data_E9R # _chem_comp.id E9R _chem_comp.name "(2~{S})-6-[4-(hydroxymethyl)-3-oxidanyl-pyridin-1-ium-1-yl]-2-(phenylmethoxycarbonylamino)hexanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C20 H25 N2 O6" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2019-11-26 _chem_comp.pdbx_modified_date 2020-11-20 _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 389.422 _chem_comp.one_letter_code ? _chem_comp.three_letter_code E9R _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 6LCS _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # # 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.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 E9R N1 N1 N 1 1 Y N N -31.027 22.897 -18.078 -4.160 -0.576 -0.612 N1 E9R 1 E9R C2 C1 C 0 1 Y N N -33.457 21.704 -17.572 -6.766 -1.025 0.094 C2 E9R 2 E9R C4 C2 C 0 1 Y N N -31.081 21.572 -17.893 -4.421 -1.435 0.353 C4 E9R 3 E9R C8 C3 C 0 1 N N N -27.197 27.949 -21.910 1.780 3.690 0.650 C8 E9R 4 E9R N2 N2 N 0 1 N N N -26.973 27.246 -19.490 2.080 1.315 0.255 N2 E9R 5 E9R C6 C4 C 0 1 Y N N -33.377 23.078 -17.762 -6.447 -0.129 -0.914 C6 E9R 6 E9R O6 O1 O 0 1 N N N -26.767 29.504 -19.624 3.587 1.823 -1.294 O6 E9R 7 E9R C5 C5 C 0 1 Y N N -32.135 23.651 -18.018 -5.120 0.071 -1.244 C5 E9R 8 E9R C1 C6 C 0 1 N N N -34.791 21.044 -17.297 -8.201 -1.271 0.482 C1 E9R 9 E9R C10 C7 C 0 1 N N N -28.389 24.989 -19.817 -0.750 1.077 -0.540 C10 E9R 10 E9R C11 C8 C 0 1 N N N -29.745 24.318 -19.634 -2.206 0.819 -0.147 C11 E9R 11 E9R C12 C9 C 0 1 N N N -29.729 23.523 -18.336 -2.766 -0.329 -0.989 C12 E9R 12 E9R C18 C10 C 0 1 N N N -26.826 28.473 -18.977 3.227 1.073 -0.408 C18 E9R 13 E9R C3 C11 C 0 1 Y N N -32.296 20.948 -17.636 -5.729 -1.690 0.739 C3 E9R 14 E9R C7 C12 C 0 1 N N S -27.100 26.845 -20.896 1.266 2.483 -0.091 C7 E9R 15 E9R C9 C13 C 0 1 N N N -28.387 26.023 -20.936 -0.190 2.225 0.303 C9 E9R 16 E9R O1 O2 O 0 1 N N N -35.810 22.046 -17.221 -9.059 -0.466 -0.329 O1 E9R 17 E9R O2 O3 O 0 1 N N N -26.273 28.074 -22.743 2.729 3.586 1.391 O2 E9R 18 E9R O3 O4 O 0 1 N N N -32.339 19.599 -17.452 -5.993 -2.577 1.735 O3 E9R 19 E9R O4 O5 O 0 1 N N N -28.198 28.697 -21.883 1.184 4.882 0.486 O4 E9R 20 E9R O5 O6 O 0 1 N N N -26.722 28.601 -17.533 3.975 -0.001 -0.090 O5 E9R 21 E9R H1 H1 H 0 1 N N N -30.176 20.985 -17.944 -3.608 -1.946 0.847 H1 E9R 22 E9R H2 H2 H 0 1 N N N -27.000 26.500 -18.824 1.792 0.716 0.962 H2 E9R 23 E9R H3 H3 H 0 1 N N N -34.264 23.691 -17.712 -7.227 0.406 -1.436 H3 E9R 24 E9R H4 H4 H 0 1 N N N -32.062 24.718 -18.171 -4.865 0.767 -2.030 H4 E9R 25 E9R H5 H5 H 0 1 N N N -35.027 20.341 -18.110 -8.442 -2.323 0.333 H5 E9R 26 E9R H6 H6 H 0 1 N N N -34.741 20.498 -16.343 -8.344 -1.010 1.531 H6 E9R 27 E9R H7 H7 H 0 1 N N N -27.643 24.215 -20.052 -0.161 0.177 -0.365 H7 E9R 28 E9R H8 H8 H 0 1 N N N -28.115 25.489 -18.876 -0.701 1.344 -1.596 H8 E9R 29 E9R H9 H9 H 0 1 N N N -30.533 25.084 -19.588 -2.255 0.552 0.909 H9 E9R 30 E9R H10 H10 H 0 1 N N N -29.940 23.641 -20.479 -2.795 1.719 -0.322 H10 E9R 31 E9R H11 H11 H 0 1 N N N -28.961 22.739 -18.406 -2.177 -1.229 -0.814 H11 E9R 32 E9R H12 H12 H 0 1 N N N -29.487 24.201 -17.504 -2.717 -0.062 -2.045 H12 E9R 33 E9R H13 H13 H 0 1 N N N -26.258 26.189 -21.164 1.326 2.662 -1.164 H13 E9R 34 E9R H14 H14 H 0 1 N N N -29.250 26.694 -20.812 -0.779 3.125 0.127 H14 E9R 35 E9R H15 H15 H 0 1 N N N -28.459 25.509 -21.906 -0.239 1.958 1.358 H15 E9R 36 E9R H16 H16 H 0 1 N N N -36.648 21.633 -17.048 -10.000 -0.574 -0.134 H16 E9R 37 E9R H17 H17 H 0 1 N N N -33.235 19.330 -17.288 -6.021 -2.181 2.617 H17 E9R 38 E9R H18 H18 H 0 1 N N N -28.130 29.343 -22.576 1.549 5.627 0.983 H18 E9R 39 E9R C13 C14 C 0 1 N N N ? ? ? 5.199 -0.199 -0.846 C13 E9R 40 E9R C14 C15 C 0 1 Y N N ? ? ? 5.898 -1.440 -0.354 C14 E9R 41 E9R C15 C16 C 0 1 Y N N ? ? ? 5.617 -2.666 -0.929 C15 E9R 42 E9R C16 C17 C 0 1 Y N N ? ? ? 6.258 -3.804 -0.478 C16 E9R 43 E9R C17 C18 C 0 1 Y N N ? ? ? 7.181 -3.717 0.548 C17 E9R 44 E9R C19 C19 C 0 1 Y N N ? ? ? 7.462 -2.491 1.122 C19 E9R 45 E9R C20 C20 C 0 1 Y N N ? ? ? 6.824 -1.352 0.668 C20 E9R 46 E9R H19 H19 H 0 1 N N N ? ? ? 4.958 -0.313 -1.904 H19 E9R 47 E9R H20 H20 H 0 1 N N N ? ? ? 5.852 0.663 -0.713 H20 E9R 48 E9R H21 H21 H 0 1 N N N ? ? ? 4.897 -2.734 -1.731 H21 E9R 49 E9R H22 H22 H 0 1 N N N ? ? ? 6.039 -4.761 -0.927 H22 E9R 50 E9R H23 H23 H 0 1 N N N ? ? ? 7.681 -4.607 0.901 H23 E9R 51 E9R H24 H24 H 0 1 N N N ? ? ? 8.182 -2.424 1.924 H24 E9R 52 E9R H25 H25 H 0 1 N N N ? ? ? 7.044 -0.395 1.117 H25 E9R 53 # # 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 E9R O2 C8 DOUB N N 1 E9R C8 O4 SING N N 2 E9R C8 C7 SING N N 3 E9R C9 C7 SING N N 4 E9R C9 C10 SING N N 5 E9R C7 N2 SING N N 6 E9R C10 C11 SING N N 7 E9R C11 C12 SING N N 8 E9R O6 C18 DOUB N N 9 E9R N2 C18 SING N N 10 E9R C18 O5 SING N N 11 E9R C12 N1 SING N N 12 E9R N1 C5 DOUB Y N 13 E9R N1 C4 SING Y N 14 E9R C5 C6 SING Y N 15 E9R C4 C3 DOUB Y N 16 E9R C6 C2 DOUB Y N 17 E9R C3 C2 SING Y N 18 E9R C3 O3 SING N N 19 E9R C2 C1 SING N N 20 E9R C1 O1 SING N N 21 E9R C4 H1 SING N N 22 E9R N2 H2 SING N N 23 E9R C6 H3 SING N N 24 E9R C5 H4 SING N N 25 E9R C1 H5 SING N N 26 E9R C1 H6 SING N N 27 E9R C10 H7 SING N N 28 E9R C10 H8 SING N N 29 E9R C11 H9 SING N N 30 E9R C11 H10 SING N N 31 E9R C12 H11 SING N N 32 E9R C12 H12 SING N N 33 E9R C7 H13 SING N N 34 E9R C9 H14 SING N N 35 E9R C9 H15 SING N N 36 E9R O1 H16 SING N N 37 E9R O3 H17 SING N N 38 E9R O4 H18 SING N N 39 E9R O5 C13 SING N N 40 E9R C13 C14 SING N N 41 E9R C14 C15 SING Y N 42 E9R C15 C16 DOUB Y N 43 E9R C16 C17 SING Y N 44 E9R C17 C19 DOUB Y N 45 E9R C19 C20 SING Y N 46 E9R C20 C14 DOUB Y N 47 E9R C13 H19 SING N N 48 E9R C13 H20 SING N N 49 E9R C15 H21 SING N N 50 E9R C16 H22 SING N N 51 E9R C17 H23 SING N N 52 E9R C19 H24 SING N N 53 E9R C20 H25 SING N N 54 # # 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 E9R InChI InChI 1.03 "InChI=1S/C20H24N2O6/c23-13-16-9-11-22(12-18(16)24)10-5-4-8-17(19(25)26)21-20(27)28-14-15-6-2-1-3-7-15/h1-3,6-7,9,11-12,17,23H,4-5,8,10,13-14H2,(H2-,21,24,25,26,27)/p+1/t17-/m0/s1" E9R InChIKey InChI 1.03 MCKINXUETXTBTK-KRWDZBQOSA-O E9R SMILES_CANONICAL CACTVS 3.385 "OCc1cc[n+](CCCC[C@H](NC(=O)OCc2ccccc2)C(O)=O)cc1O" E9R SMILES CACTVS 3.385 "OCc1cc[n+](CCCC[CH](NC(=O)OCc2ccccc2)C(O)=O)cc1O" E9R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)COC(=O)N[C@@H](CCCC[n+]2ccc(c(c2)O)CO)C(=O)O" E9R SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)COC(=O)NC(CCCC[n+]2ccc(c(c2)O)CO)C(=O)O" # _pdbx_chem_comp_identifier.comp_id E9R _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 "(2~{S})-6-[4-(hydroxymethyl)-3-oxidanyl-pyridin-1-ium-1-yl]-2-(phenylmethoxycarbonylamino)hexanoic acid" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site E9R "Create component" 2019-11-26 PDBJ E9R "Initial release" 2020-11-25 RCSB ##