data_XDO
# 
_chem_comp.id                                    XDO 
_chem_comp.name                                  "(1~{R},3~{S},5~{Z})-5-[(2~{E})-2-[(1~{S},3~{a}~{S},7~{a}~{S})-1,7~{a}-dimethyl-1-[6,6,6-tris(fluoranyl)-5-oxidanyl-5-(trifluoromethyl)hexa-1,3-diynyl]-2,3,3~{a},5,6,7-hexahydroinden-4-ylidene]ethylidene]-4-methylidene-cyclohexane-1,3-diol" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C27 H30 F6 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "Xe4MeCF3 analog" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-06 
_chem_comp.pdbx_modified_date                    2024-06-21 
_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                        516.516 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XDO 
_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        8P9W 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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.pdbx_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_atom_flag 
_chem_comp_atom.pdbx_c_terminal_atom_flag 
_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 
XDO C7  C1  C 0 1 N N N N N N -1.975 34.559 37.335 2.090  2.345  -2.504 C7  XDO 1  
XDO C8  C2  C 0 1 N N N N N N -1.156 33.285 37.531 0.999  2.996  -1.637 C8  XDO 2  
XDO C9  C3  C 0 1 N N S N N N 0.289  33.531 37.994 0.986  2.279  -0.307 C9  XDO 3  
XDO O1  O1  O 0 1 N N N N N N 3.584  40.674 38.194 5.024  -3.013 1.055  O1  XDO 4  
XDO C1  C4  C 0 1 N N S N N N 1.096  32.321 38.578 -0.078 2.664  0.709  C1  XDO 5  
XDO C5  C5  C 0 1 N N N N N N -0.528 35.707 38.961 3.398  1.982  -0.395 C5  XDO 6  
XDO C6  C6  C 0 1 N N N N N N -1.951 35.464 38.561 3.465  2.434  -1.846 C6  XDO 7  
XDO C4  C7  C 0 1 N N S N N N 0.194  34.418 39.267 2.315  2.620  0.424  C4  XDO 8  
XDO C3  C8  C 0 1 N N N N N N 1.588  34.328 39.913 2.056  2.020  1.808  C3  XDO 9  
XDO C2  C9  C 0 1 N N N N N N 2.194  32.998 39.409 0.585  2.435  2.092  C2  XDO 10 
XDO F5  F1  F 0 1 N N N N N N 5.448  29.875 31.628 -5.977 -0.983 2.351  F5  XDO 11 
XDO C26 C10 C 0 1 N N N N N N 5.240  30.148 32.914 -6.501 -0.835 1.062  C26 XDO 12 
XDO F3  F2  F 0 1 N N N N N N 6.374  29.893 33.566 -7.627 -1.653 0.920  F3  XDO 13 
XDO F4  F3  F 0 1 N N N N N N 5.001  31.457 33.002 -6.867 0.500  0.859  F4  XDO 14 
XDO C24 C11 C 0 1 N N N N N N 4.054  29.298 33.393 -5.445 -1.238 0.032  C24 XDO 15 
XDO O2  O2  O 0 1 N N N N N N 4.553  27.981 33.577 -5.072 -2.601 0.240  O2  XDO 16 
XDO C25 C12 C 0 1 N N N N N N 2.997  29.241 32.289 -6.019 -1.075 -1.377 C25 XDO 17 
XDO F2  F4  F 0 1 N N N N N N 2.767  30.456 31.787 -5.053 -1.444 -2.320 F2  XDO 18 
XDO F1  F5  F 0 1 N N N N N N 3.417  28.473 31.291 -7.144 -1.894 -1.519 F1  XDO 19 
XDO F   F6  F 0 1 N N N N N N 1.837  28.754 32.709 -6.384 0.260  -1.581 F   XDO 20 
XDO C23 C13 C 0 1 N N N N N N 3.436  29.920 34.568 -4.260 -0.377 0.181  C23 XDO 21 
XDO C22 C14 C 0 1 N N N N N N 2.958  30.498 35.510 -3.316 0.310  0.301  C22 XDO 22 
XDO C21 C15 C 0 1 N N N N N N 2.330  31.094 36.567 -2.208 1.116  0.440  C21 XDO 23 
XDO C20 C16 C 0 1 N N N N N N 1.772  31.610 37.493 -1.263 1.802  0.560  C20 XDO 24 
XDO C   C17 C 0 1 N N N N N N 0.218  31.305 39.337 -0.467 4.134  0.542  C   XDO 25 
XDO C10 C18 C 0 1 N N N N N N 1.077  34.235 36.883 0.933  0.769  -0.548 C10 XDO 26 
XDO C11 C19 C 0 1 N N N N N N 0.106  36.886 38.878 4.242  1.084  0.113  C11 XDO 27 
XDO C12 C20 C 0 1 N N N N N N -0.492 38.138 38.631 5.281  0.494  -0.734 C12 XDO 28 
XDO C13 C21 C 0 1 N N N N N N 0.128  39.337 38.460 6.135  -0.415 -0.220 C13 XDO 29 
XDO C18 C22 C 0 1 N N N N N N 1.580  39.417 38.274 6.055  -0.841 1.193  C18 XDO 30 
XDO C19 C23 C 0 1 N N N N N N 2.267  38.509 37.605 5.858  0.036  2.177  C19 XDO 31 
XDO C17 C24 C 0 1 N N S N N N 2.279  40.655 38.773 6.206  -2.324 1.468  C17 XDO 32 
XDO C16 C25 C 0 1 N N N N N N 1.533  41.904 38.339 7.410  -2.842 0.675  C16 XDO 33 
XDO C15 C26 C 0 1 N N R N N N 0.101  41.843 38.835 7.209  -2.560 -0.815 C15 XDO 34 
XDO O   O3  O 0 1 N N N N N N 0.116  41.766 40.257 8.261  -3.174 -1.561 O   XDO 35 
XDO C14 C27 C 0 1 N N N N N N -0.610 40.636 38.242 7.220  -1.053 -1.065 C14 XDO 36 
XDO H1  H1  H 0 1 N N N N N N -1.564 35.114 36.479 1.839  1.296  -2.662 H1  XDO 37 
XDO H2  H2  H 0 1 N N N N N N -3.018 34.279 37.124 2.124  2.850  -3.470 H2  XDO 38 
XDO H3  H3  H 0 1 N N N N N N -1.659 32.664 38.286 1.227  4.051  -1.486 H3  XDO 39 
XDO H4  H4  H 0 1 N N N N N N -1.124 32.744 36.574 0.029  2.893  -2.123 H4  XDO 40 
XDO H5  H5  H 0 1 N N N N N N 4.051  41.446 38.491 4.220  -2.721 1.507  H5  XDO 41 
XDO H6  H6  H 0 1 N N N N N N -2.435 36.422 38.321 4.164  1.798  -2.389 H6  XDO 42 
XDO H7  H7  H 0 1 N N N N N N -2.489 34.978 39.388 3.816  3.466  -1.885 H7  XDO 43 
XDO H8  H8  H 0 1 N N N N N N -0.472 33.866 39.947 2.461  3.698  0.483  H8  XDO 44 
XDO H9  H9  H 0 1 N N N N N N 2.212  35.178 39.599 2.154  0.935  1.783  H9  XDO 45 
XDO H10 H10 H 0 1 N N N N N N 1.503  34.320 41.010 2.732  2.451  2.547  H10 XDO 46 
XDO H11 H11 H 0 1 N N N N N N 2.477  32.361 40.259 0.562  3.356  2.675  H11 XDO 47 
XDO H12 H12 H 0 1 N N N N N N 3.079  33.193 38.786 0.069  1.639  2.629  H12 XDO 48 
XDO H13 H13 H 0 1 N N N N N N 5.214  27.985 34.259 -4.699 -2.778 1.115  H13 XDO 49 
XDO H14 H14 H 0 1 N N N N N N -0.304 31.814 40.161 -0.860 4.294  -0.462 H14 XDO 50 
XDO H15 H15 H 0 1 N N N N N N -0.521 30.872 38.647 -1.229 4.394  1.276  H15 XDO 51 
XDO H16 H16 H 0 1 N N N N N N 0.853  30.504 39.744 0.412  4.761  0.693  H16 XDO 52 
XDO H17 H17 H 0 1 N N N N N N 2.110  34.409 37.219 1.815  0.460  -1.109 H17 XDO 53 
XDO H18 H18 H 0 1 N N N N N N 1.086  33.603 35.983 0.910  0.250  0.410  H18 XDO 54 
XDO H19 H19 H 0 1 N N N N N N 0.600  35.199 36.650 0.036  0.523  -1.116 H19 XDO 55 
XDO H20 H20 H 0 1 N N N N N N 1.177  36.875 39.013 4.160  0.791  1.150  H20 XDO 56 
XDO H21 H21 H 0 1 N N N N N N -1.570 38.147 38.570 5.363  0.787  -1.770 H21 XDO 57 
XDO H22 H22 H 0 1 N N N N N N 3.321  38.657 37.420 5.754  1.087  1.951  H22 XDO 58 
XDO H23 H23 H 0 1 N N N N N N 1.775  37.618 37.243 5.804  -0.304 3.201  H23 XDO 59 
XDO H24 H24 H 0 1 N N N N N N 2.340  40.627 39.871 6.371  -2.484 2.534  H24 XDO 60 
XDO H25 H25 H 0 1 N N N N N N 2.029  42.791 38.761 8.314  -2.340 1.020  H25 XDO 61 
XDO H26 H26 H 0 1 N N N N N N 1.537  41.969 37.241 7.511  -3.916 0.830  H26 XDO 62 
XDO H27 H27 H 0 1 N N N N N N -0.424 42.755 38.513 6.251  -2.969 -1.135 H27 XDO 63 
XDO H28 H28 H 0 1 N N N N N N 0.563  42.526 40.611 8.199  -3.037 -2.516 H28 XDO 64 
XDO H29 H29 H 0 1 N N N N N N -0.723 40.795 37.159 7.027  -0.855 -2.119 H29 XDO 65 
XDO H30 H30 H 0 1 N N N N N N -1.604 40.554 38.706 8.191  -0.644 -0.786 H30 XDO 66 
# 
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 
XDO F1  C25 SING N N 1  
XDO F5  C26 SING N N 2  
XDO F2  C25 SING N N 3  
XDO C25 F   SING N N 4  
XDO C25 C24 SING N N 5  
XDO C26 F4  SING N N 6  
XDO C26 C24 SING N N 7  
XDO C26 F3  SING N N 8  
XDO C24 O2  SING N N 9  
XDO C24 C23 SING N N 10 
XDO C23 C22 TRIP N N 11 
XDO C22 C21 SING N N 12 
XDO C21 C20 TRIP N N 13 
XDO C10 C9  SING N N 14 
XDO C7  C8  SING N N 15 
XDO C7  C6  SING N N 16 
XDO C20 C1  SING N N 17 
XDO C8  C9  SING N N 18 
XDO C19 C18 DOUB N N 19 
XDO C9  C1  SING N N 20 
XDO C9  C4  SING N N 21 
XDO O1  C17 SING N N 22 
XDO C14 C13 SING N N 23 
XDO C14 C15 SING N N 24 
XDO C18 C13 SING N N 25 
XDO C18 C17 SING N N 26 
XDO C16 C17 SING N N 27 
XDO C16 C15 SING N N 28 
XDO C13 C12 DOUB N Z 29 
XDO C6  C5  SING N N 30 
XDO C1  C   SING N N 31 
XDO C1  C2  SING N N 32 
XDO C12 C11 SING N N 33 
XDO C15 O   SING N N 34 
XDO C11 C5  DOUB N E 35 
XDO C5  C4  SING N N 36 
XDO C4  C3  SING N N 37 
XDO C2  C3  SING N N 38 
XDO C7  H1  SING N N 39 
XDO C7  H2  SING N N 40 
XDO C8  H3  SING N N 41 
XDO C8  H4  SING N N 42 
XDO O1  H5  SING N N 43 
XDO C6  H6  SING N N 44 
XDO C6  H7  SING N N 45 
XDO C4  H8  SING N N 46 
XDO C3  H9  SING N N 47 
XDO C3  H10 SING N N 48 
XDO C2  H11 SING N N 49 
XDO C2  H12 SING N N 50 
XDO O2  H13 SING N N 51 
XDO C   H14 SING N N 52 
XDO C   H15 SING N N 53 
XDO C   H16 SING N N 54 
XDO C10 H17 SING N N 55 
XDO C10 H18 SING N N 56 
XDO C10 H19 SING N N 57 
XDO C11 H20 SING N N 58 
XDO C12 H21 SING N N 59 
XDO C19 H22 SING N N 60 
XDO C19 H23 SING N N 61 
XDO C17 H24 SING N N 62 
XDO C16 H25 SING N N 63 
XDO C16 H26 SING N N 64 
XDO C15 H27 SING N N 65 
XDO O   H28 SING N N 66 
XDO C14 H29 SING N N 67 
XDO C14 H30 SING N N 68 
# 
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 
XDO InChI            InChI                1.06  "InChI=1S/C27H30F6O3/c1-17-19(15-20(34)16-22(17)35)9-8-18-7-6-12-24(3)21(18)10-14-23(24,2)11-4-5-13-25(36,26(28,29)30)27(31,32)33/h8-9,20-22,34-36H,1,6-7,10,12,14-16H2,2-3H3/b18-8+,19-9-/t20-,21+,22+,23+,24+/m1/s1" 
XDO InChIKey         InChI                1.06  MVLLQZOKYYYEBT-ZUDXOIQDSA-N                                                                                                                                                                                            
XDO SMILES_CANONICAL CACTVS               3.385 "C[C@@]1(CC[C@H]2C(/CCC[C@]12C)=C/C=C\3C[C@@H](O)C[C@H](O)C\3=C)C#CC#CC(O)(C(F)(F)F)C(F)(F)F"                                                                                                                          
XDO SMILES           CACTVS               3.385 "C[C]1(CC[CH]2C(CCC[C]12C)=CC=C3C[CH](O)C[CH](O)C3=C)C#CC#CC(O)(C(F)(F)F)C(F)(F)F"                                                                                                                                     
XDO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@]1(CC[C@@H]\2[C@@]1(CCC/C2=C\C=C/3\C[C@H](C[C@@H](C3=C)O)O)C)C#CC#CC(C(F)(F)F)(C(F)(F)F)O"                                                                                                                       
XDO SMILES           "OpenEye OEToolkits" 2.0.7 "CC1(CCC2C1(CCCC2=CC=C3CC(CC(C3=C)O)O)C)C#CC#CC(C(F)(F)F)(C(F)(F)F)O"                                                                                                                                                  
# 
_pdbx_chem_comp_identifier.comp_id           XDO 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.7 
_pdbx_chem_comp_identifier.identifier        "(1~{R},3~{S},5~{Z})-5-[(2~{E})-2-[(1~{S},3~{a}~{S},7~{a}~{S})-1,7~{a}-dimethyl-1-[6,6,6-tris(fluoranyl)-5-oxidanyl-5-(trifluoromethyl)hexa-1,3-diynyl]-2,3,3~{a},5,6,7-hexahydroinden-4-ylidene]ethylidene]-4-methylidene-cyclohexane-1,3-diol" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
XDO "Create component" 2023-06-06 PDBE 
XDO "Initial release"  2024-06-26 RCSB 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      XDO 
_pdbx_chem_comp_synonyms.name         "Xe4MeCF3 analog" 
_pdbx_chem_comp_synonyms.provenance   AUTHOR 
_pdbx_chem_comp_synonyms.type         ? 
# 
