data_Y3H
# 
_chem_comp.id                                    Y3H 
_chem_comp.name                                  "~{O}3-~{tert}-butyl ~{O}1-prop-2-ynyl (1~{S},3~{S})-1-methyl-4-oxidanylidene-cyclohexane-1,3-dicarboxylate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C16 H22 O5" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-11-16 
_chem_comp.pdbx_modified_date                    2024-11-22 
_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                        294.343 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y3H 
_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        8R5F 
_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_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 
Y3H O   O1  O 0 1 N N N N N N -21.146 -36.074 24.071 -3.954 0.185  0.056  O   Y3H 1  
Y3H C1  C1  C 0 1 N N N N N N -25.009 -35.124 21.107 0.874  -1.682 -0.188 C1  Y3H 2  
Y3H C16 C2  C 0 1 N N N N N N -24.400 -32.764 21.653 2.249  0.340  0.146  C16 Y3H 3  
Y3H C17 C3  C 0 1 N N N N N N -24.890 -31.001 19.879 4.627  0.467  0.061  C17 Y3H 4  
Y3H C18 C4  C 0 1 N N N N N N -25.179 -32.032 18.786 4.641  0.679  -1.455 C18 Y3H 5  
Y3H C19 C5  C 0 1 N N N N N N -24.175 -29.821 19.233 5.853  -0.350 0.473  C19 Y3H 6  
Y3H C2  C6  C 0 1 N N S N N N -23.902 -34.117 21.208 0.954  -0.342 0.507  C2  Y3H 7  
Y3H C20 C7  C 0 1 N N N N N N -26.195 -30.522 20.501 4.659  1.825  0.765  C20 Y3H 8  
Y3H C21 C8  C 0 1 N N N N N N -21.156 -36.345 22.635 -2.699 0.641  -0.082 C21 Y3H 9  
Y3H C22 C9  C 0 1 N N N N N N -20.008 -36.282 24.913 -5.028 1.088  -0.319 C22 Y3H 10 
Y3H C23 C10 C 0 1 N N N N N N -18.760 -35.663 24.437 -6.324 0.425  -0.103 C23 Y3H 11 
Y3H C24 C11 C 0 1 N N N N N N -17.659 -35.144 24.061 -7.358 -0.104 0.068  C24 Y3H 12 
Y3H C3  C12 C 0 1 N N N N N N -22.822 -34.608 22.157 -0.227 0.519  0.046  C3  Y3H 13 
Y3H C4  C13 C 0 1 N N S N N N -22.371 -36.011 21.807 -1.533 -0.239 0.288  C4  Y3H 14 
Y3H C5  C14 C 0 1 N N N N N N -23.521 -36.983 22.057 -1.562 -1.507 -0.567 C5  Y3H 15 
Y3H C6  C15 C 0 1 N N N N N N -24.771 -36.622 21.253 -0.432 -2.444 -0.129 C6  Y3H 16 
Y3H C7  C16 C 0 1 N N N N N N -21.897 -36.094 20.365 -1.633 -0.621 1.766  C7  Y3H 17 
Y3H O1  O2  O 0 1 N N N N N N -20.177 -36.828 22.086 -2.504 1.757  -0.501 O1  Y3H 18 
Y3H O2  O3  O 0 1 N N N N N N -25.093 -32.670 22.653 2.232  1.413  -0.409 O2  Y3H 19 
Y3H O3  O4  O 0 1 N N N N N N -24.063 -31.531 20.934 3.421  -0.246 0.439  O3  Y3H 20 
Y3H O4  O5  O 0 1 N N N N N N -26.124 -34.701 20.869 1.826  -2.131 -0.780 O4  Y3H 21 
Y3H H1  H1  H 0 1 N N N N N N -25.696 -32.898 19.225 5.547  1.215  -1.738 H1  Y3H 22 
Y3H H2  H2  H 0 1 N N N N N N -25.816 -31.578 18.013 4.619  -0.288 -1.957 H2  Y3H 23 
Y3H H3  H3  H 0 1 N N N N N N -24.232 -32.362 18.334 3.768  1.261  -1.748 H3  Y3H 24 
Y3H H4  H4  H 0 1 N N N N N N -23.954 -29.062 19.998 5.843  -0.500 1.552  H4  Y3H 25 
Y3H H5  H5  H 0 1 N N N N N N -23.235 -30.167 18.778 5.831  -1.317 -0.029 H5  Y3H 26 
Y3H H6  H6  H 0 1 N N N N N N -24.819 -29.382 18.457 6.759  0.186  0.189  H6  Y3H 27 
Y3H H7  H7  H 0 1 N N N N N N -23.450 -34.003 20.211 0.906  -0.486 1.587  H7  Y3H 28 
Y3H H8  H8  H 0 1 N N N N N N -25.978 -29.782 21.285 4.649  1.674  1.845  H8  Y3H 29 
Y3H H9  H9  H 0 1 N N N N N N -26.823 -30.061 19.725 5.565  2.361  0.481  H9  Y3H 30 
Y3H H10 H10 H 0 1 N N N N N N -26.727 -31.378 20.942 3.785  2.407  0.472  H10 Y3H 31 
Y3H H11 H11 H 0 1 N N N N N N -20.238 -35.867 25.906 -4.975 1.989  0.292  H11 Y3H 32 
Y3H H12 H12 H 0 1 N N N N N N -19.840 -37.366 24.998 -4.927 1.356  -1.371 H12 Y3H 33 
Y3H H13 H13 H 0 1 N N N N N N -16.743 -34.712 23.748 -8.283 -0.577 0.222  H13 Y3H 34 
Y3H H14 H14 H 0 1 N N N N N N -21.958 -33.930 22.097 -0.238 1.452  0.609  H14 Y3H 35 
Y3H H15 H15 H 0 1 N N N N N N -23.220 -34.606 23.183 -0.124 0.737  -1.017 H15 Y3H 36 
Y3H H16 H16 H 0 1 N N N N N N -23.772 -36.966 23.128 -2.521 -2.010 -0.439 H16 Y3H 37 
Y3H H17 H17 H 0 1 N N N N N N -23.197 -37.995 21.772 -1.429 -1.242 -1.616 H17 Y3H 38 
Y3H H18 H18 H 0 1 N N N N N N -25.644 -37.063 21.757 -0.386 -3.302 -0.799 H18 Y3H 39 
Y3H H19 H19 H 0 1 N N N N N N -24.671 -37.055 20.247 -0.612 -2.782 0.891  H19 Y3H 40 
Y3H H20 H20 H 0 1 N N N N N N -21.070 -35.386 20.209 -0.793 -1.260 2.034  H20 Y3H 41 
Y3H H21 H21 H 0 1 N N N N N N -21.550 -37.116 20.151 -1.612 0.282  2.376  H21 Y3H 42 
Y3H H22 H22 H 0 1 N N N N N N -22.728 -35.840 19.691 -2.567 -1.156 1.941  H22 Y3H 43 
# 
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 
Y3H C18 C17 SING N N 1  
Y3H C19 C17 SING N N 2  
Y3H C17 C20 SING N N 3  
Y3H C17 O3  SING N N 4  
Y3H C7  C4  SING N N 5  
Y3H O4  C1  DOUB N N 6  
Y3H O3  C16 SING N N 7  
Y3H C1  C2  SING N N 8  
Y3H C1  C6  SING N N 9  
Y3H C2  C16 SING N N 10 
Y3H C2  C3  SING N N 11 
Y3H C6  C5  SING N N 12 
Y3H C16 O2  DOUB N N 13 
Y3H C4  C5  SING N N 14 
Y3H C4  C3  SING N N 15 
Y3H C4  C21 SING N N 16 
Y3H O1  C21 DOUB N N 17 
Y3H C21 O   SING N N 18 
Y3H C24 C23 TRIP N N 19 
Y3H O   C22 SING N N 20 
Y3H C23 C22 SING N N 21 
Y3H C18 H1  SING N N 22 
Y3H C18 H2  SING N N 23 
Y3H C18 H3  SING N N 24 
Y3H C19 H4  SING N N 25 
Y3H C19 H5  SING N N 26 
Y3H C19 H6  SING N N 27 
Y3H C2  H7  SING N N 28 
Y3H C20 H8  SING N N 29 
Y3H C20 H9  SING N N 30 
Y3H C20 H10 SING N N 31 
Y3H C22 H11 SING N N 32 
Y3H C22 H12 SING N N 33 
Y3H C24 H13 SING N N 34 
Y3H C3  H14 SING N N 35 
Y3H C3  H15 SING N N 36 
Y3H C5  H16 SING N N 37 
Y3H C5  H17 SING N N 38 
Y3H C6  H18 SING N N 39 
Y3H C6  H19 SING N N 40 
Y3H C7  H20 SING N N 41 
Y3H C7  H21 SING N N 42 
Y3H C7  H22 SING N N 43 
# 
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 
Y3H InChI            InChI                1.06  "InChI=1S/C16H22O5/c1-6-9-20-14(19)16(5)8-7-12(17)11(10-16)13(18)21-15(2,3)4/h1,11H,7-10H2,2-5H3/t11-,16-/m0/s1" 
Y3H InChIKey         InChI                1.06  VWWMPCGCVQSEOW-ZBEGNZNMSA-N                                                                                      
Y3H SMILES_CANONICAL CACTVS               3.385 "CC(C)(C)OC(=O)[C@H]1C[C@](C)(CCC1=O)C(=O)OCC#C"                                                                 
Y3H SMILES           CACTVS               3.385 "CC(C)(C)OC(=O)[CH]1C[C](C)(CCC1=O)C(=O)OCC#C"                                                                   
Y3H SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@]1(CCC(=O)[C@H](C1)C(=O)OC(C)(C)C)C(=O)OCC#C"                                                              
Y3H SMILES           "OpenEye OEToolkits" 2.0.7 "CC1(CCC(=O)C(C1)C(=O)OC(C)(C)C)C(=O)OCC#C"                                                                      
# 
_pdbx_chem_comp_identifier.comp_id           Y3H 
_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        "~{O}3-~{tert}-butyl ~{O}1-prop-2-ynyl (1~{S},3~{S})-1-methyl-4-oxidanylidene-cyclohexane-1,3-dicarboxylate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
Y3H "Create component" 2023-11-16 PDBE 
Y3H "Modify PCM"       2024-09-27 PDBE 
Y3H "Initial release"  2024-11-27 RCSB 
# 
loop_
_pdbx_chem_comp_pcm.pcm_id 
_pdbx_chem_comp_pcm.comp_id 
_pdbx_chem_comp_pcm.modified_residue_id 
_pdbx_chem_comp_pcm.type 
_pdbx_chem_comp_pcm.category 
_pdbx_chem_comp_pcm.position 
_pdbx_chem_comp_pcm.polypeptide_position 
_pdbx_chem_comp_pcm.comp_id_linking_atom 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession 
1 Y3H HIS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C3 NE2 ? ? 
2 Y3H CYS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C3 SG  ? ? 
# 
