data_X8R
#
_chem_comp.id X8R
_chem_comp.name "1-[(1r,3r,5r,7r)-6-hydroxy-2,6-diazatricyclo[3.3.1.1~3,7~]decan-2-yl]ethan-1-one"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H16 N2 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-11-07
_chem_comp.pdbx_modified_date 2024-09-27
_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 196.246
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code X8R
_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 8F11
_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
X8R C3 C1 C 0 1 N N N N N N -18.758 13.548 -31.502 -1.405 -0.273 1.205 C3 X8R 1
X8R C2 C2 C 0 1 N N N N N N -19.758 14.209 -30.542 -0.712 1.091 1.231 C2 X8R 2
X8R C8 C3 C 0 1 N N N N N N -19.094 16.384 -31.472 -0.694 1.077 -1.257 C8 X8R 3
X8R C1 C4 C 0 1 N N N N N N -19.233 15.588 -30.176 0.188 1.217 -0.007 C1 X8R 4
X8R C5 C5 C 0 1 N N N N N N -16.758 15.588 -31.729 -0.338 -1.401 -1.240 C5 X8R 5
X8R C10 C6 C 0 1 N N N N N N -18.602 16.190 -27.325 3.397 -0.909 0.018 C10 X8R 6
X8R C4 C7 C 0 1 N N N N N N -18.117 15.673 -32.407 -1.387 -0.287 -1.225 C4 X8R 7
X8R C6 C8 C 0 1 N N N N N N -16.904 14.800 -30.447 0.545 -1.270 0.010 C6 X8R 8
X8R C7 C9 C 0 1 N N N N N N -17.413 13.406 -30.785 -0.356 -1.386 1.248 C7 X8R 9
X8R C9 C10 C 0 1 N N N N N N -17.556 15.615 -28.294 2.465 0.275 0.007 C9 X8R 10
X8R N1 N1 N 0 1 N N N N N N -18.626 14.335 -32.745 -2.209 -0.397 -0.016 N1 X8R 11
X8R N2 N2 N 0 1 N N N N N N -17.899 15.417 -29.577 1.131 0.083 0.004 N2 X8R 12
X8R O1 O1 O 0 1 N N N N N N -19.973 14.467 -33.458 -3.296 0.583 -0.029 O1 X8R 13
X8R O2 O2 O 0 1 N N N N N N -16.429 15.360 -27.888 2.916 1.401 0.001 O2 X8R 14
X8R H1 H1 H 0 1 N N N N N N -19.128 12.542 -31.750 -2.060 -0.362 2.071 H1 X8R 15
X8R H2 H2 H 0 1 N N N N N N -20.738 14.303 -31.033 -1.462 1.882 1.219 H2 X8R 16
X8R H3 H3 H 0 1 N N N N N N -19.860 13.597 -29.633 -0.105 1.175 2.133 H3 X8R 17
X8R H4 H4 H 0 1 N N N N N N -18.716 17.391 -31.244 -1.444 1.867 -1.265 H4 X8R 18
X8R H5 H5 H 0 1 N N N N N N -20.076 16.463 -31.960 -0.075 1.153 -2.151 H5 X8R 19
X8R H6 H6 H 0 1 N N N N N N -19.922 16.094 -29.483 0.713 2.172 -0.008 H6 X8R 20
X8R H7 H7 H 0 1 N N N N N N -16.043 15.082 -32.395 -0.835 -2.371 -1.236 H7 X8R 21
X8R H8 H8 H 0 1 N N N N N N -16.394 16.601 -31.501 0.280 -1.311 -2.134 H8 X8R 22
X8R H9 H9 H 0 1 N N N N N N -18.156 16.300 -26.326 4.429 -0.560 0.019 H9 X8R 23
X8R H10 H10 H 0 1 N N N N N N -18.936 17.173 -27.687 3.215 -1.507 0.911 H10 X8R 24
X8R H11 H11 H 0 1 N N N N N N -19.463 15.508 -27.269 3.221 -1.518 -0.869 H11 X8R 25
X8R H12 H12 H 0 1 N N N N N N -18.016 16.268 -33.327 -2.030 -0.386 -2.100 H12 X8R 26
X8R H13 H13 H 0 1 N N N N N N -15.932 14.729 -29.937 1.326 -2.031 0.014 H13 X8R 27
X8R H14 H14 H 0 1 N N N N N N -17.543 12.823 -29.861 0.248 -1.284 2.149 H14 X8R 28
X8R H15 H15 H 0 1 N N N N N N -16.693 12.896 -31.442 -0.853 -2.356 1.248 H15 X8R 29
X8R H16 H16 H 0 1 N N N N N N -20.302 13.603 -33.677 -3.867 0.548 0.751 H16 X8R 30
#
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
X8R O1 N1 SING N N 1
X8R N1 C4 SING N N 2
X8R N1 C3 SING N N 3
X8R C4 C5 SING N N 4
X8R C4 C8 SING N N 5
X8R C5 C6 SING N N 6
X8R C3 C7 SING N N 7
X8R C3 C2 SING N N 8
X8R C8 C1 SING N N 9
X8R C7 C6 SING N N 10
X8R C2 C1 SING N N 11
X8R C6 N2 SING N N 12
X8R C1 N2 SING N N 13
X8R N2 C9 SING N N 14
X8R C9 O2 DOUB N N 15
X8R C9 C10 SING N N 16
X8R C3 H1 SING N N 17
X8R C2 H2 SING N N 18
X8R C2 H3 SING N N 19
X8R C8 H4 SING N N 20
X8R C8 H5 SING N N 21
X8R C1 H6 SING N N 22
X8R C5 H7 SING N N 23
X8R C5 H8 SING N N 24
X8R C10 H9 SING N N 25
X8R C10 H10 SING N N 26
X8R C10 H11 SING N N 27
X8R C4 H12 SING N N 28
X8R C6 H13 SING N N 29
X8R C7 H14 SING N N 30
X8R C7 H15 SING N N 31
X8R O1 H16 SING N N 32
#
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
X8R SMILES ACDLabs 12.01 "CC(=O)N1C2CC3CC1CC(C2)N3O"
X8R InChI InChI 1.06 "InChI=1S/C10H16N2O2/c1-6(13)11-7-2-9-4-8(11)5-10(3-7)12(9)14/h7-10,14H,2-5H2,1H3/t7-,8+,9-,10+"
X8R InChIKey InChI 1.06 IZZBRXSOGCMQBC-YNFQOJQRSA-N
X8R SMILES_CANONICAL CACTVS 3.385 "CC(=O)N1C2CC3CC1CC(C2)N3O"
X8R SMILES CACTVS 3.385 "CC(=O)N1C2CC3CC1CC(C2)N3O"
X8R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)N1C2CC3CC1CC(C2)N3O"
X8R SMILES "OpenEye OEToolkits" 2.0.7 "CC(=O)N1C2CC3CC1CC(C2)N3O"
#
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
X8R "SYSTEMATIC NAME" ACDLabs 12.01 "1-[(1r,3r,5r,7r)-6-hydroxy-2,6-diazatricyclo[3.3.1.1~3,7~]decan-2-yl]ethan-1-one"
X8R "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-(6-oxidanyl-2,6-diazatricyclo[3.3.1.1^{3,7}]decan-2-yl)ethanone"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
X8R "Create component" 2022-11-07 RCSB
X8R "Initial release" 2023-02-15 RCSB
X8R "Modify PCM" 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id X8R
_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 C10
_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 ?
#