data_A1A5K # _chem_comp.id A1A5K _chem_comp.name "(3R,4R)-1-[2-(hydroxymethyl)-1-methyl-1H-1,3-benzimidazole-5-carbonyl]-4-methylpiperidine-3-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C17 H21 N3 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-09-09 _chem_comp.pdbx_modified_date 2025-06-06 _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 331.366 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1A5K _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 7HCM _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # 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 A1A5K N2 N1 N 0 1 Y N N N N N 14.877 6.694 3.598 -3.506 0.869 0.985 N2 A1A5K 1 A1A5K C3 C1 C 0 1 N N N N N N 14.973 -0.561 -0.983 2.048 1.565 -1.092 C3 A1A5K 2 A1A5K C6 C2 C 0 1 Y N N N N N 15.712 3.289 2.257 -0.475 -1.186 0.276 C6 A1A5K 3 A1A5K C9 C3 C 0 1 Y N N N N N 15.303 4.687 4.621 -3.171 -0.905 -0.311 C9 A1A5K 4 A1A5K C12 C4 C 0 1 Y N N N N N 14.793 6.781 4.918 -4.638 0.576 0.415 C12 A1A5K 5 A1A5K C14 C5 C 0 1 N N N N N N 15.026 5.384 7.018 -5.534 -1.138 -1.203 C14 A1A5K 6 A1A5K C17 C6 C 0 1 N N N N N N 12.440 -0.478 2.110 5.470 0.040 -0.294 C17 A1A5K 7 A1A5K C1 C7 C 0 1 N N N N N N 13.542 -2.334 0.089 3.851 2.374 0.437 C1 A1A5K 8 A1A5K C10 C8 C 0 1 Y N N N N N 15.194 5.375 3.383 -2.552 -0.009 0.580 C10 A1A5K 9 A1A5K C11 C9 C 0 1 Y N N N N N 15.402 4.665 2.191 -1.196 -0.156 0.871 C11 A1A5K 10 A1A5K C13 C10 C 0 1 N N N N N N 14.457 8.053 5.616 -5.928 1.327 0.621 C13 A1A5K 11 A1A5K C15 C11 C 0 1 N N N N N N 14.720 0.447 1.636 3.242 -0.465 0.675 C15 A1A5K 12 A1A5K C16 C12 C 0 1 N N R N N N 13.382 0.076 1.012 3.985 0.081 -0.548 C16 A1A5K 13 A1A5K C2 C13 C 0 1 N N R N N N 13.653 -0.833 -0.219 3.550 1.526 -0.801 C2 A1A5K 14 A1A5K C4 C14 C 0 1 N N N N N N 15.792 0.682 -0.586 1.282 1.035 0.125 C4 A1A5K 15 A1A5K C5 C15 C 0 1 N N N N N N 15.957 2.544 0.979 0.961 -1.349 0.578 C5 A1A5K 16 A1A5K C7 C16 C 0 1 Y N N N N N 15.820 2.644 3.514 -1.108 -2.069 -0.609 C7 A1A5K 17 A1A5K C8 C17 C 0 1 Y N N N N N 15.601 3.325 4.706 -2.434 -1.929 -0.896 C8 A1A5K 18 A1A5K N1 N2 N 0 1 N N N N N N 15.493 1.298 0.723 1.798 -0.299 0.464 N1 A1A5K 19 A1A5K N3 N3 N 0 1 Y N N N N N 15.028 5.631 5.588 -4.488 -0.509 -0.393 N3 A1A5K 20 A1A5K O1 O1 O 0 1 N N N N N N 16.610 3.112 0.115 1.389 -2.431 0.931 O1 A1A5K 21 A1A5K O2 O2 O 0 1 N N N N N N 15.442 8.414 6.549 -6.027 2.376 -0.345 O2 A1A5K 22 A1A5K O3 O3 O 0 1 N N N N N N 11.235 -0.179 2.020 6.115 1.062 -0.316 O3 A1A5K 23 A1A5K O4 O4 O 0 1 N N N N N N 12.906 -1.195 3.025 6.076 -1.131 -0.043 O4 A1A5K 24 A1A5K H6 H1 H 0 1 N N N N N N 14.720 -0.460 -2.049 1.743 2.591 -1.295 H6 A1A5K 25 A1A5K H7 H2 H 0 1 N N N N N N 15.620 -1.439 -0.841 1.829 0.941 -1.959 H7 A1A5K 26 A1A5K H18 H3 H 0 1 N N N N N N 14.774 6.313 7.551 -6.029 -1.913 -0.618 H18 A1A5K 27 A1A5K H17 H4 H 0 1 N N N N N N 14.280 4.611 7.255 -6.265 -0.386 -1.502 H17 A1A5K 28 A1A5K H16 H5 H 0 1 N N N N N N 16.023 5.040 7.332 -5.087 -1.584 -2.092 H16 A1A5K 29 A1A5K H4 H6 H 0 1 N N N N N N 12.605 -2.529 0.632 3.305 1.975 1.292 H4 A1A5K 30 A1A5K H3 H7 H 0 1 N N N N N N 13.546 -2.903 -0.853 4.921 2.346 0.644 H3 A1A5K 31 A1A5K H5 H8 H 0 1 N N N N N N 14.396 -2.645 0.708 3.542 3.403 0.256 H5 A1A5K 32 A1A5K H12 H9 H 0 1 N N N N N N 15.326 5.164 1.236 -0.710 0.525 1.553 H12 A1A5K 33 A1A5K H13 H10 H 0 1 N N N N N N 14.364 8.855 4.869 -6.769 0.644 0.502 H13 A1A5K 34 A1A5K H14 H11 H 0 1 N N N N N N 13.499 7.928 6.141 -5.944 1.754 1.624 H14 A1A5K 35 A1A5K H20 H12 H 0 1 N N N N N N 15.289 -0.471 1.845 3.473 -1.523 0.800 H20 A1A5K 36 A1A5K H19 H13 H 0 1 N N N N N N 14.543 0.991 2.576 3.549 0.084 1.565 H19 A1A5K 37 A1A5K H2 H14 H 0 1 N N N N N N 12.927 1.003 0.634 3.749 -0.529 -1.420 H2 A1A5K 38 A1A5K H1 H15 H 0 1 N N N N N N 12.846 -0.613 -0.933 4.095 1.925 -1.656 H1 A1A5K 39 A1A5K H8 H16 H 0 1 N N N N N N 16.853 0.391 -0.580 1.428 1.708 0.970 H8 A1A5K 40 A1A5K H9 H17 H 0 1 N N N N N N 15.626 1.448 -1.358 0.221 0.967 -0.112 H9 A1A5K 41 A1A5K H10 H18 H 0 1 N N N N N N 16.079 1.596 3.547 -0.541 -2.866 -1.067 H10 A1A5K 42 A1A5K H11 H19 H 0 1 N N N N N N 15.659 2.821 5.660 -2.913 -2.615 -1.580 H11 A1A5K 43 A1A5K H15 H20 H 0 1 N N N N N N 15.194 9.227 6.973 -6.834 2.903 -0.272 H15 A1A5K 44 A1A5K H21 H21 H 0 1 N N N N N N 12.205 -1.457 3.611 7.030 -1.107 0.114 H21 A1A5K 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 A1A5K C3 C4 SING N N 1 A1A5K C3 C2 SING N N 2 A1A5K C4 N1 SING N N 3 A1A5K C2 C1 SING N N 4 A1A5K C2 C16 SING N N 5 A1A5K O1 C5 DOUB N N 6 A1A5K N1 C5 SING N N 7 A1A5K N1 C15 SING N N 8 A1A5K C5 C6 SING N N 9 A1A5K C16 C15 SING N N 10 A1A5K C16 C17 SING N N 11 A1A5K O3 C17 DOUB N N 12 A1A5K C17 O4 SING N N 13 A1A5K C11 C6 DOUB Y N 14 A1A5K C11 C10 SING Y N 15 A1A5K C6 C7 SING Y N 16 A1A5K C10 N2 SING Y N 17 A1A5K C10 C9 DOUB Y N 18 A1A5K C7 C8 DOUB Y N 19 A1A5K N2 C12 DOUB Y N 20 A1A5K C9 C8 SING Y N 21 A1A5K C9 N3 SING Y N 22 A1A5K C12 N3 SING Y N 23 A1A5K C12 C13 SING N N 24 A1A5K N3 C14 SING N N 25 A1A5K C13 O2 SING N N 26 A1A5K C3 H6 SING N N 27 A1A5K C3 H7 SING N N 28 A1A5K C14 H18 SING N N 29 A1A5K C14 H17 SING N N 30 A1A5K C14 H16 SING N N 31 A1A5K C1 H4 SING N N 32 A1A5K C1 H3 SING N N 33 A1A5K C1 H5 SING N N 34 A1A5K C11 H12 SING N N 35 A1A5K C13 H13 SING N N 36 A1A5K C13 H14 SING N N 37 A1A5K C15 H20 SING N N 38 A1A5K C15 H19 SING N N 39 A1A5K C16 H2 SING N N 40 A1A5K C2 H1 SING N N 41 A1A5K C4 H8 SING N N 42 A1A5K C4 H9 SING N N 43 A1A5K C7 H10 SING N N 44 A1A5K C8 H11 SING N N 45 A1A5K O2 H15 SING N N 46 A1A5K O4 H21 SING N N 47 # 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 A1A5K SMILES ACDLabs 14.52 "O=C(c1ccc2n(C)c(CO)nc2c1)N1CCC(C)C(C1)C(=O)O" A1A5K InChI InChI 1.06 "InChI=1S/C17H21N3O4/c1-10-5-6-20(8-12(10)17(23)24)16(22)11-3-4-14-13(7-11)18-15(9-21)19(14)2/h3-4,7,10,12,21H,5-6,8-9H2,1-2H3,(H,23,24)/t10-,12+/m1/s1" A1A5K InChIKey InChI 1.06 MSAKLWZGMAUWCQ-PWSUYJOCSA-N A1A5K SMILES_CANONICAL CACTVS 3.385 "C[C@@H]1CCN(C[C@@H]1C(O)=O)C(=O)c2ccc3n(C)c(CO)nc3c2" A1A5K SMILES CACTVS 3.385 "C[CH]1CCN(C[CH]1C(O)=O)C(=O)c2ccc3n(C)c(CO)nc3c2" A1A5K SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "C[C@@H]1CCN(C[C@@H]1C(=O)O)C(=O)c2ccc3c(c2)nc(n3C)CO" A1A5K SMILES "OpenEye OEToolkits" 3.1.0.0 "CC1CCN(CC1C(=O)O)C(=O)c2ccc3c(c2)nc(n3C)CO" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier A1A5K "SYSTEMATIC NAME" ACDLabs 14.52 "(3R,4R)-1-[2-(hydroxymethyl)-1-methyl-1H-1,3-benzimidazole-5-carbonyl]-4-methylpiperidine-3-carboxylic acid" A1A5K "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "(3~{R},4~{R})-1-[2-(hydroxymethyl)-1-methyl-benzimidazol-5-yl]carbonyl-4-methyl-piperidine-3-carboxylic 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 A1A5K "Create component" 2024-09-09 RCSB A1A5K "Initial release" 2025-06-11 RCSB #