2.498 15.276 30.779 0.469 1.693 -1.449 H7A S1P 38 S1P H8 H8 H 0 1 N N N 0.859 16.334 29.672 2.126 2.922 -0.073 H8 S1P 39 S1P H8A H8A H 0 1 N N N -0.201 15.267 30.699 1.794 1.834 1.297 H8A S1P 40 S1P H9 H9 H 0 1 N N N -1.059 17.031 31.843 2.533 -0.103 -0.062 H9 S1P 41 S1P H9A H9A H 0 1 N N N 0.456 17.958 31.797 2.864 0.984 -1.432 H9A S1P 42 S1P H10 H10 H 0 1 N N N -0.395 19.086 30.041 4.521 2.212 -0.056 H10 S1P 43 S1P H10A H10A H 0 0 N N N -0.191 17.551 29.091 4.190 1.125 1.314 H10A S1P 44 S1P H11 H11 H 0 1 N N N -2.552 16.951 29.769 4.928 -0.813 -0.046 H11 S1P 45 S1P H11A H11A H 0 0 N N N -2.711 18.607 30.437 5.260 0.275 -1.416 H11A S1P 46 S1P H12 H12 H 0 1 N N N -1.526 18.903 27.846 6.917 1.503 -0.039 H12 S1P 47 S1P H12A H12A H 0 0 N N N -2.864 17.726 27.651 6.585 0.416 1.330 H12A S1P 48 S1P H13 H13 H 0 1 N N N -4.469 19.204 28.493 7.324 -1.522 -0.029 H13 S1P 49 S1P H13A H13A H 0 0 N N N -3.211 20.257 29.278 7.655 -0.435 -1.399 H13A S1P 50 S1P H14 H14 H 0 1 N N N -3.116 20.114 26.312 9.312 0.794 -0.023 H14 S1P 51 S1P H14A H14A H 0 0 N N N -4.585 20.900 27.017 8.981 -0.294 1.347 H14A S1P 52 S1P H15 H15 H 0 1 N N N -1.680 21.640 27.552 9.720 -2.231 -0.012 H15 S1P 53 S1P H15A H15A H 0 0 N N N -2.866 22.552 26.523 10.051 -1.144 -1.382 H15A S1P 54 S1P H16 H16 H 0 1 N N N -4.197 23.080 28.495 11.708 0.084 -0.006 H16 S1P 55 S1P H16A H16A H 0 0 N N N -3.090 22.114 29.533 11.377 -1.003 1.364 H16A S1P 56 S1P H17 H17 H 0 1 N N N -1.280 23.609 29.165 12.115 -2.941 0.004 H17 S1P 57 S1P H17A H17A H 0 0 N N N -2.150 24.441 27.817 12.447 -1.854 -1.365 H17A S1P 58 S1P H18 H18 H 0 1 N N N -2.126 25.815 29.861 14.104 -0.625 0.011 H18 S1P 59 S1P H18A H18A H 0 0 N N N -3.796 25.315 29.426 13.772 -1.712 1.380 H18A S1P 60 S1P H18B H18B H 0 0 N N N -2.931 24.489 30.766 14.521 -2.352 -0.102 H18B S1P 61 S1P HO23 HO23 H 0 0 N N N 2.868 13.454 41.106 -7.440 -2.589 -1.919 HO23 S1P 62 S1P HO24 HO24 H 0 0 N N N 5.501 14.446 38.728 -9.159 -3.492 0.569 HO24 S1P 63 # # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal S1P C2 C1 SING N N 1 S1P O1 C1 SING N N 2 S1P C1 H1 SING N N 3 S1P C1 H1A SING N N 4 S1P O1 P22 SING N N 5 S1P C3 C2 SING N N 6 S1P N2 C2 SING N N 7 S1P C2 H2 SING N N 8 S1P N2 HN2 SING N N 9 S1P N2 HN2A SING N N 10 S1P C4 C3 SING N N 11 S1P C3 O3 SING N N 12 S1P C3 H3 SING N N 13 S1P O3 HO3 SING N N 14 S1P C5 C4 DOUB N N 15 S1P C4 H4 SING N E 16 S1P C6 C5 SING N N 17 S1P C5 H5 SING N N 18 S1P C7 C6 SING N N 19 S1P C6 H6 SING N N 20 S1P C6 H6A SING N N 21 S1P C8 C7 SING N N 22 S1P C7 H7 SING N N 23 S1P C7 H7A SING N N 24 S1P C8 C9 SING N N 25 S1P C8 H8 SING N N 26 S1P C8 H8A SING N N 27 S1P C10 C9 SING N N 28 S1P C9 H9 SING N N 29 S1P C9 H9A SING N N 30 S1P C11 C10 SING N N 31 S1P C10 H10 SING N N 32 S1P C10 H10A SING N N 33 S1P C12 C11 SING N N 34 S1P C11 H11 SING N N 35 S1P C11 H11A SING N N 36 S1P C12 C13 SING N N 37 S1P C12 H12 SING N N 38 S1P C12 H12A SING N N 39 S1P C14 C13 SING N N 40 S1P C13 H13 SING N N 41 S1P C13 H13A SING N N 42 S1P C14 C15 SING N N 43 S1P C14 H14 SING N N 44 S1P C14 H14A SING N N 45 S1P C15 C16 SING N N 46 S1P C15 H15 SING N N 47 S1P C15 H15A SING N N 48 S1P C16 C17 SING N N 49 S1P C16 H16 SING N N 50 S1P C16 H16A SING N N 51 S1P C17 C18 SING N N 52 S1P C17 H17 SING N N 53 S1P C17 H17A SING N N 54 S1P C18 H18 SING N N 55 S1P C18 H18A SING N N 56 S1P C18 H18B SING N N 57 S1P O25 P22 DOUB N N 58 S1P O24 P22 SING N N 59 S1P P22 O23 SING N N 60 S1P O23 HO23 SING N N 61 S1P O24 HO24 SING N N 62 # # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor S1P SMILES ACDLabs 11.02 "O=P(OCC(N)C(O)/C=C/CCCCCCCCCCCCC)(O)O" S1P SMILES_CANONICAL CACTVS 3.352 "CCCCCCCCCCCCC\C=C\[C@@H](O)[C@@H](N)CO[P](O)(O)=O" S1P SMILES CACTVS 3.352 "CCCCCCCCCCCCCC=C[CH](O)[CH](N)CO[P](O)(O)=O" S1P SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CCCCCCCCCCCCC/C=C/[C@H]([C@H](COP(=O)(O)O)N)O" S1P SMILES "OpenEye OEToolkits" 1.7.0 "CCCCCCCCCCCCCC=CC(C(COP(=O)(O)O)N)O" S1P InChI InChI 1.03 "InChI=1S/C18H38NO5P/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-18(20)17(19)16-24-25(21,22)23/h14-15,17-18,20H,2-13,16,19H2,1H3,(H2,21,22,23)/b15-14+/t17-,18+/m0/s1" S1P InChIKey InChI 1.03 DUYSYHSSBDVJSM-KRWOKUGFSA-N # # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier S1P "SYSTEMATIC NAME" ACDLabs 11.02 "(2S,3R,4E)-2-amino-3-hydroxyoctadec-4-en-1-yl dihydrogen phosphate" S1P "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "[(E,2S,3R)-2-azanyl-3-hydroxy-octadec-4-enyl] dihydrogen phosphate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site S1P "Create component" 2009-07-14 RCSB S1P "Modify descriptor" 2011-06-04 RCSB S1P "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id S1P _pdbx_chem_comp_synonyms.name "sphingosine 1-phosphate" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##