data_A1B3S # _chem_comp.id A1B3S _chem_comp.name "(3S)-1-{[5-(methylsulfanyl)pyrimidin-4-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 2025-03-21 _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 A1B3S _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 7I5B _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 A1B3S N1 N1 N 0 1 Y N N N N N 7.807 11.230 25.630 2.495 1.980 0.701 N1 A1B3S 1 A1B3S N3 N2 N 0 1 N N N N N N 11.145 13.527 17.861 -4.643 0.807 -2.216 N3 A1B3S 2 A1B3S C4 C1 C 0 1 Y N N N N N 8.814 11.002 24.775 2.252 0.684 0.600 C4 A1B3S 3 A1B3S C5 C2 C 0 1 N N N N N N 9.610 12.214 24.377 0.988 0.096 1.171 C5 A1B3S 4 A1B3S C6 C3 C 0 1 N N N N N N 9.305 12.660 22.957 -0.096 0.120 0.123 C6 A1B3S 5 A1B3S C7 C4 C 0 1 N N N N N N 11.196 14.298 23.149 -1.619 -0.907 1.741 C7 A1B3S 6 A1B3S C8 C5 C 0 1 N N N N N N 12.481 14.285 22.335 -2.853 -0.196 2.304 C8 A1B3S 7 A1B3S C10 C6 C 0 1 N N S N N N 11.109 14.005 20.225 -3.615 0.364 -0.011 C10 A1B3S 8 A1B3S O1 O1 O 0 1 N N N N N N 10.584 15.601 18.510 -5.792 -0.277 -0.658 O1 A1B3S 9 A1B3S C11 C7 C 0 1 N N N N N N 10.921 14.447 18.784 -4.762 0.274 -0.984 C11 A1B3S 10 A1B3S C9 C8 C 0 1 N N N N N N 12.235 14.791 20.911 -4.006 -0.315 1.304 C9 A1B3S 11 A1B3S C12 C9 C 0 1 N N N N N N 9.854 14.148 21.090 -2.388 -0.341 -0.600 C12 A1B3S 12 A1B3S N2 N3 N 0 1 N N N N N N 10.104 13.617 22.433 -1.322 -0.358 0.411 N2 A1B3S 13 A1B3S O O2 O 0 1 N N N N N N 8.333 12.227 22.354 0.137 0.571 -0.979 O A1B3S 14 A1B3S C1 C10 C 0 1 Y N N N N N 9.096 9.690 24.319 3.183 -0.130 -0.043 C1 A1B3S 15 A1B3S S S1 S 0 1 N N N N N N 10.375 9.339 23.154 2.909 -1.863 -0.206 S A1B3S 16 A1B3S C C11 C 0 1 N N N N N N 10.315 7.561 23.030 4.385 -2.428 -1.096 C A1B3S 17 A1B3S C3 C12 C 0 1 Y N N N N N 7.099 10.177 26.039 3.599 2.502 0.203 C3 A1B3S 18 A1B3S N N4 N 0 1 Y N N N N N 7.261 8.907 25.684 4.503 1.767 -0.411 N A1B3S 19 A1B3S C2 C13 C 0 1 Y N N N N N 8.260 8.680 24.831 4.335 0.463 -0.554 C2 A1B3S 20 A1B3S H15 H1 H 0 1 N N N N N N 11.043 13.755 16.893 -3.819 1.248 -2.477 H15 A1B3S 21 A1B3S H14 H2 H 0 1 N N N N N N 11.417 12.603 18.131 -5.382 0.749 -2.843 H14 A1B3S 22 A1B3S H6 H3 H 0 1 N N N N N N 9.370 13.037 25.066 1.172 -0.933 1.479 H6 A1B3S 23 A1B3S H7 H4 H 0 1 N N N N N N 10.681 11.974 24.451 0.672 0.682 2.034 H7 A1B3S 24 A1B3S H9 H5 H 0 1 N N N N N N 10.904 15.341 23.341 -0.768 -0.741 2.403 H9 A1B3S 25 A1B3S H8 H6 H 0 1 N N N N N N 11.372 13.785 24.106 -1.817 -1.976 1.662 H8 A1B3S 26 A1B3S H10 H7 H 0 1 N N N N N N 13.223 14.934 22.824 -3.141 -0.659 3.248 H10 A1B3S 27 A1B3S H11 H8 H 0 1 N N N N N N 12.867 13.256 22.289 -2.623 0.857 2.470 H11 A1B3S 28 A1B3S H H9 H 0 1 N N N N N N 11.395 12.943 20.220 -3.378 1.411 0.177 H A1B3S 29 A1B3S H12 H10 H 0 1 N N N N N N 11.956 15.854 20.952 -4.219 -1.368 1.119 H12 A1B3S 30 A1B3S H13 H11 H 0 1 N N N N N N 13.159 14.677 20.326 -4.893 0.169 1.712 H13 A1B3S 31 A1B3S H16 H12 H 0 1 N N N N N N 9.583 15.211 21.164 -2.651 -1.363 -0.872 H16 A1B3S 32 A1B3S H17 H13 H 0 1 N N N N N N 9.027 13.590 20.626 -2.048 0.197 -1.484 H17 A1B3S 33 A1B3S H2 H14 H 0 1 N N N N N N 11.081 7.216 22.319 5.274 -2.197 -0.509 H2 A1B3S 34 A1B3S H1 H15 H 0 1 N N N N N N 10.507 7.118 24.018 4.324 -3.504 -1.255 H1 A1B3S 35 A1B3S H3 H16 H 0 1 N N N N N N 9.321 7.252 22.676 4.445 -1.921 -2.059 H3 A1B3S 36 A1B3S H5 H17 H 0 1 N N N N N N 6.302 10.380 26.739 3.766 3.565 0.303 H5 A1B3S 37 A1B3S H4 H18 H 0 1 N N N N N N 8.438 7.663 24.515 5.081 -0.134 -1.058 H4 A1B3S 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 A1B3S C S SING N N 1 A1B3S S C1 SING N N 2 A1B3S C1 C2 DOUB Y N 3 A1B3S C2 N SING Y N 4 A1B3S N C3 DOUB Y N 5 A1B3S C3 N1 SING Y N 6 A1B3S N1 C4 DOUB Y N 7 A1B3S C1 C4 SING Y N 8 A1B3S C4 C5 SING N N 9 A1B3S C5 C6 SING N N 10 A1B3S O C6 DOUB N N 11 A1B3S C6 N2 SING N N 12 A1B3S N2 C7 SING N N 13 A1B3S C7 C8 SING N N 14 A1B3S C8 C9 SING N N 15 A1B3S C9 C10 SING N N 16 A1B3S C10 C11 SING N N 17 A1B3S N3 C11 SING N N 18 A1B3S C11 O1 DOUB N N 19 A1B3S C12 C10 SING N N 20 A1B3S N2 C12 SING N N 21 A1B3S N3 H15 SING N N 22 A1B3S N3 H14 SING N N 23 A1B3S C5 H6 SING N N 24 A1B3S C5 H7 SING N N 25 A1B3S C7 H9 SING N N 26 A1B3S C7 H8 SING N N 27 A1B3S C8 H10 SING N N 28 A1B3S C8 H11 SING N N 29 A1B3S C10 H SING N N 30 A1B3S C9 H12 SING N N 31 A1B3S C9 H13 SING N N 32 A1B3S C12 H16 SING N N 33 A1B3S C12 H17 SING N N 34 A1B3S C H2 SING N N 35 A1B3S C H1 SING N N 36 A1B3S C H3 SING N N 37 A1B3S C3 H5 SING N N 38 A1B3S 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 A1B3S SMILES ACDLabs 14.52 "O=C(Cc1ncncc1SC)N1CCCC(C1)C(N)=O" A1B3S InChI InChI 1.06 "InChI=1S/C13H18N4O2S/c1-20-11-6-15-8-16-10(11)5-12(18)17-4-2-3-9(7-17)13(14)19/h6,8-9H,2-5,7H2,1H3,(H2,14,19)/t9-/m0/s1" A1B3S InChIKey InChI 1.06 STOZPWZNKNIBMH-VIFPVBQESA-N A1B3S SMILES_CANONICAL CACTVS 3.385 "CSc1cncnc1CC(=O)N2CCC[C@@H](C2)C(N)=O" A1B3S SMILES CACTVS 3.385 "CSc1cncnc1CC(=O)N2CCC[CH](C2)C(N)=O" A1B3S SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "CSc1cncnc1CC(=O)N2CCC[C@@H](C2)C(=O)N" A1B3S SMILES "OpenEye OEToolkits" 3.1.0.0 "CSc1cncnc1CC(=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 A1B3S "SYSTEMATIC NAME" ACDLabs 14.52 "(3S)-1-{[5-(methylsulfanyl)pyrimidin-4-yl]acetyl}piperidine-3-carboxamide" A1B3S "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "(3~{S})-1-[2-(5-methylsulfanylpyrimidin-4-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 A1B3S "Create component" 2025-03-21 RCSB A1B3S "Initial release" 2025-04-02 RCSB #