data_VPY # _chem_comp.id VPY _chem_comp.name "S-[(2R)-2,3-dihydroxypropyl] (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenethioate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H38 O3 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-09-02 _chem_comp.pdbx_modified_date 2021-03-05 _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 394.611 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VPY _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 7JZ5 _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 VPY S01 S1 S 0 1 N N N -11.498 6.233 4.299 6.358 0.049 -0.631 S01 VPY 1 VPY O01 O1 O 0 1 N N N -9.341 8.321 4.581 9.330 0.679 -0.733 O01 VPY 2 VPY O02 O2 O 0 1 N N N -10.955 5.386 6.720 5.055 0.119 1.555 O02 VPY 3 VPY O03 O3 O 0 1 N N N -6.727 7.953 4.773 10.292 3.349 -0.281 O03 VPY 4 VPY C01 C1 C 0 1 N N N -19.152 9.116 10.848 -8.570 2.236 0.075 C01 VPY 5 VPY C02 C2 C 0 1 N N N -17.885 8.360 10.465 -9.658 1.552 0.904 C02 VPY 6 VPY C03 C3 C 0 1 N N N -20.343 8.317 10.293 -7.996 1.240 -0.935 C03 VPY 7 VPY C04 C4 C 0 1 N N N -16.639 8.938 11.117 -10.231 2.548 1.914 C04 VPY 8 VPY C05 C5 C 0 1 N N N -13.508 7.045 7.168 3.054 -1.579 1.169 C05 VPY 9 VPY C06 C6 C 0 1 N N N -20.726 7.135 11.208 -6.924 1.914 -1.752 C06 VPY 10 VPY C07 C7 C 0 1 N N N -15.605 7.818 11.263 -11.319 1.863 2.744 C07 VPY 11 VPY C08 C8 C 0 1 N N N -15.008 7.235 7.459 1.989 -2.591 0.741 C08 VPY 12 VPY C09 C9 C 0 1 N N N -13.293 5.746 6.392 4.052 -1.376 0.028 C09 VPY 13 VPY C10 C10 C 0 1 N N N -21.362 6.034 10.802 -5.752 1.347 -1.891 C10 VPY 14 VPY C11 C11 C 0 1 N N N -15.763 7.406 6.148 1.006 -2.792 1.866 C11 VPY 15 VPY C12 C12 C 0 1 N N N -21.806 5.785 9.359 -5.532 -0.060 -1.396 C12 VPY 16 VPY C13 C13 C 0 1 N N R -8.921 7.001 4.841 8.470 1.765 -0.383 C13 VPY 17 VPY C14 C14 C 0 1 N N N -11.838 5.713 5.987 5.101 -0.379 0.450 C14 VPY 18 VPY C15 C15 C 0 1 N N N -9.730 6.051 3.987 7.266 1.231 0.396 C15 VPY 19 VPY C16 C16 C 0 1 N N N -16.935 6.859 5.877 -0.278 -2.647 1.647 C16 VPY 20 VPY C17 C17 C 0 1 N N N -17.750 5.984 6.831 -0.785 -2.454 0.242 C17 VPY 21 VPY C18 C18 C 0 1 N N N -7.451 6.790 4.475 9.237 2.764 0.486 C18 VPY 22 VPY C19 C19 C 0 1 N N N -21.640 4.293 9.035 -4.903 -0.884 -2.489 C19 VPY 23 VPY C20 C20 C 0 1 N N N -20.517 4.629 6.775 -3.254 -1.635 -0.852 C20 VPY 24 VPY C21 C21 C 0 1 N N N -18.054 4.622 6.191 -1.859 -3.470 -0.049 C21 VPY 25 VPY C22 C22 C 0 1 N N N -21.079 3.790 7.933 -3.800 -1.550 -2.254 C22 VPY 26 VPY C23 C23 C 0 1 N N N -19.246 4.037 6.178 -3.030 -3.079 -0.486 C23 VPY 27 VPY H37 H1 H 0 1 N N N -8.837 8.925 5.114 9.676 0.190 0.026 H37 VPY 28 VPY H38 H2 H 0 1 N N N -5.813 7.825 4.547 10.822 3.994 0.208 H38 VPY 29 VPY H01 H3 H 0 1 N N N -19.137 10.124 10.408 -8.998 3.086 -0.456 H01 VPY 30 VPY H02 H4 H 0 1 N N N -19.228 9.194 11.943 -7.774 2.584 0.734 H02 VPY 31 VPY H04 H5 H 0 1 N N N -17.992 7.311 10.779 -10.453 1.204 0.245 H04 VPY 32 VPY H03 H6 H 0 1 N N N -17.764 8.406 9.373 -9.229 0.702 1.436 H03 VPY 33 VPY H06 H7 H 0 1 N N N -21.209 8.989 10.201 -7.567 0.391 -0.404 H06 VPY 34 VPY H05 H8 H 0 1 N N N -20.076 7.925 9.301 -8.791 0.893 -1.595 H05 VPY 35 VPY H08 H9 H 0 1 N N N -16.229 9.742 10.488 -9.436 2.895 2.574 H08 VPY 36 VPY H07 H10 H 0 1 N N N -16.892 9.341 12.109 -10.660 3.398 1.383 H07 VPY 37 VPY H10 H11 H 0 1 N N N -12.954 6.999 8.117 2.577 -0.629 1.409 H10 VPY 38 VPY H09 H12 H 0 1 N N N -13.141 7.893 6.570 3.579 -1.954 2.048 H09 VPY 39 VPY H11 H13 H 0 1 N N N -20.460 7.204 12.253 -7.123 2.866 -2.224 H11 VPY 40 VPY H14 H14 H 0 1 N N N -14.695 8.218 11.734 -11.728 2.573 3.463 H14 VPY 41 VPY H16 H15 H 0 1 N N N -16.020 7.015 11.890 -12.115 1.516 2.085 H16 VPY 42 VPY H15 H16 H 0 1 N N N -15.358 7.416 10.270 -10.891 1.014 3.275 H15 VPY 43 VPY H12 H17 H 0 1 N N N -15.150 8.130 8.083 1.464 -2.216 -0.138 H12 VPY 44 VPY H13 H18 H 0 1 N N N -15.393 6.352 7.991 2.466 -3.541 0.502 H13 VPY 45 VPY H17 H19 H 0 1 N N N -13.935 5.728 5.499 4.529 -2.326 -0.212 H17 VPY 46 VPY H18 H20 H 0 1 N N N -13.528 4.881 7.030 3.528 -1.001 -0.851 H18 VPY 47 VPY H19 H21 H 0 1 N N N -21.576 5.272 11.537 -4.943 1.887 -2.360 H19 VPY 48 VPY H20 H22 H 0 1 N N N -15.308 8.019 5.384 1.360 -3.055 2.852 H20 VPY 49 VPY H22 H23 H 0 1 N N N -21.186 6.382 8.674 -4.872 -0.041 -0.529 H22 VPY 50 VPY H23 H24 H 0 1 N N N -22.861 6.072 9.243 -6.489 -0.499 -1.114 H23 VPY 51 VPY H21 H25 H 0 1 N N N -9.066 6.748 5.902 8.124 2.262 -1.289 H21 VPY 52 VPY H25 H26 H 0 1 N N N -9.430 5.018 4.217 6.610 2.059 0.664 H25 VPY 53 VPY H24 H27 H 0 1 N N N -9.530 6.263 2.926 7.612 0.734 1.303 H24 VPY 54 VPY H26 H28 H 0 1 N N N -17.353 7.046 4.899 -0.972 -2.667 2.474 H26 VPY 55 VPY H28 H29 H 0 1 N N N -17.177 5.828 7.757 -1.198 -1.450 0.139 H28 VPY 56 VPY H27 H30 H 0 1 N N N -18.697 6.492 7.067 0.037 -2.582 -0.463 H27 VPY 57 VPY H29 H31 H 0 1 N N N -7.368 6.571 3.400 9.658 2.247 1.348 H29 VPY 58 VPY H30 H32 H 0 1 N N N -7.046 5.947 5.054 8.559 3.546 0.826 H30 VPY 59 VPY H31 H33 H 0 1 N N N -22.010 3.587 9.764 -5.362 -0.927 -3.466 H31 VPY 60 VPY H33 H34 H 0 1 N N N -20.292 5.639 7.150 -2.309 -1.095 -0.797 H33 VPY 61 VPY H32 H35 H 0 1 N N N -21.280 4.693 5.985 -3.967 -1.190 -0.158 H32 VPY 62 VPY H34 H36 H 0 1 N N N -17.237 4.100 5.715 -1.663 -4.522 0.103 H34 VPY 63 VPY H35 H37 H 0 1 N N N -21.016 2.715 7.849 -3.281 -2.039 -3.066 H35 VPY 64 VPY H36 H38 H 0 1 N N N -19.320 3.067 5.708 -3.836 -3.793 -0.585 H36 VPY 65 # # 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 VPY C15 S01 SING N N 1 VPY C15 C13 SING N N 2 VPY S01 C14 SING N N 3 VPY C18 O03 SING N N 4 VPY C18 C13 SING N N 5 VPY O01 C13 SING N N 6 VPY C16 C11 DOUB N Z 7 VPY C16 C17 SING N N 8 VPY C14 C09 SING N N 9 VPY C14 O02 DOUB N N 10 VPY C11 C08 SING N N 11 VPY C23 C21 DOUB N Z 12 VPY C23 C20 SING N N 13 VPY C21 C17 SING N N 14 VPY C09 C05 SING N N 15 VPY C20 C22 SING N N 16 VPY C05 C08 SING N N 17 VPY C22 C19 DOUB N Z 18 VPY C19 C12 SING N N 19 VPY C12 C10 SING N N 20 VPY C03 C01 SING N N 21 VPY C03 C06 SING N N 22 VPY C02 C01 SING N N 23 VPY C02 C04 SING N N 24 VPY C10 C06 DOUB N Z 25 VPY C04 C07 SING N N 26 VPY O01 H37 SING N N 27 VPY O03 H38 SING N N 28 VPY C01 H01 SING N N 29 VPY C01 H02 SING N N 30 VPY C02 H04 SING N N 31 VPY C02 H03 SING N N 32 VPY C03 H06 SING N N 33 VPY C03 H05 SING N N 34 VPY C04 H08 SING N N 35 VPY C04 H07 SING N N 36 VPY C05 H10 SING N N 37 VPY C05 H09 SING N N 38 VPY C06 H11 SING N N 39 VPY C07 H14 SING N N 40 VPY C07 H16 SING N N 41 VPY C07 H15 SING N N 42 VPY C08 H12 SING N N 43 VPY C08 H13 SING N N 44 VPY C09 H17 SING N N 45 VPY C09 H18 SING N N 46 VPY C10 H19 SING N N 47 VPY C11 H20 SING N N 48 VPY C12 H22 SING N N 49 VPY C12 H23 SING N N 50 VPY C13 H21 SING N N 51 VPY C15 H25 SING N N 52 VPY C15 H24 SING N N 53 VPY C16 H26 SING N N 54 VPY C17 H28 SING N N 55 VPY C17 H27 SING N N 56 VPY C18 H29 SING N N 57 VPY C18 H30 SING N N 58 VPY C19 H31 SING N N 59 VPY C20 H33 SING N N 60 VPY C20 H32 SING N N 61 VPY C21 H34 SING N N 62 VPY C22 H35 SING N N 63 VPY C23 H36 SING N N 64 # # 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 VPY SMILES ACDLabs 12.01 "S(C(=O)CCC[C@H]=CC[C@H]=CCC=[C@H]C[C@H]=[C@H]CCCCC)CC(O)CO" VPY InChI InChI 1.03 "InChI=1S/C23H38O3S/c1-2-3-4-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-23(26)27-21-22(25)20-24/h6-7,9-10,12-13,15-16,22,24-25H,2-5,8,11,14,17-21H2,1H3/b7-6-,10-9-,13-12-,16-15-/t22-/m1/s1" VPY InChIKey InChI 1.03 UUOPRYPOAXYNLX-NZRYSPDRSA-N VPY SMILES_CANONICAL CACTVS 3.385 "CCCCC\C=C/C\C=C/C/C=C\C\C=C/CCCC(=O)SC[C@H](O)CO" VPY SMILES CACTVS 3.385 "CCCCCC=CCC=CCC=CCC=CCCCC(=O)SC[CH](O)CO" VPY SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCCC/C=C\C/C=C\C/C=C\C/C=C\CCCC(=O)SC[C@@H](CO)O" VPY SMILES "OpenEye OEToolkits" 2.0.7 "CCCCCC=CCC=CCC=CCC=CCCCC(=O)SCC(CO)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 VPY "SYSTEMATIC NAME" ACDLabs 12.01 "S-[(2R)-2,3-dihydroxypropyl] (5Z,8Z,11Z,14Z)-icosa-5,8,11,14-tetraenethioate" VPY "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "~{S}-[(2~{R})-2,3-bis(oxidanyl)propyl] (5~{Z},8~{Z},11~{Z},14~{Z})-icosa-5,8,11,14-tetraenethioate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VPY "Create component" 2020-09-02 RCSB VPY "Initial release" 2021-03-10 RCSB ##