data_WV0
#
_chem_comp.id WV0
_chem_comp.name 5-fluoro-1,3-dihydro-2H-indol-2-one
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C8 H6 F N O'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-10-20
_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 151.138
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code WV0
_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 7FQZ
_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
WV0 N1 N1 N 0 1 N N N N N N 39.408 14.653 -19.208 -1.774 0.980 -0.000 N1 WV0 1
WV0 C4 C1 C 0 1 Y N N N N N 41.521 15.265 -18.004 0.675 1.642 -0.000 C4 WV0 2
WV0 C5 C2 C 0 1 Y N N N N N 42.071 15.444 -16.745 1.971 1.169 0.001 C5 WV0 3
WV0 C6 C3 C 0 1 Y N N N N N 41.298 15.248 -15.633 2.218 -0.194 0.000 C6 WV0 4
WV0 C7 C4 C 0 1 Y N N N N N 39.970 14.878 -15.686 1.156 -1.086 -0.001 C7 WV0 5
WV0 C8 C5 C 0 1 Y N N N N N 39.421 14.696 -16.939 -0.137 -0.614 -0.001 C8 WV0 6
WV0 C1 C6 C 0 1 N N N N N N 38.081 14.316 -17.364 -1.482 -1.303 -0.000 C1 WV0 7
WV0 C2 C7 C 0 1 N N N N N N 38.148 14.314 -18.872 -2.479 -0.164 0.000 C2 WV0 8
WV0 C3 C8 C 0 1 Y N N N N N 40.195 14.897 -18.073 -0.396 0.751 -0.001 C3 WV0 9
WV0 F1 F1 F 0 1 N N N N N N 41.872 15.433 -14.409 3.488 -0.652 0.000 F1 WV0 10
WV0 O2 O1 O 0 1 N N N N N N 37.246 14.040 -19.643 -3.688 -0.265 0.001 O2 WV0 11
WV0 H3 H1 H 0 1 N N N N N N 39.740 14.722 -20.149 -2.175 1.863 -0.004 H3 WV0 12
WV0 H4 H2 H 0 1 N N N N N N 42.110 15.409 -18.898 0.490 2.706 -0.000 H4 WV0 13
WV0 H5 H3 H 0 1 N N N N N N 43.105 15.737 -16.642 2.797 1.864 0.001 H5 WV0 14
WV0 H6 H4 H 0 1 N N N N N N 39.387 14.737 -14.788 1.344 -2.149 -0.001 H6 WV0 15
WV0 H1 H5 H 0 1 N N N N N N 37.339 15.046 -17.009 -1.599 -1.913 -0.896 H1 WV0 16
WV0 H2 H6 H 0 1 N N N N N N 37.822 13.316 -16.985 -1.597 -1.914 0.895 H2 WV0 17
#
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
WV0 O2 C2 DOUB N N 1
WV0 N1 C2 SING N N 2
WV0 N1 C3 SING N N 3
WV0 C2 C1 SING N N 4
WV0 C3 C4 DOUB Y N 5
WV0 C3 C8 SING Y N 6
WV0 C4 C5 SING Y N 7
WV0 C1 C8 SING N N 8
WV0 C8 C7 DOUB Y N 9
WV0 C5 C6 DOUB Y N 10
WV0 C7 C6 SING Y N 11
WV0 C6 F1 SING N N 12
WV0 N1 H3 SING N N 13
WV0 C4 H4 SING N N 14
WV0 C5 H5 SING N N 15
WV0 C7 H6 SING N N 16
WV0 C1 H1 SING N N 17
WV0 C1 H2 SING N N 18
#
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
WV0 SMILES ACDLabs 12.01 'Fc1cc2CC(=O)Nc2cc1'
WV0 InChI InChI 1.06 'InChI=1S/C8H6FNO/c9-6-1-2-7-5(3-6)4-8(11)10-7/h1-3H,4H2,(H,10,11)'
WV0 InChIKey InChI 1.06 DDIIYGHHUMKDGI-UHFFFAOYSA-N
WV0 SMILES_CANONICAL CACTVS 3.385 'Fc1ccc2NC(=O)Cc2c1'
WV0 SMILES CACTVS 3.385 'Fc1ccc2NC(=O)Cc2c1'
WV0 SMILES_CANONICAL 'OpenEye OEToolkits' 2.0.7 'c1cc2c(cc1F)CC(=O)N2'
WV0 SMILES 'OpenEye OEToolkits' 2.0.7 'c1cc2c(cc1F)CC(=O)N2'
#
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
WV0 'SYSTEMATIC NAME' ACDLabs 12.01 5-fluoro-1,3-dihydro-2H-indol-2-one
WV0 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 2.0.7 5-fluoranyl-1,3-dihydroindol-2-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
WV0 'Create component' 2022-10-20 RCSB
WV0 'Initial release' 2022-11-23 RCSB
WV0 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id WV0
_pdbx_chem_comp_pcm.modified_residue_id LYS
_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 C1
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom NZ
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ?
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ?
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
WV0 N1 N 8.316 -0.912 1
WV0 C4 C 5.598 -1.204 2
WV0 C5 C 4.299 -0.455 3
WV0 C6 C 4.299 1.046 4
WV0 C7 C 5.598 1.796 5
WV0 C8 C 6.897 1.046 6
WV0 C1 C 8.316 1.503 7
WV0 C2 C 9.192 0.295 8
WV0 C3 C 6.897 -0.455 9
WV0 F1 F 3.000 1.796 10
WV0 O2 O 10.692 0.295 11
#
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
WV0 O2 C2 DOUBLE NONE 1
WV0 N1 C2 SINGLE NONE 2
WV0 N1 C3 SINGLE NONE 3
WV0 C2 C1 SINGLE NONE 4
WV0 C3 C4 SINGLE NONE 5
WV0 C3 C8 DOUBLE NONE 6
WV0 C4 C5 DOUBLE NONE 7
WV0 C1 C8 SINGLE NONE 8
WV0 C8 C7 SINGLE NONE 9
WV0 C5 C6 SINGLE NONE 10
WV0 C7 C6 DOUBLE NONE 11
WV0 C6 F1 SINGLE NONE 12
#
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
WV0 MurckoScaffold S1 scaffold O=C1Cc2ccccc2N1 InChI=1S/C8H7NO/c10-8-5-6-3-1-2-4-7(6)9-8/h1-4H,5H2,(H,9,10) JYGFTBXVXVMTGB-UHFFFAOYSA-N
WV0 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
WV0 phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-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
WV0 N1 S1 1
WV0 C4 S1 1
WV0 C5 S1 1
WV0 C6 S1 1
WV0 C7 S1 1
WV0 C8 S1 1
WV0 C1 S1 1
WV0 C2 S1 1
WV0 C3 S1 1
WV0 O2 S1 1
WV0 N1 F1 1
WV0 C2 F1 1
WV0 O2 F1 1
WV0 C1 F1 1
WV0 C4 F2 1
WV0 C3 F2 1
WV0 C8 F2 1
WV0 C7 F2 1
WV0 C6 F2 1
WV0 C5 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id WV0
_pdbe_chem_comp_rdkit_properties.exactmw 151.043
_pdbe_chem_comp_rdkit_properties.amw 151.140
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 0
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 1
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 11
_pdbe_chem_comp_rdkit_properties.NumAtoms 17
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.125
_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 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_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 71.520
_pdbe_chem_comp_rdkit_properties.tpsa 29.100
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.885
_pdbe_chem_comp_rdkit_properties.CrippenMR 37.644
_pdbe_chem_comp_rdkit_properties.chi0v 5.233
_pdbe_chem_comp_rdkit_properties.chi1v 2.840
_pdbe_chem_comp_rdkit_properties.chi2v 1.207
_pdbe_chem_comp_rdkit_properties.chi3v 1.207
_pdbe_chem_comp_rdkit_properties.chi4v 0.788
_pdbe_chem_comp_rdkit_properties.chi0n 11.233
_pdbe_chem_comp_rdkit_properties.chi1n 5.788
_pdbe_chem_comp_rdkit_properties.chi2n 1.207
_pdbe_chem_comp_rdkit_properties.chi3n 1.207
_pdbe_chem_comp_rdkit_properties.chi4n 0.788
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.380
_pdbe_chem_comp_rdkit_properties.kappa1 2.588
_pdbe_chem_comp_rdkit_properties.kappa2 2.051
_pdbe_chem_comp_rdkit_properties.kappa3 0.981
_pdbe_chem_comp_rdkit_properties.Phi 0.483
#
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
WV0 UniChem ZINC ZINC000002577869
WV0 UniChem eMolecules 523503
WV0 UniChem fdasrs 4EW64J5JHC
WV0 UniChem CCDC HERMIB
WV0 UniChem SureChEMBL SCHEMBL152963
WV0 UniChem 'PubChem TPHARMA' 14818312
WV0 UniChem PubChem 3731012
WV0 UniChem Mcule MCULE-5170561396
WV0 UniChem ACTor 56341-41-4
WV0 UniChem Nikkaji J416.476H
WV0 UniChem 'EPA CompTox Dashboard' DTXSID40395649
WV0 UniChem ChemicalBook CB3437333
#
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
WV0 N1 1.210 -1.551 -0.339 ETKDGv3 1
WV0 C4 -1.338 -1.231 -0.146 ETKDGv3 2
WV0 C5 -2.321 -0.339 0.064 ETKDGv3 3
WV0 C6 -1.998 1.096 0.301 ETKDGv3 4
WV0 C7 -0.720 1.513 0.306 ETKDGv3 5
WV0 C8 0.348 0.523 0.074 ETKDGv3 6
WV0 C1 1.825 0.761 0.037 ETKDGv3 7
WV0 C2 2.289 -0.634 -0.235 ETKDGv3 8
WV0 C3 0.056 -0.755 -0.137 ETKDGv3 9
WV0 F1 -3.000 1.985 0.512 ETKDGv3 10
WV0 O2 3.495 -0.973 -0.360 ETKDGv3 11
WV0 H3 1.255 -2.577 -0.524 ETKDGv3 12
WV0 H4 -1.565 -2.275 -0.319 ETKDGv3 13
WV0 H5 -3.354 -0.663 0.062 ETKDGv3 14
WV0 H6 -0.476 2.553 0.478 ETKDGv3 15
WV0 H1 2.196 1.123 1.019 ETKDGv3 16
WV0 H2 2.098 1.444 -0.795 ETKDGv3 17
#