data_7N5
#
_chem_comp.id 7N5
_chem_comp.name "2-Ketohexanoic acid"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C6 H10 O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2016-11-23
_chem_comp.pdbx_modified_date 2023-01-25
_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 130.142
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 7N5
_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 5MH5
_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
7N5 C3 C1 C 0 1 N N N N N N -22.627 -9.586 -15.129 0.447 -0.577 0.000 C3 7N5 1
7N5 C5 C2 C 0 1 N N N N N N -20.371 -10.424 -14.535 2.945 -0.655 0.000 C5 7N5 2
7N5 C4 C3 C 0 1 N N N N N N -21.401 -9.341 -14.272 1.724 0.267 -0.000 C4 7N5 3
7N5 C2 C4 C 0 1 N N N N N N -23.796 -8.690 -14.812 -0.755 0.332 -0.000 C2 7N5 4
7N5 C6 C5 C 0 1 N N N N N N -19.030 -10.145 -13.888 4.221 0.188 -0.000 C6 7N5 5
7N5 C1 C6 C 0 1 N N N N N N -25.049 -8.846 -15.533 -2.128 -0.249 0.000 C1 7N5 6
7N5 O1A O1 O 0 1 N N N N N N -25.095 -9.489 -16.609 -2.277 -1.453 0.000 O1A 7N5 7
7N5 O1B O2 O 0 1 N N N N N N -26.075 -8.291 -15.044 -3.202 0.562 -0.000 O1B 7N5 8
7N5 O2 O3 O 0 1 N N N N N N -23.740 -7.858 -13.930 -0.607 1.530 -0.000 O2 7N5 9
7N5 H1 H1 H 0 1 N N N N N N -22.944 -10.629 -14.986 0.428 -1.206 -0.890 H1 7N5 10
7N5 H2 H2 H 0 1 N N N N N N -22.348 -9.429 -16.181 0.428 -1.206 0.890 H2 7N5 11
7N5 H3 H3 H 0 1 N N N N N N -20.757 -11.376 -14.142 2.925 -1.284 0.890 H3 7N5 12
7N5 H4 H4 H 0 1 N N N N N N -20.223 -10.509 -15.622 2.925 -1.284 -0.890 H4 7N5 13
7N5 H5 H5 H 0 1 N N N N N N -20.971 -8.359 -14.520 1.744 0.896 -0.890 H5 7N5 14
7N5 H6 H6 H 0 1 N N N N N N -21.687 -9.358 -13.210 1.744 0.896 0.890 H6 7N5 15
7N5 H7 H7 H 0 1 N N N N N N -18.334 -10.965 -14.117 4.241 0.817 -0.890 H7 7N5 16
7N5 H8 H8 H 0 1 N N N N N N -18.624 -9.200 -14.278 4.241 0.817 0.890 H8 7N5 17
7N5 H9 H9 H 0 1 N N N N N N -19.158 -10.067 -12.798 5.091 -0.469 0.000 H9 7N5 18
7N5 H10 H10 H 0 1 N N N N N N -26.821 -8.448 -15.611 -4.071 0.139 0.000 H10 7N5 19
#
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
7N5 O1A C1 DOUB N N 1
7N5 C1 O1B SING N N 2
7N5 C1 C2 SING N N 3
7N5 C3 C2 SING N N 4
7N5 C3 C4 SING N N 5
7N5 C2 O2 DOUB N N 6
7N5 C5 C4 SING N N 7
7N5 C5 C6 SING N N 8
7N5 C3 H1 SING N N 9
7N5 C3 H2 SING N N 10
7N5 C5 H3 SING N N 11
7N5 C5 H4 SING N N 12
7N5 C4 H5 SING N N 13
7N5 C4 H6 SING N N 14
7N5 C6 H7 SING N N 15
7N5 C6 H8 SING N N 16
7N5 C6 H9 SING N N 17
7N5 O1B H10 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
7N5 InChI InChI 1.06 InChI=1S/C6H10O3/c1-2-3-4-5(7)6(8)9/h2-4H2,1H3,(H,8,9)
7N5 InChIKey InChI 1.06 XNIHZNNZJHYHLC-UHFFFAOYSA-N
7N5 SMILES_CANONICAL CACTVS 3.385 CCCCC(=O)C(O)=O
7N5 SMILES CACTVS 3.385 CCCCC(=O)C(O)=O
7N5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 CCCCC(=O)C(=O)O
7N5 SMILES "OpenEye OEToolkits" 2.0.7 CCCCC(=O)C(=O)O
#
_pdbx_chem_comp_identifier.comp_id 7N5
_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-oxidanylidenehexanoic acid"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
7N5 'Create component' 2016-11-23 RCSB
7N5 'Initial release' 2018-05-02 RCSB
7N5 'Modify atom id' 2022-12-06 PDBE
7N5 'Modify atom id' 2023-01-25 PDBE
#
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
7N5 C3 C 6.897 0.375 1
7N5 C5 C 4.299 0.375 2
7N5 C4 C 5.598 -0.375 3
7N5 C2 C 8.196 -0.375 4
7N5 C6 C 3.000 -0.375 5
7N5 C1 C 9.495 0.375 6
7N5 O1A O 10.794 -0.375 7
7N5 O1B O 9.495 1.875 8
7N5 O2 O 8.196 -1.875 9
#
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
7N5 O1A C1 DOUBLE NONE 1
7N5 C1 O1B SINGLE NONE 2
7N5 C1 C2 SINGLE NONE 3
7N5 C3 C2 SINGLE NONE 4
7N5 C3 C4 SINGLE NONE 5
7N5 C2 O2 DOUBLE NONE 6
7N5 C5 C4 SINGLE NONE 7
7N5 C5 C6 SINGLE NONE 8
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id 7N5
_pdbe_chem_comp_rdkit_properties.exactmw 130.063
_pdbe_chem_comp_rdkit_properties.amw 130.143
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 9
_pdbe_chem_comp_rdkit_properties.NumAtoms 19
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_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 67.818
_pdbe_chem_comp_rdkit_properties.tpsa 54.370
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.830
_pdbe_chem_comp_rdkit_properties.CrippenMR 32.168
_pdbe_chem_comp_rdkit_properties.chi0v 4.225
_pdbe_chem_comp_rdkit_properties.chi1v 1.862
_pdbe_chem_comp_rdkit_properties.chi2v 0.424
_pdbe_chem_comp_rdkit_properties.chi3v 0.424
_pdbe_chem_comp_rdkit_properties.chi4v 0.139
_pdbe_chem_comp_rdkit_properties.chi0n 14.225
_pdbe_chem_comp_rdkit_properties.chi1n 6.771
_pdbe_chem_comp_rdkit_properties.chi2n 0.424
_pdbe_chem_comp_rdkit_properties.chi3n 0.424
_pdbe_chem_comp_rdkit_properties.chi4n 0.139
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.860
_pdbe_chem_comp_rdkit_properties.kappa1 1.413
_pdbe_chem_comp_rdkit_properties.kappa2 4.062
_pdbe_chem_comp_rdkit_properties.kappa3 3.700
_pdbe_chem_comp_rdkit_properties.Phi 0.638
#
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
7N5 UniChem ChEMBL CHEMBL3247426
7N5 UniChem PDBe 7N5
7N5 UniChem 'KEGG LIGAND' C00902
7N5 UniChem ChEBI 17308
7N5 UniChem ZINC ZINC000001532776
7N5 UniChem SureChEMBL SCHEMBL60653
7N5 UniChem HMDB HMDB0001864
7N5 UniChem NMRShiftDB 60024703
7N5 UniChem ACTor 2492-75-3
7N5 UniChem Nikkaji J206.093K
7N5 UniChem 'EPA CompTox Dashboard' DTXSID70179631
7N5 UniChem LipidMaps LMFA01060007
7N5 UniChem MetaboLights MTBLC17308
7N5 UniChem BRENDA 1100
7N5 UniChem BRENDA 136234
7N5 UniChem BRENDA 14934
7N5 UniChem BRENDA 2682
7N5 UniChem BRENDA 4407
7N5 UniChem BRENDA 7662
7N5 UniChem BRENDA 92389
7N5 UniChem ChemicalBook CB81235412
7N5 UniChem PubChem 159664
7N5 UniChem 'PubChem TPHARMA' 15218979
#
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
7N5 C3 0.409 -0.634 0.069 ETKDGv3 1
7N5 C5 -1.879 0.408 -0.383 ETKDGv3 2
7N5 C4 -0.506 0.579 0.285 ETKDGv3 3
7N5 C2 1.775 -0.370 0.637 ETKDGv3 4
7N5 C6 -2.753 -0.632 0.318 ETKDGv3 5
7N5 C1 2.808 0.332 -0.142 ETKDGv3 6
7N5 O1A 2.567 0.724 -1.316 ETKDGv3 7
7N5 O1B 4.058 0.567 0.421 ETKDGv3 8
7N5 O2 2.030 -0.725 1.819 ETKDGv3 9
7N5 H1 -0.020 -1.527 0.570 ETKDGv3 10
7N5 H2 0.492 -0.862 -1.016 ETKDGv3 11
7N5 H3 -2.409 1.385 -0.351 ETKDGv3 12
7N5 H4 -1.753 0.130 -1.452 ETKDGv3 13
7N5 H5 -0.022 1.479 -0.154 ETKDGv3 14
7N5 H6 -0.637 0.765 1.374 ETKDGv3 15
7N5 H7 -3.767 -0.626 -0.134 ETKDGv3 16
7N5 H8 -2.847 -0.395 1.400 ETKDGv3 17
7N5 H9 -2.327 -1.649 0.197 ETKDGv3 18
7N5 H10 4.781 1.050 -0.100 ETKDGv3 19
#