data_WM6
# 
_chem_comp.id                                    WM6 
_chem_comp.name                                  "(4~{R},5~{S},6~{S})-4,5,6,15,17-pentakis(oxidanyl)-2,12-dioxabicyclo[12.4.0]octadeca-1(14),15,17-triene-7,13-dione" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C16 H20 O9" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-10-09 
_chem_comp.pdbx_modified_date                    2025-04-11 
_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                        356.325 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     WM6 
_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        8QRA 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_chem_comp.pdbx_pcm                              Y 
# 
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 
WM6 C15  C1  C 0 1 N N S N N N -10.922 14.244 42.742 -2.685 0.898  -0.500 C15  WM6 1  
WM6 C1   C2  C 0 1 N N R N N N -13.267 15.202 42.281 -1.225 2.697  0.459  C1   WM6 2  
WM6 C2   C3  C 0 1 N N N N N N -14.712 15.022 42.683 0.039  1.931  0.846  C2   WM6 3  
WM6 C3   C4  C 0 1 Y N N N N N -16.383 13.349 42.405 1.881  0.842  -0.190 C3   WM6 4  
WM6 C8   C5  C 0 1 Y N N N N N -16.875 12.260 41.678 2.028  -0.546 -0.019 C8   WM6 5  
WM6 C4   C6  C 0 1 Y N N N N N -17.197 14.034 43.289 3.001  1.654  -0.234 C4   WM6 6  
WM6 C5   C7  C 0 1 Y N N N N N -18.513 13.638 43.471 4.270  1.099  -0.130 C5   WM6 7  
WM6 C6   C8  C 0 1 Y N N N N N -19.036 12.565 42.768 4.426  -0.273 0.011  C6   WM6 8  
WM6 C7   C9  C 0 1 Y N N N N N -18.222 11.891 41.875 3.317  -1.099 0.060  C7   WM6 9  
WM6 C9   C10 C 0 1 N N N N N N -16.073 11.457 40.707 0.839  -1.399 0.093  C9   WM6 10 
WM6 C10  C11 C 0 1 N N N N N N -13.993 11.027 39.700 -0.258 -3.528 0.170  C10  WM6 11 
WM6 C11  C12 C 0 1 N N N N N N -12.550 11.474 39.801 -1.369 -3.047 -0.765 C11  WM6 12 
WM6 C12  C13 C 0 1 N N N N N N -11.891 11.267 41.160 -2.549 -2.536 0.067  C12  WM6 13 
WM6 C13  C14 C 0 1 N N N N N N -10.586 12.002 41.413 -3.405 -1.595 -0.781 C13  WM6 14 
WM6 C14  C15 C 0 1 N N N N N N -10.744 13.497 41.424 -3.546 -0.267 -0.080 C14  WM6 15 
WM6 C16  C16 C 0 1 N N S N N N -12.373 14.358 43.201 -2.472 1.843  0.681  C16  WM6 16 
WM6 O1   O1  O 0 1 N N N N N N -12.917 16.586 42.368 -1.142 3.085  -0.914 O1   WM6 17 
WM6 O2   O2  O 0 1 N N N N N N -15.096 13.729 42.209 0.646  1.385  -0.326 O2   WM6 18 
WM6 O3   O3  O 0 1 N N N N N N -19.296 14.327 44.353 5.362  1.903  -0.168 O3   WM6 19 
WM6 O4   O4  O 0 1 N N N N N N -18.727 10.832 41.206 3.487  -2.439 0.190  O4   WM6 20 
WM6 O5   O5  O 0 1 N N N N N N -16.531 10.552 40.061 -0.250 -0.889 0.275  O5   WM6 21 
WM6 O6   O6  O 0 1 N N N N N N -14.780 11.775 40.664 0.939  -2.736 -0.027 O6   WM6 22 
WM6 O7   O7  O 0 1 N N N N N N -10.725 14.134 40.391 -4.355 -0.139 0.805  O7   WM6 23 
WM6 O8   O8  O 0 1 N N N N N N -10.426 15.560 42.622 -3.344 1.600  -1.559 O8   WM6 24 
WM6 O9   O9  O 0 1 N N N N N N -12.413 14.933 44.512 -2.347 1.096  1.891  O9   WM6 25 
WM6 H15  H1  H 0 1 N N N N N N -10.359 13.706 43.519 -1.725 0.529  -0.856 H15  WM6 26 
WM6 H2   H2  H 0 1 N N N N N N -13.139 14.847 41.248 -1.296 3.600  1.074  H2   WM6 27 
WM6 H3   H3  H 0 1 N N N N N N -14.813 15.073 43.777 0.743  2.619  1.323  H3   WM6 28 
WM6 H4   H4  H 0 1 N N N N N N -15.337 15.800 42.220 -0.194 1.128  1.541  H4   WM6 29 
WM6 H5   H5  H 0 1 N N N N N N -16.807 14.878 43.838 2.887  2.721  -0.347 H5   WM6 30 
WM6 H7   H6  H 0 1 N N N N N N -20.062 12.260 42.914 5.416  -0.698 0.084  H7   WM6 31 
WM6 H9   H7  H 0 1 N N N N N N -14.064 9.951  39.919 -0.589 -3.440 1.204  H9   WM6 32 
WM6 H10  H8  H 0 1 N N N N N N -14.370 11.220 38.685 -0.038 -4.576 -0.045 H10  WM6 33 
WM6 H12  H9  H 0 1 N N N N N N -11.969 10.914 39.054 -0.996 -2.247 -1.402 H12  WM6 34 
WM6 H11  H10 H 0 1 N N N N N N -12.511 12.548 39.566 -1.704 -3.878 -1.389 H11  WM6 35 
WM6 H13  H11 H 0 1 N N N N N N -12.608 11.590 41.929 -3.154 -3.383 0.394  H13  WM6 36 
WM6 H121 H12 H 0 0 N N N N N N -11.693 10.191 41.272 -2.175 -2.003 0.941  H121 WM6 37 
WM6 H14  H13 H 0 1 N N N N N N -10.189 11.685 42.389 -2.932 -1.445 -1.751 H14  WM6 38 
WM6 H131 H14 H 0 0 N N N N N N -9.872  11.731 40.621 -4.394 -2.034 -0.922 H131 WM6 39 
WM6 H17  H15 H 0 1 N N N N N N -12.795 13.343 43.240 -3.342 2.504  0.767  H17  WM6 40 
WM6 H1   H16 H 0 1 N N N N N N -12.008 16.700 42.115 -0.388 3.656  -1.116 H1   WM6 41 
WM6 H6   H17 H 0 1 N N N N N N -20.165 13.944 44.372 5.645  2.223  0.699  H6   WM6 42 
WM6 H8   H18 H 0 1 N N N N N N -18.061 10.473 40.631 3.513  -2.745 1.107  H8   WM6 43 
WM6 H16  H19 H 0 1 N N N N N N -10.262 15.755 41.707 -3.512 1.061  -2.344 H16  WM6 44 
WM6 H18  H20 H 0 1 N N N N N N -11.865 14.424 45.098 -3.121 0.555  2.102  H18  WM6 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 
WM6 O1  C1   SING N N 1  
WM6 C1  C2   SING N N 2  
WM6 C1  C16  SING N N 3  
WM6 C2  O2   SING N N 4  
WM6 O2  C3   SING N N 5  
WM6 C3  C4   SING Y N 6  
WM6 C3  C8   DOUB Y N 7  
WM6 C4  C5   DOUB Y N 8  
WM6 C5  O3   SING N N 9  
WM6 C5  C6   SING Y N 10 
WM6 C6  C7   DOUB Y N 11 
WM6 C7  O4   SING N N 12 
WM6 C7  C8   SING Y N 13 
WM6 C8  C9   SING N N 14 
WM6 C9  O5   DOUB N N 15 
WM6 C9  O6   SING N N 16 
WM6 O6  C10  SING N N 17 
WM6 C10 C11  SING N N 18 
WM6 C11 C12  SING N N 19 
WM6 C12 C13  SING N N 20 
WM6 C13 C14  SING N N 21 
WM6 C14 O7   DOUB N N 22 
WM6 C14 C15  SING N N 23 
WM6 C15 O8   SING N N 24 
WM6 C15 C16  SING N N 25 
WM6 C16 O9   SING N N 26 
WM6 C15 H15  SING N N 27 
WM6 C1  H2   SING N N 28 
WM6 C2  H3   SING N N 29 
WM6 C2  H4   SING N N 30 
WM6 C4  H5   SING N N 31 
WM6 C6  H7   SING N N 32 
WM6 C10 H9   SING N N 33 
WM6 C10 H10  SING N N 34 
WM6 C11 H12  SING N N 35 
WM6 C11 H11  SING N N 36 
WM6 C12 H13  SING N N 37 
WM6 C12 H121 SING N N 38 
WM6 C13 H14  SING N N 39 
WM6 C13 H131 SING N N 40 
WM6 C16 H17  SING N N 41 
WM6 O1  H1   SING N N 42 
WM6 O3  H6   SING N N 43 
WM6 O4  H8   SING N N 44 
WM6 O8  H16  SING N N 45 
WM6 O9  H18  SING N N 46 
# 
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 
WM6 InChI            InChI                1.06  "InChI=1S/C16H20O9/c17-8-5-10(19)13-12(6-8)25-7-11(20)15(22)14(21)9(18)3-1-2-4-24-16(13)23/h5-6,11,14-15,17,19-22H,1-4,7H2/t11-,14+,15+/m1/s1" 
WM6 InChIKey         InChI                1.06  JTDNYLVWHABXBF-UGFHNGPFSA-N                                                                                                                    
WM6 SMILES_CANONICAL CACTVS               3.385 "O[C@@H]1COc2cc(O)cc(O)c2C(=O)OCCCCC(=O)[C@@H](O)[C@H]1O"                                                                                      
WM6 SMILES           CACTVS               3.385 "O[CH]1COc2cc(O)cc(O)c2C(=O)OCCCCC(=O)[CH](O)[CH]1O"                                                                                           
WM6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1c(cc2c(c1O)C(=O)OCCCCC(=O)[C@H]([C@H]([C@@H](CO2)O)O)O)O"                                                                                   
WM6 SMILES           "OpenEye OEToolkits" 2.0.7 "c1c(cc2c(c1O)C(=O)OCCCCC(=O)C(C(C(CO2)O)O)O)O"                                                                                                
# 
_pdbx_chem_comp_identifier.comp_id           WM6 
_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        "(4~{R},5~{S},6~{S})-4,5,6,15,17-pentakis(oxidanyl)-2,12-dioxabicyclo[12.4.0]octadeca-1(14),15,17-triene-7,13-dione" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
WM6 "Create component" 2023-10-09 PDBE 
WM6 "Modify PCM"       2024-09-27 PDBE 
WM6 "Initial release"  2025-04-16 RCSB 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            WM6 
_pdbx_chem_comp_pcm.modified_residue_id                CYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C12 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   SG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
