data_WXC
#
_chem_comp.id WXC
_chem_comp.name "2-azanyl-7,8-dihydro-6~{H}-quinazolin-5-one"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H9 N3 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-05-22
_chem_comp.pdbx_modified_date 2024-05-10
_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 163.177
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code WXC
_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 8OYZ
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
WXC C4 C1 C 0 1 Y N N N N N -5.183 -6.444 8.344 -0.113 0.810 -0.052 C4 WXC 1
WXC C5 C2 C 0 1 N N N N N N -4.959 -7.924 8.147 0.858 1.956 -0.097 C5 WXC 2
WXC C6 C3 C 0 1 N N N N N N -6.306 -8.663 8.073 2.232 1.535 0.418 C6 WXC 3
WXC C7 C4 C 0 1 N N N N N N -7.244 -8.323 9.156 2.717 0.306 -0.362 C7 WXC 4
WXC C8 C5 C 0 1 N N N N N N -7.470 -6.843 9.299 1.759 -0.830 -0.061 C8 WXC 5
WXC N1 N1 N 0 1 N N N N N N -3.393 -3.402 7.794 -3.633 0.346 0.028 N1 WXC 6
WXC N2 N2 N 0 1 Y N N N N N -5.477 -3.729 8.806 -1.909 -1.222 0.011 N2 WXC 7
WXC C3 C6 C 0 1 Y N N N N N -6.324 -5.945 8.966 0.323 -0.519 -0.042 C3 WXC 8
WXC N3 N3 N 0 1 Y N N N N N -4.181 -5.616 7.997 -1.413 1.049 -0.027 N3 WXC 9
WXC C1 C7 C 0 1 Y N N N N N -4.375 -4.260 8.214 -2.286 0.051 0.003 C1 WXC 10
WXC C2 C8 C 0 1 Y N N N N N -6.475 -4.565 9.087 -0.629 -1.547 -0.007 C2 WXC 11
WXC O1 O1 O 0 1 N N N N N N -8.547 -6.402 9.666 2.163 -1.953 0.154 O1 WXC 12
WXC H5 H1 H 0 1 N N N N N N -4.375 -8.318 8.992 0.953 2.305 -1.125 H5 WXC 13
WXC H4 H2 H 0 1 N N N N N N -4.405 -8.086 7.211 0.479 2.770 0.522 H4 WXC 14
WXC H6 H3 H 0 1 N N N N N N -6.783 -8.415 7.113 2.938 2.354 0.281 H6 WXC 15
WXC H7 H4 H 0 1 N N N N N N -6.108 -9.744 8.115 2.163 1.289 1.478 H7 WXC 16
WXC H8 H5 H 0 1 N N N N N N -8.210 -8.806 8.947 2.713 0.520 -1.431 H8 WXC 17
WXC H9 H6 H 0 1 N N N N N N -6.839 -8.708 10.103 3.723 0.037 -0.041 H9 WXC 18
WXC H1 H7 H 0 1 N N N N N N -2.651 -3.924 7.374 -3.927 1.270 0.023 H1 WXC 19
WXC H2 H8 H 0 1 N N N N N N -3.772 -2.764 7.124 -4.286 -0.371 0.051 H2 WXC 20
WXC H3 H9 H 0 1 N N N N N N -7.422 -4.164 9.416 -0.323 -2.582 0.000 H3 WXC 21
#
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
WXC N1 C1 SING N N 1
WXC N3 C1 DOUB Y N 2
WXC N3 C4 SING Y N 3
WXC C6 C5 SING N N 4
WXC C6 C7 SING N N 5
WXC C5 C4 SING N N 6
WXC C1 N2 SING Y N 7
WXC C4 C3 DOUB Y N 8
WXC N2 C2 DOUB Y N 9
WXC C3 C2 SING Y N 10
WXC C3 C8 SING N N 11
WXC C7 C8 SING N N 12
WXC C8 O1 DOUB N N 13
WXC C5 H5 SING N N 14
WXC C5 H4 SING N N 15
WXC C6 H6 SING N N 16
WXC C6 H7 SING N N 17
WXC C7 H8 SING N N 18
WXC C7 H9 SING N N 19
WXC N1 H1 SING N N 20
WXC N1 H2 SING N N 21
WXC C2 H3 SING N N 22
#
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
WXC InChI InChI 1.06 "InChI=1S/C8H9N3O/c9-8-10-4-5-6(11-8)2-1-3-7(5)12/h4H,1-3H2,(H2,9,10,11)"
WXC InChIKey InChI 1.06 ZXWJMLMXKMSYTP-UHFFFAOYSA-N
WXC SMILES_CANONICAL CACTVS 3.385 "Nc1ncc2C(=O)CCCc2n1"
WXC SMILES CACTVS 3.385 "Nc1ncc2C(=O)CCCc2n1"
WXC SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1c2c(nc(n1)N)CCCC2=O"
WXC SMILES "OpenEye OEToolkits" 2.0.7 "c1c2c(nc(n1)N)CCCC2=O"
#
_pdbx_chem_comp_identifier.comp_id WXC
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier "2-azanyl-7,8-dihydro-6~{H}-quinazolin-5-one"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
WXC 'Create component' 2023-05-22 PDBE
WXC 'Initial release' 2024-05-15 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
WXC C4 C 5.700 1.061 1
WXC C5 C 4.359 1.863 2
WXC C6 C 3.000 1.092 3
WXC C7 C 3.000 -0.470 4
WXC C8 C 4.359 -1.241 5
WXC N1 N 9.597 1.811 6
WXC N2 N 8.298 -0.439 7
WXC C3 C 5.700 -0.439 8
WXC N3 N 6.999 1.811 9
WXC C1 C 8.298 1.061 10
WXC C2 C 6.999 -1.189 11
WXC O1 O 4.376 -2.741 12
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
WXC N1 C1 SINGLE NONE 1
WXC N3 C1 SINGLE NONE 2
WXC N3 C4 DOUBLE NONE 3
WXC C6 C5 SINGLE NONE 4
WXC C6 C7 SINGLE NONE 5
WXC C5 C4 SINGLE NONE 6
WXC C1 N2 DOUBLE NONE 7
WXC C4 C3 SINGLE NONE 8
WXC N2 C2 SINGLE NONE 9
WXC C3 C2 DOUBLE NONE 10
WXC C3 C8 SINGLE NONE 11
WXC C7 C8 SINGLE NONE 12
WXC C8 O1 DOUBLE NONE 13
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
WXC MurckoScaffold S1 scaffold O=C1CCCc2ncncc21 InChI=1S/C8H8N2O/c11-8-3-1-2-7-6(8)4-9-5-10-7/h4-5H,1-3H2 JUXTWKYSGNVPGS-UHFFFAOYSA-N
WXC pyrimidine F1 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
WXC C4 S1 1
WXC C5 S1 1
WXC C6 S1 1
WXC C7 S1 1
WXC C8 S1 1
WXC N2 S1 1
WXC C3 S1 1
WXC N3 S1 1
WXC C1 S1 1
WXC C2 S1 1
WXC O1 S1 1
WXC C3 F1 1
WXC C4 F1 1
WXC N3 F1 1
WXC C1 F1 1
WXC N2 F1 1
WXC C2 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id WXC
_pdbe_chem_comp_rdkit_properties.exactmw 163.075
_pdbe_chem_comp_rdkit_properties.amw 163.180
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 1
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 21
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.375
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 82.587
_pdbe_chem_comp_rdkit_properties.tpsa 68.870
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.088
_pdbe_chem_comp_rdkit_properties.CrippenMR 42.357
_pdbe_chem_comp_rdkit_properties.chi0v 5.750
_pdbe_chem_comp_rdkit_properties.chi1v 3.072
_pdbe_chem_comp_rdkit_properties.chi2v 1.300
_pdbe_chem_comp_rdkit_properties.chi3v 1.300
_pdbe_chem_comp_rdkit_properties.chi4v 0.798
_pdbe_chem_comp_rdkit_properties.chi0n 14.750
_pdbe_chem_comp_rdkit_properties.chi1n 7.467
_pdbe_chem_comp_rdkit_properties.chi2n 1.300
_pdbe_chem_comp_rdkit_properties.chi3n 1.300
_pdbe_chem_comp_rdkit_properties.chi4n 0.798
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.450
_pdbe_chem_comp_rdkit_properties.kappa1 2.278
_pdbe_chem_comp_rdkit_properties.kappa2 2.549
_pdbe_chem_comp_rdkit_properties.kappa3 1.049
_pdbe_chem_comp_rdkit_properties.Phi 0.484
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
WXC UniChem ZINC ZINC000004342570
WXC UniChem eMolecules 2720817
WXC UniChem Mcule MCULE-2610120248
WXC UniChem 'EPA CompTox Dashboard' DTXSID70409420
WXC UniChem SureChEMBL SCHEMBL418947
WXC UniChem PubChem 5200220
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
WXC C4 0.219 -0.540 0.014 ETKDGv3 1
WXC C5 -0.988 -1.419 -0.160 ETKDGv3 2
WXC C6 -2.141 -0.655 -0.827 ETKDGv3 3
WXC C7 -2.495 0.622 -0.050 ETKDGv3 4
WXC C8 -1.296 1.515 0.114 ETKDGv3 5
WXC N1 3.860 -0.862 0.352 ETKDGv3 6
WXC N2 2.447 1.031 0.438 ETKDGv3 7
WXC C3 0.057 0.923 0.188 ETKDGv3 8
WXC N3 1.405 -1.071 0.084 ETKDGv3 9
WXC C1 2.571 -0.257 0.296 ETKDGv3 10
WXC C2 1.159 1.663 0.388 ETKDGv3 11
WXC O1 -1.463 2.758 0.237 ETKDGv3 12
WXC H5 -0.726 -2.298 -0.788 ETKDGv3 13
WXC H4 -1.312 -1.788 0.837 ETKDGv3 14
WXC H6 -1.856 -0.388 -1.869 ETKDGv3 15
WXC H7 -3.035 -1.313 -0.876 ETKDGv3 16
WXC H8 -2.883 0.351 0.956 ETKDGv3 17
WXC H9 -3.295 1.166 -0.595 ETKDGv3 18
WXC H1 4.714 -0.281 0.507 ETKDGv3 19
WXC H2 3.961 -1.895 0.239 ETKDGv3 20
WXC H3 1.095 2.737 0.513 ETKDGv3 21
#