data_XP3
# 
_chem_comp.id                                    XP3 
_chem_comp.name                                  "(5~{R})-2-(hydroxymethyl)-3-[(~{E})-non-3-enyl]-5-oxidanyl-cyclohex-2-en-1-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C16 H26 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-11-07 
_chem_comp.pdbx_modified_date                    2024-09-06 
_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                        266.376 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XP3 
_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        8X0V 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBC 
# 
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_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
XP3 C10  C1  C 0 1 N N N N N N -5.220  -19.992 -24.651 2.156  0.521  -0.743 C10  XP3 1  
XP3 C17  C2  C 0 1 N N R N N N -4.138  -20.469 -26.995 4.422  1.324  -0.065 C17  XP3 2  
XP3 C01  C3  C 0 1 N N N N N N -12.068 -20.398 -17.014 -8.245 -0.752 -0.502 C01  XP3 3  
XP3 C02  C4  C 0 1 N N N N N N -10.717 -19.814 -17.480 -6.765 -1.058 -0.260 C02  XP3 4  
XP3 C03  C5  C 0 1 N N N N N N -9.609  -20.891 -17.568 -6.017 0.244  0.033  C03  XP3 5  
XP3 C04  C6  C 0 1 N N N N N N -9.196  -21.168 -19.034 -4.537 -0.061 0.274  C04  XP3 6  
XP3 C05  C7  C 0 1 N N N N N N -7.676  -20.986 -19.263 -3.789 1.241  0.567  C05  XP3 7  
XP3 C06  C8  C 0 1 N N N N N N -7.126  -21.971 -20.323 -2.332 0.941  0.805  C06  XP3 8  
XP3 C07  C9  C 0 1 N N N N N N -6.975  -21.401 -21.525 -1.413 1.549  0.097  C07  XP3 9  
XP3 C08  C10 C 0 1 N N N N N N -6.574  -21.454 -23.023 0.045  1.249  0.335  C08  XP3 10 
XP3 C09  C11 C 0 1 N N N N N N -6.413  -20.048 -23.661 0.699  0.822  -0.980 C09  XP3 11 
XP3 C11  C12 C 0 1 N N N N N N -3.951  -19.246 -24.233 2.506  -0.729 -0.464 C11  XP3 12 
XP3 C12  C13 C 0 1 N N N N N N -4.038  -18.350 -22.983 1.451  -1.803 -0.405 C12  XP3 13 
XP3 C14  C14 C 0 1 N N N N N N -2.922  -18.900 -25.306 3.909  -1.074 -0.215 C14  XP3 14 
XP3 C16  C15 C 0 1 N N N N N N -3.164  -19.300 -26.767 4.960  -0.033 -0.542 C16  XP3 15 
XP3 C19  C16 C 0 1 N N N N N N -5.381  -20.527 -26.084 3.142  1.648  -0.838 C19  XP3 16 
XP3 O13  O1  O 0 1 N N N N N N -4.185  -17.022 -23.427 1.530  -2.480 0.852  O13  XP3 17 
XP3 O15  O2  O 0 1 N N N N N N -1.931  -18.320 -25.000 4.218  -2.156 0.238  O15  XP3 18 
XP3 O18  O3  O 0 1 N N N N N N -4.581  -20.425 -28.335 4.141  1.262  1.335  O18  XP3 19 
XP3 H171 H1  H 0 0 N N N N N N -3.574  -21.400 -26.837 5.166  2.098  -0.254 H171 XP3 20 
XP3 H012 H2  H 0 0 N N N N N N -12.819 -19.595 -16.968 -8.342 -0.078 -1.352 H012 XP3 21 
XP3 H011 H3  H 0 0 N N N N N N -12.399 -21.169 -17.725 -8.778 -1.680 -0.710 H011 XP3 22 
XP3 H013 H4  H 0 0 N N N N N N -11.949 -20.846 -16.016 -8.668 -0.282 0.386  H013 XP3 23 
XP3 H021 H5  H 0 0 N N N N N N -10.851 -19.363 -18.474 -6.667 -1.732 0.591  H021 XP3 24 
XP3 H022 H6  H 0 0 N N N N N N -10.401 -19.040 -16.765 -6.341 -1.528 -1.147 H022 XP3 25 
XP3 H032 H7  H 0 0 N N N N N N -8.728  -20.543 -17.009 -6.114 0.919  -0.818 H032 XP3 26 
XP3 H031 H8  H 0 0 N N N N N N -9.982  -21.824 -17.120 -6.440 0.715  0.920  H031 XP3 27 
XP3 H041 H9  H 0 0 N N N N N N -9.470  -22.202 -19.289 -4.439 -0.735 1.125  H041 XP3 28 
XP3 H042 H10 H 0 0 N N N N N N -9.738  -20.472 -19.691 -4.114 -0.531 -0.613 H042 XP3 29 
XP3 H051 H11 H 0 0 N N N N N N -7.489  -19.957 -19.604 -3.886 1.916  -0.283 H051 XP3 30 
XP3 H052 H12 H 0 0 N N N N N N -7.151  -21.158 -18.312 -4.212 1.712  1.454  H052 XP3 31 
XP3 H061 H13 H 0 0 N N N N N N -6.890  -23.004 -20.116 -2.044 0.223  1.560  H061 XP3 32 
XP3 H071 H14 H 0 0 N N N N N N -7.298  -20.381 -21.375 -1.700 2.267  -0.657 H071 XP3 33 
XP3 H082 H15 H 0 0 N N N N N N -5.617  -21.990 -23.110 0.542  2.141  0.716  H082 XP3 34 
XP3 H081 H16 H 0 0 N N N N N N -7.352  -22.002 -23.575 0.135  0.443  1.064  H081 XP3 35 
XP3 H091 H17 H 0 0 N N N N N N -7.336  -19.796 -24.203 0.608  1.627  -1.709 H091 XP3 36 
XP3 H092 H18 H 0 0 N N N N N N -6.245  -19.312 -22.861 0.201  -0.070 -1.361 H092 XP3 37 
XP3 H122 H19 H 0 0 N N N N N N -3.119  -18.447 -22.386 0.465  -1.351 -0.512 H122 XP3 38 
XP3 H121 H20 H 0 0 N N N N N N -4.905  -18.640 -22.372 1.613  -2.517 -1.212 H121 XP3 39 
XP3 H162 H21 H 0 0 N N N N N N -3.564  -18.421 -27.294 5.136  -0.005 -1.617 H162 XP3 40 
XP3 H161 H22 H 0 0 N N N N N N -2.194  -19.580 -27.204 5.887  -0.269 -0.019 H161 XP3 41 
XP3 H192 H23 H 0 0 N N N N N N -6.176  -19.942 -26.569 3.386  1.821  -1.885 H192 XP3 42 
XP3 H191 H24 H 0 0 N N N N N N -5.692  -21.580 -26.013 2.694  2.550  -0.422 H191 XP3 43 
XP3 H131 H25 H 0 0 N N N N N N -4.242  -16.441 -22.677 0.879  -3.186 0.960  H131 XP3 44 
XP3 H181 H26 H 0 0 N N N N N N -5.184  -21.141 -28.493 4.911  1.053  1.881  H181 XP3 45 
# 
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 
XP3 C02 C01  SING N N 1  
XP3 C03 C02  SING N N 2  
XP3 C04 C03  SING N N 3  
XP3 C05 C04  SING N N 4  
XP3 C06 C05  SING N N 5  
XP3 C07 C06  DOUB N E 6  
XP3 C08 C07  SING N N 7  
XP3 C09 C08  SING N N 8  
XP3 C10 C09  SING N N 9  
XP3 C11 C10  DOUB N N 10 
XP3 O13 C12  SING N N 11 
XP3 C12 C11  SING N N 12 
XP3 C14 C11  SING N N 13 
XP3 O15 C14  DOUB N N 14 
XP3 C16 C14  SING N N 15 
XP3 C17 C16  SING N N 16 
XP3 O18 C17  SING N N 17 
XP3 C19 C17  SING N N 18 
XP3 C10 C19  SING N N 19 
XP3 C17 H171 SING N N 20 
XP3 C01 H012 SING N N 21 
XP3 C01 H011 SING N N 22 
XP3 C01 H013 SING N N 23 
XP3 C02 H021 SING N N 24 
XP3 C02 H022 SING N N 25 
XP3 C03 H032 SING N N 26 
XP3 C03 H031 SING N N 27 
XP3 C04 H041 SING N N 28 
XP3 C04 H042 SING N N 29 
XP3 C05 H051 SING N N 30 
XP3 C05 H052 SING N N 31 
XP3 C06 H061 SING N N 32 
XP3 C07 H071 SING N N 33 
XP3 C08 H082 SING N N 34 
XP3 C08 H081 SING N N 35 
XP3 C09 H091 SING N N 36 
XP3 C09 H092 SING N N 37 
XP3 C12 H122 SING N N 38 
XP3 C12 H121 SING N N 39 
XP3 C16 H162 SING N N 40 
XP3 C16 H161 SING N N 41 
XP3 C19 H192 SING N N 42 
XP3 C19 H191 SING N N 43 
XP3 O13 H131 SING N N 44 
XP3 O18 H181 SING N N 45 
# 
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 
XP3 InChI            InChI                1.06  "InChI=1S/C16H26O3/c1-2-3-4-5-6-7-8-9-13-10-14(18)11-16(19)15(13)12-17/h6-7,14,17-18H,2-5,8-12H2,1H3" 
XP3 InChIKey         InChI                1.06  UIYPBPASYFNZQB-UHFFFAOYSA-N                                                                           
XP3 SMILES_CANONICAL CACTVS               3.385 "CCCCC/C=C/CCC1=C(CO)C(=O)C[C@H](O)C1"                                                                
XP3 SMILES           CACTVS               3.385 "CCCCCC=CCCC1=C(CO)C(=O)C[CH](O)C1"                                                                   
XP3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCCC/C=C/CCC1=C(C(=O)C[C@@H](C1)O)CO"                                                               
XP3 SMILES           "OpenEye OEToolkits" 2.0.7 "CCCCCC=CCCC1=C(C(=O)CC(C1)O)CO"                                                                      
# 
_pdbx_chem_comp_identifier.comp_id           XP3 
_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        "(5~{R})-2-(hydroxymethyl)-3-[(~{E})-non-3-enyl]-5-oxidanyl-cyclohex-2-en-1-one" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
XP3 "Create component" 2023-11-07 PDBC 
XP3 "Initial release"  2024-09-11 RCSB 
# 
