data_4Y8
#
_chem_comp.id 4Y8
_chem_comp.name 1-hydroxypropan-2-one
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C3 H6 O2'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2015-03-05
_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 74.079
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 4Y8
_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 4YGW
_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
4Y8 O O1 O 0 1 N N N N N N 7.556 2.225 12.679 0.435 -1.270 0.000 O 4Y8 1
4Y8 C C1 C 0 1 N N N N N N 6.832 2.273 13.659 0.528 -0.066 0.002 C 4Y8 2
4Y8 CM2 C2 C 0 1 N N N N N N 6.053 3.512 13.995 1.888 0.584 -0.001 CM2 4Y8 3
4Y8 CM1 C3 C 0 1 N N N N N N 6.790 1.132 14.634 -0.714 0.787 0.001 CM1 4Y8 4
4Y8 O1 O2 O 0 1 N Y N N N N 5.183 0.622 14.841 -1.869 -0.055 -0.001 O1 4Y8 5
4Y8 H1 H1 H 0 1 N N N N N N 6.256 4.288 13.243 2.212 0.743 -1.030 H1 4Y8 6
4Y8 H2 H2 H 0 1 N N N N N N 4.978 3.279 14.001 1.834 1.543 0.514 H2 4Y8 7
4Y8 H3 H3 H 0 1 N N N N N N 6.354 3.876 14.988 2.601 -0.063 0.509 H3 4Y8 8
4Y8 H4 H4 H 0 1 N N N N N N 7.393 0.297 14.247 -0.725 1.415 0.892 H4 4Y8 9
4Y8 H5 H5 H 0 1 N N N N N N 7.198 1.461 15.601 -0.722 1.417 -0.888 H5 4Y8 10
4Y8 H6 H6 H 0 1 N N N N N N 5.156 -0.100 15.458 -2.707 0.427 -0.002 H6 4Y8 11
#
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
4Y8 O C DOUB N N 1
4Y8 C CM2 SING N N 2
4Y8 C CM1 SING N N 3
4Y8 CM1 O1 SING N N 4
4Y8 CM2 H1 SING N N 5
4Y8 CM2 H2 SING N N 6
4Y8 CM2 H3 SING N N 7
4Y8 CM1 H4 SING N N 8
4Y8 CM1 H5 SING N N 9
4Y8 O1 H6 SING N N 10
#
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
4Y8 SMILES ACDLabs 12.01 'O=C(C)CO'
4Y8 InChI InChI 1.03 'InChI=1S/C3H6O2/c1-3(5)2-4/h4H,2H2,1H3'
4Y8 InChIKey InChI 1.03 XLSMFKSTNGKWQX-UHFFFAOYSA-N
4Y8 SMILES_CANONICAL CACTVS 3.385 'CC(=O)CO'
4Y8 SMILES CACTVS 3.385 'CC(=O)CO'
4Y8 SMILES_CANONICAL 'OpenEye OEToolkits' 1.9.2 'CC(=O)CO'
4Y8 SMILES 'OpenEye OEToolkits' 1.9.2 'CC(=O)CO'
#
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
4Y8 'SYSTEMATIC NAME' ACDLabs 12.01 1-hydroxypropan-2-one
4Y8 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.9.2 1-oxidanylpropan-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
4Y8 'Create component' 2015-03-05 RCSB
4Y8 'Initial release' 2015-07-01 RCSB
4Y8 'Modify PCM' 2024-09-27 PDBE
#
loop_
_pdbx_chem_comp_pcm.pcm_id
_pdbx_chem_comp_pcm.comp_id
_pdbx_chem_comp_pcm.modified_residue_id
_pdbx_chem_comp_pcm.type
_pdbx_chem_comp_pcm.category
_pdbx_chem_comp_pcm.position
_pdbx_chem_comp_pcm.polypeptide_position
_pdbx_chem_comp_pcm.comp_id_linking_atom
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession
_pdbx_chem_comp_pcm.first_instance_model_db_code
1 4Y8 LYS None 'Covalent chemical modification' 'Amino-acid side chain' 'Any position' C NZ ? ? 5ZOL
2 4Y8 CYS None 'Covalent chemical modification' 'Amino-acid side chain' 'Any position' CM1 SG ? ? 9CFI
#
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
4Y8 O O 4.299 -1.125 1
4Y8 C C 4.299 0.375 2
4Y8 CM2 C 3.000 1.125 3
4Y8 CM1 C 5.598 1.125 4
4Y8 O1 O 6.897 0.375 5
#
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
4Y8 O C DOUBLE NONE 1
4Y8 C CM2 SINGLE NONE 2
4Y8 C CM1 SINGLE NONE 3
4Y8 CM1 O1 SINGLE NONE 4
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id 4Y8
_pdbe_chem_comp_rdkit_properties.exactmw 74.037
_pdbe_chem_comp_rdkit_properties.amw 74.079
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 5
_pdbe_chem_comp_rdkit_properties.NumAtoms 11
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 2
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.667
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_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 38.941
_pdbe_chem_comp_rdkit_properties.tpsa 37.300
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.432
_pdbe_chem_comp_rdkit_properties.CrippenMR 17.767
_pdbe_chem_comp_rdkit_properties.chi0v 2.316
_pdbe_chem_comp_rdkit_properties.chi1v 0.908
_pdbe_chem_comp_rdkit_properties.chi2v 0.093
_pdbe_chem_comp_rdkit_properties.chi3v 0.093
_pdbe_chem_comp_rdkit_properties.chi4v 0
_pdbe_chem_comp_rdkit_properties.chi0n 8.316
_pdbe_chem_comp_rdkit_properties.chi1n 3.816
_pdbe_chem_comp_rdkit_properties.chi2n 0.093
_pdbe_chem_comp_rdkit_properties.chi3n 0.093
_pdbe_chem_comp_rdkit_properties.chi4n 0
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.370
_pdbe_chem_comp_rdkit_properties.kappa1 0.658
_pdbe_chem_comp_rdkit_properties.kappa2 1.905
_pdbe_chem_comp_rdkit_properties.kappa3 3.630
_pdbe_chem_comp_rdkit_properties.Phi 0.251
#
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
4Y8 UniChem PDBe 4Y8
4Y8 UniChem 'KEGG LIGAND' C05235
4Y8 UniChem ChEBI 27957
4Y8 UniChem ZINC ZINC000000895664
4Y8 UniChem eMolecules 481056
4Y8 UniChem fdasrs 7I7YM0835W
4Y8 UniChem SureChEMBL SCHEMBL19043
4Y8 UniChem HMDB HMDB0006961
4Y8 UniChem 'PubChem TPHARMA' 15041191
4Y8 UniChem NMRShiftDB 20208160
4Y8 UniChem Recon acetol
4Y8 UniChem MetaboLights MTBLC27957
4Y8 UniChem BRENDA 104230
4Y8 UniChem BRENDA 106271
4Y8 UniChem BRENDA 12408
4Y8 UniChem BRENDA 124498
4Y8 UniChem BRENDA 235833
4Y8 UniChem BRENDA 3210
4Y8 UniChem BRENDA 48414
4Y8 UniChem BRENDA 48415
4Y8 UniChem BRENDA 90528
4Y8 UniChem Rhea 27957
4Y8 UniChem ChemicalBook CB0714802
4Y8 UniChem MedChemExpress HY-Y1366
4Y8 UniChem 'Probes And Drugs' PD158451
4Y8 UniChem 'EPA CompTox Dashboard' DTXSID8051590
4Y8 UniChem PubChem 8299
4Y8 UniChem Mcule MCULE-2989526028
4Y8 UniChem ACTor 116-09-6
4Y8 UniChem Nikkaji J2.470H
#
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
4Y8 O 0.512 -1.880 -0.380 ETKDGv3 1
4Y8 C 0.247 -0.724 -0.088 ETKDGv3 2
4Y8 CM2 1.363 0.223 0.248 ETKDGv3 3
4Y8 CM1 -1.195 -0.288 -0.078 ETKDGv3 4
4Y8 O1 -1.325 1.067 0.264 ETKDGv3 5
4Y8 H1 1.208 0.639 1.265 ETKDGv3 6
4Y8 H2 2.342 -0.300 0.224 ETKDGv3 7
4Y8 H3 1.386 1.052 -0.490 ETKDGv3 8
4Y8 H4 -1.652 -0.482 -1.075 ETKDGv3 9
4Y8 H5 -1.746 -0.895 0.671 ETKDGv3 10
4Y8 H6 -1.140 1.588 -0.561 ETKDGv3 11
#