data_D5R # _chem_comp.id D5R _chem_comp.name "~{O}3-~{tert}-butyl ~{O}1-methyl (1~{S},3~{R})-1-methyl-4-oxidanylidene-cyclohexane-1,3-dicarboxylate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C14 H22 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-07-17 _chem_comp.pdbx_modified_date 2024-09-27 _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 270.321 _chem_comp.one_letter_code ? _chem_comp.three_letter_code D5R _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 8PT5 _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 D5R C1 C1 C 0 1 N N N N N N -24.756 -30.654 21.853 -0.149 1.236 0.835 C1 D5R 1 D5R C2 C2 C 0 1 N N R N N N -23.745 -30.579 20.748 0.044 -0.013 0.004 C2 D5R 2 D5R C3 C3 C 0 1 N N N N N N -22.728 -31.714 20.878 -0.795 0.115 -1.271 C3 D5R 3 D5R C4 C4 C 0 1 N N S N N N -23.266 -33.057 21.377 -2.250 0.403 -0.895 C4 D5R 4 D5R C5 C5 C 0 1 N N N N N N -24.315 -32.950 22.477 -2.344 1.751 -0.180 C5 D5R 5 D5R C6 C6 C 0 1 N N N N N N -25.424 -31.970 22.145 -1.562 1.685 1.136 C6 D5R 6 D5R C20 C7 C 0 1 N N N N N N -23.915 -27.607 17.142 4.216 0.817 -0.621 C20 D5R 7 D5R C7 C8 C 0 1 N N N N N N -23.800 -33.898 20.222 -3.105 0.441 -2.164 C7 D5R 8 D5R C14 C9 C 0 1 N N N N N N -22.089 -33.770 21.983 -2.756 -0.685 0.017 C14 D5R 9 D5R C16 C10 C 0 1 N N N N N N -24.398 -30.589 19.391 1.499 -0.157 -0.361 C16 D5R 10 D5R C18 C11 C 0 1 N N N N N N -25.509 -27.971 19.011 4.706 -0.554 1.410 C18 D5R 11 D5R C15 C12 C 0 1 N N N N N N -21.991 -36.264 22.208 -4.434 -1.723 1.353 C15 D5R 12 D5R O3 O1 O 0 1 N N N N N N -23.940 -29.663 18.365 2.424 -0.285 0.604 O3 D5R 13 D5R C17 C13 C 0 1 N N N N N N -24.785 -28.634 17.852 3.806 -0.420 0.180 C17 D5R 14 D5R C19 C14 C 0 1 N N N N N N -25.792 -29.210 16.866 3.951 -1.666 -0.696 C19 D5R 15 D5R O4 O2 O 0 1 N N N N N N -25.026 -29.667 22.510 0.799 1.857 1.251 O4 D5R 16 D5R O1 O3 O 0 1 N N N N N N -21.480 -33.246 22.903 -2.027 -1.595 0.334 O1 D5R 17 D5R O2 O4 O 0 1 N N N N N N -25.302 -31.366 19.129 1.834 -0.158 -1.522 O2 D5R 18 D5R O O5 O 0 1 N N N N N N -21.661 -35.072 21.492 -4.015 -0.642 0.479 O D5R 19 D5R H1 H1 H 0 1 N N N N N N -23.199 -29.630 20.852 -0.282 -0.884 0.571 H1 D5R 20 D5R H2 H2 H 0 1 N N N N N N -22.283 -31.880 19.886 -0.409 0.933 -1.881 H2 D5R 21 D5R H3 H3 H 0 1 N N N N N N -21.947 -31.385 21.580 -0.743 -0.816 -1.836 H3 D5R 22 D5R H4 H4 H 0 1 N N N N N N -24.761 -33.943 22.634 -1.921 2.530 -0.815 H4 D5R 23 D5R H5 H5 H 0 1 N N N N N N -23.820 -32.619 23.402 -3.389 1.980 0.029 H5 D5R 24 D5R H6 H6 H 0 1 N N N N N N -26.109 -31.867 22.999 -2.039 0.968 1.805 H6 D5R 25 D5R H7 H7 H 0 1 N N N N N N -25.985 -32.315 21.264 -1.542 2.669 1.605 H7 D5R 26 D5R H8 H8 H 0 1 N N N N N N -23.186 -27.189 17.852 4.113 1.704 0.002 H8 D5R 27 D5R H9 H9 H 0 1 N N N N N N -23.381 -28.091 16.311 5.254 0.715 -0.940 H9 D5R 28 D5R H10 H10 H 0 1 N N N N N N -24.549 -26.798 16.749 3.575 0.912 -1.497 H10 D5R 29 D5R H11 H11 H 0 1 N N N N N N -24.179 -34.855 20.609 -3.044 -0.521 -2.672 H11 D5R 30 D5R H12 H12 H 0 1 N N N N N N -24.616 -33.356 19.721 -4.142 0.646 -1.896 H12 D5R 31 D5R H13 H13 H 0 1 N N N N N N -22.990 -34.089 19.502 -2.739 1.225 -2.825 H13 D5R 32 D5R H14 H14 H 0 1 N N N N N N -24.773 -27.559 19.716 4.603 0.334 2.033 H14 D5R 33 D5R H15 H15 H 0 1 N N N N N N -26.145 -27.159 18.629 4.414 -1.435 1.980 H15 D5R 34 D5R H16 H16 H 0 1 N N N N N N -26.134 -28.715 19.527 5.744 -0.655 1.091 H16 D5R 35 D5R H17 H17 H 0 1 N N N N N N -21.580 -37.136 21.678 -4.348 -2.672 0.824 H17 D5R 36 D5R H18 H18 H 0 1 N N N N N N -21.563 -36.214 23.220 -3.799 -1.741 2.238 H18 D5R 37 D5R H19 H19 H 0 1 N N N N N N -23.085 -36.359 22.277 -5.470 -1.566 1.653 H19 D5R 38 D5R H20 H20 H 0 1 N N N N N N -26.422 -29.953 17.377 4.988 -1.768 -1.015 H20 D5R 39 D5R H21 H21 H 0 1 N N N N N N -26.425 -28.400 16.473 3.658 -2.548 -0.125 H21 D5R 40 D5R H22 H22 H 0 1 N N N N N N -25.257 -29.693 16.035 3.309 -1.572 -1.572 H22 D5R 41 # 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 D5R C19 C17 SING N N 1 D5R C20 C17 SING N N 2 D5R C17 O3 SING N N 3 D5R C17 C18 SING N N 4 D5R O3 C16 SING N N 5 D5R O2 C16 DOUB N N 6 D5R C16 C2 SING N N 7 D5R C7 C4 SING N N 8 D5R C2 C3 SING N N 9 D5R C2 C1 SING N N 10 D5R C3 C4 SING N N 11 D5R C4 C14 SING N N 12 D5R C4 C5 SING N N 13 D5R O C14 SING N N 14 D5R O C15 SING N N 15 D5R C1 C6 SING N N 16 D5R C1 O4 DOUB N N 17 D5R C14 O1 DOUB N N 18 D5R C6 C5 SING N N 19 D5R C2 H1 SING N N 20 D5R C3 H2 SING N N 21 D5R C3 H3 SING N N 22 D5R C5 H4 SING N N 23 D5R C5 H5 SING N N 24 D5R C6 H6 SING N N 25 D5R C6 H7 SING N N 26 D5R C20 H8 SING N N 27 D5R C20 H9 SING N N 28 D5R C20 H10 SING N N 29 D5R C7 H11 SING N N 30 D5R C7 H12 SING N N 31 D5R C7 H13 SING N N 32 D5R C18 H14 SING N N 33 D5R C18 H15 SING N N 34 D5R C18 H16 SING N N 35 D5R C15 H17 SING N N 36 D5R C15 H18 SING N N 37 D5R C15 H19 SING N N 38 D5R C19 H20 SING N N 39 D5R C19 H21 SING N N 40 D5R C19 H22 SING N N 41 # 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 D5R InChI InChI 1.06 "InChI=1S/C14H22O5/c1-13(2,3)19-11(16)9-8-14(4,12(17)18-5)7-6-10(9)15/h9H,6-8H2,1-5H3/t9-,14+/m1/s1" D5R InChIKey InChI 1.06 KLZBEQAKBDGOQP-OTYXRUKQSA-N D5R SMILES_CANONICAL CACTVS 3.385 "COC(=O)[C@@]1(C)CCC(=O)[C@@H](C1)C(=O)OC(C)(C)C" D5R SMILES CACTVS 3.385 "COC(=O)[C]1(C)CCC(=O)[CH](C1)C(=O)OC(C)(C)C" D5R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@]1(CCC(=O)[C@@H](C1)C(=O)OC(C)(C)C)C(=O)OC" D5R SMILES "OpenEye OEToolkits" 2.0.7 "CC1(CCC(=O)C(C1)C(=O)OC(C)(C)C)C(=O)OC" # _pdbx_chem_comp_identifier.comp_id D5R _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-methyl (1~{S},3~{R})-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 D5R "Create component" 2023-07-17 PDBE D5R "Initial release" 2024-07-24 RCSB D5R "Modify PCM" 2024-09-27 PDBE # 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 D5R HIS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C3 NE2 ? ? 2 D5R CYS None "Covalent chemical modification" "Amino-acid side chain" "Any position" C3 SG ? ? #