data_YSS # _chem_comp.id YSS _chem_comp.name "15R-methyl-prostaglandin D2" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H34 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "(5Z,13E,15R,16E)-9alpha,15-dihydroxy-15-methyl-11-oxo-12alpha-prosta-5,13,16-trien-1-oic acid" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-03-31 _chem_comp.pdbx_modified_date 2021-08-20 _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 366.492 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YSS _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 7M8W _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 YSS C10 C1 C 0 1 N N N -6.791 -58.022 540.768 -0.210 -4.673 -0.493 C10 YSS 1 YSS C13 C2 C 0 1 N N N -7.842 -56.243 543.887 -1.648 -1.860 0.173 C13 YSS 2 YSS C15 C3 C 0 1 N N R -8.502 -54.452 545.459 -3.427 -0.222 0.511 C15 YSS 3 YSS C17 C4 C 0 1 N N N -7.899 -54.451 548.059 -4.552 1.934 -0.059 C17 YSS 4 YSS C20 C5 C 0 1 N N N -5.131 -55.063 549.534 -5.455 5.571 -0.945 C20 YSS 5 YSS C21 C6 C 0 1 N N N -9.455 -53.278 545.227 -4.404 -0.352 1.681 C21 YSS 6 YSS C01 C7 C 0 1 N N N -2.084 -58.713 547.656 5.353 3.484 0.721 C01 YSS 7 YSS C02 C8 C 0 1 N N N -3.566 -59.190 547.592 4.055 2.780 0.422 C02 YSS 8 YSS C03 C9 C 0 1 N N N -4.509 -58.303 546.761 4.320 1.591 -0.504 C03 YSS 9 YSS C04 C10 C 0 1 N N N -5.954 -58.873 546.573 3.002 0.877 -0.808 C04 YSS 10 YSS C05 C11 C 0 1 N N N -6.120 -60.183 545.879 3.264 -0.294 -1.719 C05 YSS 11 YSS C06 C12 C 0 1 N N N -6.891 -60.594 544.814 2.825 -1.486 -1.398 C06 YSS 12 YSS C07 C13 C 0 1 N N N -7.779 -59.576 544.184 1.916 -1.658 -0.208 C07 YSS 13 YSS C08 C14 C 0 1 N N R -7.018 -58.636 543.186 0.649 -2.401 -0.638 C08 YSS 14 YSS C09 C15 C 0 1 N N S -6.789 -59.240 541.747 0.992 -3.855 -1.029 C09 YSS 15 YSS C11 C16 C 0 1 N N N -7.179 -56.895 541.602 -0.536 -3.977 0.824 C11 YSS 16 YSS C12 C17 C 0 1 N N R -7.737 -57.331 542.887 -0.334 -2.499 0.542 C12 YSS 17 YSS C14 C18 C 0 1 N N N -8.860 -55.437 544.321 -2.113 -0.861 0.880 C14 YSS 18 YSS C16 C19 C 0 1 N N N -8.627 -55.120 546.864 -3.204 1.258 0.194 C16 YSS 19 YSS C18 C20 C 0 1 N N N -7.718 -55.334 549.331 -4.329 3.414 -0.375 C18 YSS 20 YSS C19 C21 C 0 1 N N N -6.342 -56.018 549.495 -5.678 4.091 -0.629 C19 YSS 21 YSS O1 O1 O 0 1 N N N -1.163 -59.571 547.817 5.363 4.563 1.519 O1 YSS 22 YSS O2 O2 O 0 1 N N N -1.843 -57.481 547.540 6.385 3.077 0.242 O2 YSS 23 YSS O3 O3 O 0 1 N N N -7.855 -60.106 541.448 2.204 -4.272 -0.397 O3 YSS 24 YSS O4 O4 O 0 1 N N N -7.054 -55.679 541.253 -0.880 -4.490 1.862 O4 YSS 25 YSS O5 O5 O 0 1 N N N -7.147 -54.047 545.239 -3.969 -0.878 -0.637 O5 YSS 26 YSS H1 H1 H 0 1 N N N -7.517 -58.175 539.956 -1.054 -4.613 -1.181 H1 YSS 27 YSS H2 H2 H 0 1 N N N -5.790 -57.864 540.340 0.076 -5.710 -0.321 H2 YSS 28 YSS H3 H3 H 0 1 N N N -6.906 -56.040 544.385 -2.207 -2.227 -0.676 H3 YSS 29 YSS H4 H4 H 0 1 N N N -6.899 -54.146 547.716 -5.047 1.453 -0.903 H4 YSS 30 YSS H5 H5 H 0 1 N N N -4.206 -55.647 549.653 -4.830 5.663 -1.833 H5 YSS 31 YSS H6 H6 H 0 1 N N N -5.085 -54.491 548.596 -6.416 6.053 -1.126 H6 YSS 32 YSS H7 H7 H 0 1 N N N -5.238 -54.370 550.381 -4.960 6.052 -0.101 H7 YSS 33 YSS H8 H8 H 0 1 N N N -9.282 -52.508 545.993 -5.354 0.109 1.413 H8 YSS 34 YSS H9 H9 H 0 1 N N N -9.274 -52.850 544.230 -4.563 -1.407 1.906 H9 YSS 35 YSS H10 H10 H 0 1 N N N -10.495 -53.632 545.291 -3.991 0.148 2.556 H10 YSS 36 YSS H11 H11 H 0 1 N N N -3.955 -59.229 548.620 3.612 2.424 1.352 H11 YSS 37 YSS H12 H12 H 0 1 N N N -3.579 -60.200 547.157 3.369 3.474 -0.065 H12 YSS 38 YSS H13 H13 H 0 1 N N N -4.062 -58.169 545.765 4.763 1.947 -1.434 H13 YSS 39 YSS H14 H14 H 0 1 N N N -4.589 -57.327 547.261 5.006 0.898 -0.017 H14 YSS 40 YSS H15 H15 H 0 1 N N N -6.525 -58.128 546.000 2.559 0.521 0.123 H15 YSS 41 YSS H16 H16 H 0 1 N N N -6.394 -58.979 547.576 2.316 1.570 -1.294 H16 YSS 42 YSS H17 H17 H 0 1 N N N -5.511 -60.971 546.297 3.813 -0.151 -2.638 H17 YSS 43 YSS H18 H18 H 0 1 N N N -6.854 -61.610 544.451 3.114 -2.345 -1.985 H18 YSS 44 YSS H19 H19 H 0 1 N N N -8.223 -58.958 544.978 2.430 -2.233 0.562 H19 YSS 45 YSS H20 H20 H 0 1 N N N -8.577 -60.098 543.635 1.646 -0.679 0.188 H20 YSS 46 YSS H21 H21 H 0 1 N N N -6.033 -58.405 543.618 0.180 -1.888 -1.477 H21 YSS 47 YSS H22 H22 H 0 1 N N N -5.815 -59.750 541.709 1.070 -3.953 -2.111 H22 YSS 48 YSS H23 H23 H 0 1 N N N -8.775 -57.625 542.670 0.086 -2.007 1.419 H23 YSS 49 YSS H24 H24 H 0 1 N N N -9.851 -55.486 543.895 -1.554 -0.494 1.729 H24 YSS 50 YSS H25 H25 H 0 1 N N N -9.698 -55.158 547.114 -2.709 1.739 1.038 H25 YSS 51 YSS H26 H26 H 0 1 N N N -7.882 -54.694 550.210 -3.834 3.896 0.468 H26 YSS 52 YSS H27 H27 H 0 1 N N N -8.484 -56.123 549.304 -3.704 3.506 -1.264 H27 YSS 53 YSS H28 H28 H 0 1 N N N -6.356 -56.588 550.436 -6.303 3.999 0.259 H28 YSS 54 YSS H29 H29 H 0 1 N N N -6.203 -56.709 548.650 -6.173 3.610 -1.473 H29 YSS 55 YSS H30 H30 H 0 1 N N N -0.320 -59.133 547.831 6.220 4.981 1.681 H30 YSS 56 YSS H31 H31 H 0 1 N N N -7.844 -60.842 542.049 2.432 -5.198 -0.556 H31 YSS 57 YSS H32 H32 H 0 1 N N N -6.884 -53.438 545.919 -3.401 -0.836 -1.419 H32 YSS 58 YSS H33 H33 H 0 1 N N N -8.475 -53.560 548.348 -5.177 1.843 0.829 H33 YSS 59 YSS H34 H34 H 0 1 N N N -8.235 -56.144 546.775 -2.579 1.349 -0.694 H34 YSS 60 # # 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 YSS C10 C11 SING N N 1 YSS C10 C09 SING N N 2 YSS O4 C11 DOUB N N 3 YSS O3 C09 SING N N 4 YSS C11 C12 SING N N 5 YSS C09 C08 SING N N 6 YSS C12 C08 SING N N 7 YSS C12 C13 SING N N 8 YSS C08 C07 SING N N 9 YSS C13 C14 DOUB N E 10 YSS C07 C06 SING N N 11 YSS C14 C15 SING N N 12 YSS C06 C05 DOUB N Z 13 YSS C21 C15 SING N N 14 YSS O5 C15 SING N N 15 YSS C15 C16 SING N N 16 YSS C05 C04 SING N N 17 YSS C04 C03 SING N N 18 YSS C03 C02 SING N N 19 YSS C16 C17 SING N N 20 YSS O2 C01 DOUB N N 21 YSS C02 C01 SING N N 22 YSS C01 O1 SING N N 23 YSS C17 C18 SING N N 24 YSS C18 C19 SING N N 25 YSS C19 C20 SING N N 26 YSS C10 H1 SING N N 27 YSS C10 H2 SING N N 28 YSS C13 H3 SING N N 29 YSS C17 H4 SING N N 30 YSS C20 H5 SING N N 31 YSS C20 H6 SING N N 32 YSS C20 H7 SING N N 33 YSS C21 H8 SING N N 34 YSS C21 H9 SING N N 35 YSS C21 H10 SING N N 36 YSS C02 H11 SING N N 37 YSS C02 H12 SING N N 38 YSS C03 H13 SING N N 39 YSS C03 H14 SING N N 40 YSS C04 H15 SING N N 41 YSS C04 H16 SING N N 42 YSS C05 H17 SING N N 43 YSS C06 H18 SING N N 44 YSS C07 H19 SING N N 45 YSS C07 H20 SING N N 46 YSS C08 H21 SING N N 47 YSS C09 H22 SING N N 48 YSS C12 H23 SING N N 49 YSS C14 H24 SING N N 50 YSS C16 H25 SING N N 51 YSS C18 H26 SING N N 52 YSS C18 H27 SING N N 53 YSS C19 H28 SING N N 54 YSS C19 H29 SING N N 55 YSS O1 H30 SING N N 56 YSS O3 H31 SING N N 57 YSS O5 H32 SING N N 58 YSS C17 H33 SING N N 59 YSS C16 H34 SING N N 60 # # 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 YSS SMILES ACDLabs 12.01 "OC1CC(=O)C(/C=C/C(C)(O)CCCCC)C1C\C=C/CCCC(=O)O" YSS InChI InChI 1.03 "InChI=1S/C21H34O5/c1-3-4-9-13-21(2,26)14-12-17-16(18(22)15-19(17)23)10-7-5-6-8-11-20(24)25/h5,7,12,14,16-18,22,26H,3-4,6,8-11,13,15H2,1-2H3,(H,24,25)/b7-5-,14-12+/t16-,17-,18+,21-/m1/s1" YSS InChIKey InChI 1.03 CTXLUMAOXBULOZ-BKVRKCTKSA-N YSS SMILES_CANONICAL CACTVS 3.385 "CCCCC[C@@](C)(O)/C=C/[C@@H]1[C@@H](C\C=C/CCCC(O)=O)[C@@H](O)CC1=O" YSS SMILES CACTVS 3.385 "CCCCC[C](C)(O)C=C[CH]1[CH](CC=CCCCC(O)=O)[CH](O)CC1=O" YSS SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCCC[C@](C)(/C=C/[C@@H]1[C@H]([C@H](CC1=O)O)C/C=C\CCCC(=O)O)O" YSS SMILES "OpenEye OEToolkits" 2.0.7 "CCCCCC(C)(C=CC1C(C(CC1=O)O)CC=CCCCC(=O)O)O" # # 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 YSS "SYSTEMATIC NAME" ACDLabs 12.01 "(5Z,13E,15R)-9alpha,15-dihydroxy-15-methyl-11-oxo-12alpha-prosta-5,13-dien-1-oic acid" YSS "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(~{Z})-7-[(1~{R},2~{R},5~{S})-2-[(~{E},3~{R})-3-methyl-3-oxidanyl-oct-1-enyl]-5-oxidanyl-3-oxidanylidene-cyclopentyl]hept-5-enoic acid" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id YSS _pdbx_chem_comp_synonyms.name "(5Z,13E,15R,16E)-9alpha,15-dihydroxy-15-methyl-11-oxo-12alpha-prosta-5,13,16-trien-1-oic acid" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YSS "Create component" 2021-03-31 RCSB YSS "Initial release" 2021-08-25 RCSB ##