data_X3F # _chem_comp.id X3F _chem_comp.name "5-(1,4-oxazepan-4-yl)-6-propanoylpyridine-2-carbonitrile" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C14 H17 N3 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-10-20 _chem_comp.pdbx_modified_date 2024-10-18 _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 259.304 _chem_comp.one_letter_code ? _chem_comp.three_letter_code X3F _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 8UM5 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _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 X3F N10 N1 N 0 1 Y N N N N N -4.811 -2.028 27.857 -2.417 0.141 -0.010 N10 X3F 1 X3F C11 C1 C 0 1 N N N N N N -3.133 -3.795 27.698 -4.260 -1.364 -0.034 C11 X3F 2 X3F C14 C2 C 0 1 N N N N N N -6.442 1.573 29.669 1.863 -0.883 -1.150 C14 X3F 3 X3F C15 C3 C 0 1 N N N N N N -6.133 2.503 28.499 3.087 -0.052 -1.448 C15 X3F 4 X3F C16 C4 C 0 1 N N N N N N -4.636 2.716 28.306 4.332 -0.600 -0.735 C16 X3F 5 X3F C18 C5 C 0 1 N N N N N N -4.177 3.111 30.610 3.218 -0.188 1.378 C18 X3F 6 X3F C19 C6 C 0 1 N N N N N N -4.158 1.599 30.828 1.764 -0.689 1.261 C19 X3F 7 X3F C01 C7 C 0 1 N N N N N N -7.972 0.403 25.654 -0.973 4.288 0.012 C01 X3F 8 X3F C02 C8 C 0 1 N N N N N N -6.624 -0.094 26.179 -1.693 2.938 0.002 C02 X3F 9 X3F C03 C9 C 0 1 N N N N N N -6.665 -0.489 27.657 -0.676 1.826 0.013 C03 X3F 10 X3F C05 C10 C 0 1 Y N N N N N -5.377 -0.940 28.363 -1.120 0.424 0.007 C05 X3F 11 X3F C06 C11 C 0 1 Y N N N N N -4.785 -0.307 29.478 -0.167 -0.612 0.018 C06 X3F 12 X3F C07 C12 C 0 1 Y N N N N N -3.614 -0.842 30.006 -0.606 -1.938 0.012 C07 X3F 13 X3F C08 C13 C 0 1 Y N N N N N -3.063 -1.983 29.448 -1.953 -2.183 -0.006 C08 X3F 14 X3F C09 C14 C 0 1 Y N N N N N -3.704 -2.544 28.354 -2.851 -1.107 -0.016 C09 X3F 15 X3F N12 N2 N 0 1 N N N N N N -2.731 -4.728 27.190 -5.377 -1.568 -0.049 N12 X3F 16 X3F N13 N3 N 0 1 N N N N N N -5.251 0.906 30.161 1.185 -0.321 0.036 N13 X3F 17 X3F O04 O1 O 0 1 N N N N N N -7.705 -0.472 28.241 0.508 2.087 0.029 O04 X3F 18 X3F O17 O2 O 0 1 N N N N N N -4.048 3.542 29.277 4.056 -1.021 0.615 O17 X3F 19 X3F H142 H1 H 0 0 N N N N N N -7.164 0.812 29.337 1.186 -0.856 -2.004 H142 X3F 20 X3F H141 H2 H 0 0 N N N N N N -6.882 2.164 30.486 2.157 -1.913 -0.948 H141 X3F 21 X3F H152 H3 H 0 0 N N N N N N -6.549 2.065 27.580 3.264 -0.054 -2.524 H152 X3F 22 X3F H151 H4 H 0 0 N N N N N N -6.607 3.478 28.688 2.911 0.972 -1.119 H151 X3F 23 X3F H161 H5 H 0 0 N N N N N N -4.140 1.735 28.340 4.716 -1.450 -1.298 H161 X3F 24 X3F H162 H6 H 0 0 N N N N N N -4.476 3.174 27.319 5.095 0.179 -0.710 H162 X3F 25 X3F H182 H7 H 0 0 N N N N N N -3.347 3.545 31.186 3.283 0.834 1.005 H182 X3F 26 X3F H181 H8 H 0 0 N N N N N N -5.132 3.495 30.997 3.531 -0.215 2.422 H181 X3F 27 X3F H192 H9 H 0 0 N N N N N N -3.207 1.203 30.443 1.754 -1.776 1.347 H192 X3F 28 X3F H191 H10 H 0 0 N N N N N N -4.227 1.401 31.908 1.175 -0.264 2.073 H191 X3F 29 X3F H011 H11 H 0 0 N N N N N N -7.876 0.670 24.591 -1.708 5.092 0.003 H011 X3F 30 X3F H013 H12 H 0 0 N N N N N N -8.725 -0.391 25.766 -0.360 4.366 0.910 H013 X3F 31 X3F H012 H13 H 0 0 N N N N N N -8.285 1.288 26.227 -0.337 4.367 -0.870 H012 X3F 32 X3F H022 H14 H 0 0 N N N N N N -6.321 -0.972 25.590 -2.328 2.859 0.883 H022 X3F 33 X3F H021 H15 H 0 0 N N N N N N -5.881 0.707 26.051 -2.306 2.860 -0.896 H021 X3F 34 X3F H071 H16 H 0 0 N N N N N N -3.136 -0.368 30.850 0.102 -2.753 0.020 H071 X3F 35 X3F H081 H17 H 0 0 N N N N N N -2.163 -2.422 29.852 -2.321 -3.199 -0.012 H081 X3F 36 # 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 X3F C02 C01 SING N N 1 X3F C03 C02 SING N N 2 X3F O04 C03 DOUB N N 3 X3F C05 C03 SING N N 4 X3F C06 C05 DOUB Y N 5 X3F C08 C07 DOUB Y N 6 X3F C09 C08 SING Y N 7 X3F N10 C09 DOUB Y N 8 X3F C11 C09 SING N N 9 X3F N12 C11 TRIP N N 10 X3F C07 C06 SING Y N 11 X3F N13 C06 SING N N 12 X3F C14 N13 SING N N 13 X3F C15 C14 SING N N 14 X3F C16 C15 SING N N 15 X3F O17 C16 SING N N 16 X3F C18 O17 SING N N 17 X3F C19 C18 SING N N 18 X3F C05 N10 SING Y N 19 X3F N13 C19 SING N N 20 X3F C14 H142 SING N N 21 X3F C14 H141 SING N N 22 X3F C15 H152 SING N N 23 X3F C15 H151 SING N N 24 X3F C16 H161 SING N N 25 X3F C16 H162 SING N N 26 X3F C18 H182 SING N N 27 X3F C18 H181 SING N N 28 X3F C19 H192 SING N N 29 X3F C19 H191 SING N N 30 X3F C01 H011 SING N N 31 X3F C01 H013 SING N N 32 X3F C01 H012 SING N N 33 X3F C02 H022 SING N N 34 X3F C02 H021 SING N N 35 X3F C07 H071 SING N N 36 X3F C08 H081 SING N N 37 # 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 X3F SMILES ACDLabs 12.01 "CCC(=O)c1nc(C#N)ccc1N1CCCOCC1" X3F InChI InChI 1.06 "InChI=1S/C14H17N3O2/c1-2-13(18)14-12(5-4-11(10-15)16-14)17-6-3-8-19-9-7-17/h4-5H,2-3,6-9H2,1H3" X3F InChIKey InChI 1.06 QAYKYSCIOWYYNH-UHFFFAOYSA-N X3F SMILES_CANONICAL CACTVS 3.385 "CCC(=O)c1nc(ccc1N2CCCOCC2)C#N" X3F SMILES CACTVS 3.385 "CCC(=O)c1nc(ccc1N2CCCOCC2)C#N" X3F SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCC(=O)c1c(ccc(n1)C#N)N2CCCOCC2" X3F SMILES "OpenEye OEToolkits" 2.0.7 "CCC(=O)c1c(ccc(n1)C#N)N2CCCOCC2" # 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 X3F "SYSTEMATIC NAME" ACDLabs 12.01 "5-(1,4-oxazepan-4-yl)-6-propanoylpyridine-2-carbonitrile" X3F "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "5-(1,4-oxazepan-4-yl)-6-propanoyl-pyridine-2-carbonitrile" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site X3F "Create component" 2023-10-20 RCSB X3F "Modify PCM" 2024-09-27 PDBE X3F "Initial release" 2024-10-23 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id X3F _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C01 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #