data_A1B5A # _chem_comp.id A1B5A _chem_comp.name "(3S)-1-{[4-(methylsulfanyl)pyrimidin-5-yl]acetyl}piperidine-3-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H18 N4 O2 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-03-24 _chem_comp.pdbx_modified_date 2025-03-28 _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 294.373 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1B5A _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 7I6U _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 A1B5A N1 N1 N 0 1 Y N N N N N 28.462 10.181 6.949 4.247 -1.818 -0.854 N1 A1B5A 1 A1B5A N3 N2 N 0 1 N N N N N N 23.836 13.714 15.071 -4.393 0.857 -2.255 N3 A1B5A 2 A1B5A C4 C1 C 0 1 Y N N N N N 26.699 11.198 8.228 2.407 -0.885 0.240 C4 A1B5A 3 A1B5A C5 C2 C 0 1 N N N N N N 25.959 12.453 8.635 1.078 -1.035 0.935 C5 A1B5A 4 A1B5A C6 C3 C 0 1 N N N N N N 26.134 12.785 10.106 -0.035 -0.820 -0.058 C6 A1B5A 5 A1B5A C7 C4 C 0 1 N N N N N N 24.382 14.534 9.807 -1.650 -1.209 1.740 C7 A1B5A 6 A1B5A C8 C5 C 0 1 N N N N N N 23.017 14.497 10.456 -2.599 -0.128 2.268 C8 A1B5A 7 A1B5A C10 C6 C 0 1 N N S N N N 24.122 14.091 12.702 -3.356 0.377 -0.061 C10 A1B5A 8 A1B5A O1 O1 O 0 1 N N N N N N 24.712 15.672 14.409 -5.668 0.303 -0.526 O1 A1B5A 9 A1B5A C11 C7 C 0 1 N N N N N N 24.240 14.566 14.140 -4.556 0.510 -0.963 C11 A1B5A 10 A1B5A C9 C8 C 0 1 N N N N N N 23.115 14.953 11.917 -3.814 -0.026 1.343 C9 A1B5A 11 A1B5A C12 C9 C 0 1 N N N N N N 25.486 14.183 12.006 -2.416 -0.698 -0.615 C12 A1B5A 12 A1B5A N2 N3 N 0 1 N N N N N N 25.369 13.784 10.601 -1.319 -0.906 0.341 N2 A1B5A 13 A1B5A O O2 O 0 1 N N N N N N 26.971 12.216 10.787 0.225 -0.568 -1.216 O A1B5A 14 A1B5A C1 C10 C 0 1 Y N N N N N 26.325 9.885 8.598 2.989 0.375 0.073 C1 A1B5A 15 A1B5A S S1 S 0 1 N N N N N N 24.898 9.704 9.600 2.182 1.821 0.673 S A1B5A 16 A1B5A C C11 C 0 1 N N N N N N 24.760 7.911 9.753 3.383 3.081 0.175 C A1B5A 17 A1B5A C3 C12 C 0 1 Y N N N N N 27.793 11.251 7.380 3.079 -1.987 -0.248 C3 A1B5A 18 A1B5A C2 C13 C 0 1 Y N N N N N 28.020 9.018 7.397 4.770 -0.617 -0.996 C2 A1B5A 19 A1B5A N N4 N 0 1 Y N N N N N 26.981 8.799 8.205 4.163 0.463 -0.547 N A1B5A 20 A1B5A H14 H1 H 0 1 N N N N N N 23.908 13.959 16.038 -3.503 1.022 -2.604 H14 A1B5A 21 A1B5A H15 H2 H 0 1 N N N N N N 23.459 12.826 14.807 -5.165 0.943 -2.835 H15 A1B5A 22 A1B5A H6 H3 H 0 1 N N N N N N 26.338 13.295 8.037 1.000 -2.037 1.356 H6 A1B5A 23 A1B5A H7 H4 H 0 1 N N N N N N 24.887 12.311 8.431 1.000 -0.298 1.734 H7 A1B5A 24 A1B5A H8 H5 H 0 1 N N N N N N 24.711 15.580 9.722 -0.738 -1.218 2.337 H8 A1B5A 25 A1B5A H9 H6 H 0 1 N N N N N N 24.315 14.088 8.804 -2.136 -2.183 1.800 H9 A1B5A 26 A1B5A H10 H7 H 0 1 N N N N N N 22.337 15.167 9.911 -2.928 -0.393 3.273 H10 A1B5A 27 A1B5A H11 H8 H 0 1 N N N N N N 22.625 13.470 10.421 -2.080 0.830 2.295 H11 A1B5A 28 A1B5A H H9 H 0 1 N N N N N N 23.783 13.045 12.692 -2.830 1.331 -0.012 H A1B5A 29 A1B5A H12 H10 H 0 1 N N N N N N 23.443 16.003 11.944 -4.318 -0.991 1.297 H12 A1B5A 30 A1B5A H13 H11 H 0 1 N N N N N N 22.125 14.866 12.387 -4.502 0.726 1.730 H13 A1B5A 31 A1B5A H16 H12 H 0 1 N N N N N N 25.851 15.219 12.060 -2.965 -1.629 -0.749 H16 A1B5A 32 A1B5A H17 H13 H 0 1 N N N N N N 26.198 13.516 12.514 -2.011 -0.371 -1.573 H17 A1B5A 33 A1B5A H1 H14 H 0 1 N N N N N N 23.885 7.662 10.372 3.505 3.059 -0.908 H1 A1B5A 34 A1B5A H3 H15 H 0 1 N N N N N N 24.641 7.466 8.754 3.026 4.064 0.480 H3 A1B5A 35 A1B5A H2 H16 H 0 1 N N N N N N 25.669 7.512 10.226 4.341 2.878 0.653 H2 A1B5A 36 A1B5A H5 H17 H 0 1 N N N N N N 28.126 12.223 7.046 2.660 -2.976 -0.137 H5 A1B5A 37 A1B5A H4 H18 H 0 1 N N N N N N 28.563 8.143 7.071 5.722 -0.515 -1.495 H4 A1B5A 38 # 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 A1B5A C S SING N N 1 A1B5A S C1 SING N N 2 A1B5A C1 N DOUB Y N 3 A1B5A N C2 SING Y N 4 A1B5A C2 N1 DOUB Y N 5 A1B5A N1 C3 SING Y N 6 A1B5A C3 C4 DOUB Y N 7 A1B5A C1 C4 SING Y N 8 A1B5A C4 C5 SING N N 9 A1B5A C5 C6 SING N N 10 A1B5A O C6 DOUB N N 11 A1B5A C6 N2 SING N N 12 A1B5A N2 C7 SING N N 13 A1B5A C7 C8 SING N N 14 A1B5A C8 C9 SING N N 15 A1B5A C9 C10 SING N N 16 A1B5A C10 C11 SING N N 17 A1B5A N3 C11 SING N N 18 A1B5A C11 O1 DOUB N N 19 A1B5A C12 C10 SING N N 20 A1B5A N2 C12 SING N N 21 A1B5A N3 H14 SING N N 22 A1B5A N3 H15 SING N N 23 A1B5A C5 H6 SING N N 24 A1B5A C5 H7 SING N N 25 A1B5A C7 H8 SING N N 26 A1B5A C7 H9 SING N N 27 A1B5A C8 H10 SING N N 28 A1B5A C8 H11 SING N N 29 A1B5A C10 H SING N N 30 A1B5A C9 H12 SING N N 31 A1B5A C9 H13 SING N N 32 A1B5A C12 H16 SING N N 33 A1B5A C12 H17 SING N N 34 A1B5A C H1 SING N N 35 A1B5A C H3 SING N N 36 A1B5A C H2 SING N N 37 A1B5A C3 H5 SING N N 38 A1B5A C2 H4 SING N N 39 # 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 A1B5A SMILES ACDLabs 14.52 "O=C(Cc1cncnc1SC)N1CCCC(C1)C(N)=O" A1B5A InChI InChI 1.06 "InChI=1S/C13H18N4O2S/c1-20-13-10(6-15-8-16-13)5-11(18)17-4-2-3-9(7-17)12(14)19/h6,8-9H,2-5,7H2,1H3,(H2,14,19)/t9-/m0/s1" A1B5A InChIKey InChI 1.06 VHSVZDNSBFAAEB-VIFPVBQESA-N A1B5A SMILES_CANONICAL CACTVS 3.385 "CSc1ncncc1CC(=O)N2CCC[C@@H](C2)C(N)=O" A1B5A SMILES CACTVS 3.385 "CSc1ncncc1CC(=O)N2CCC[CH](C2)C(N)=O" A1B5A SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CSc1c(cncn1)CC(=O)N2CCC[C@@H](C2)C(=O)N" A1B5A SMILES "OpenEye OEToolkits" 3.1.0.0 "CSc1c(cncn1)CC(=O)N2CCCC(C2)C(=O)N" # 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 A1B5A "SYSTEMATIC NAME" ACDLabs 14.52 "(3S)-1-{[4-(methylsulfanyl)pyrimidin-5-yl]acetyl}piperidine-3-carboxamide" A1B5A "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "(3~{S})-1-[2-(4-methylsulfanylpyrimidin-5-yl)ethanoyl]piperidine-3-carboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1B5A "Create component" 2025-03-24 RCSB A1B5A "Initial release" 2025-04-02 RCSB #