data_COI
#
_chem_comp.id COI
_chem_comp.name '2-OXO-4-METHYLPENTANOIC 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 'alpha-ketoisocaproic acid'
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_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 130.142
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code COI
_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 1DXY
_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
COI C1 C1 C 0 1 N N N Y N Y 84.981 55.644 -9.725 1.877 -0.258 0.049 C1 COI 1
COI O1 O1 O 0 1 N Y N Y N Y 85.452 55.613 -8.559 2.077 -1.424 0.316 O1 COI 2
COI O2 O2 O 0 1 N N N Y N Y 83.744 55.554 -9.903 2.913 0.593 -0.068 O2 COI 3
COI C2 C2 C 0 1 N N N N N N 85.808 55.807 -10.852 0.484 0.231 -0.155 C2 COI 4
COI O3 O3 O 0 1 N Y N N N N 86.613 54.915 -11.173 0.284 1.392 -0.421 O3 COI 5
COI C3 C3 C 0 1 N N N N N N 85.706 57.063 -11.712 -0.676 -0.723 -0.030 C3 COI 6
COI C4 C4 C 0 1 N N N N N N 85.522 58.342 -10.884 -1.985 0.027 -0.285 C4 COI 7
COI C5 C5 C 0 1 N N N N N N 86.760 58.644 -10.064 -3.150 -0.964 -0.281 C5 COI 8
COI C6 C6 C 0 1 N N N N N N 85.244 59.496 -11.805 -2.197 1.069 0.815 C6 COI 9
COI HO2 HO2 H 0 1 N Y N Y N Y 83.308 55.469 -9.063 3.798 0.229 0.069 HO2 COI 10
COI H31 H31 H 0 1 N N N N N N 86.628 57.158 -12.304 -0.568 -1.524 -0.762 H31 COI 11
COI H32 H32 H 0 1 N N N N N N 84.845 56.956 -12.388 -0.690 -1.148 0.974 H32 COI 12
COI H4 H4 H 0 1 N N N N N N 84.667 58.205 -10.206 -1.934 0.526 -1.253 H4 COI 13
COI H51 H51 H 0 1 N N N N N N 86.600 59.564 -9.482 -3.200 -1.462 0.687 H51 COI 14
COI H52 H52 H 0 1 N N N N N N 86.959 57.807 -9.379 -4.082 -0.429 -0.463 H52 COI 15
COI H53 H53 H 0 1 N N N N N N 87.620 58.780 -10.736 -2.999 -1.706 -1.065 H53 COI 16
COI H61 H61 H 0 1 N N N N N N 85.112 60.414 -11.214 -3.129 1.604 0.633 H61 COI 17
COI H62 H62 H 0 1 N N N N N N 86.089 59.624 -12.497 -2.247 0.571 1.783 H62 COI 18
COI H63 H63 H 0 1 N N N N N N 84.327 59.294 -12.379 -1.367 1.775 0.812 H63 COI 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
COI C1 O1 DOUB N N 1
COI C1 O2 SING N N 2
COI C1 C2 SING N N 3
COI O2 HO2 SING N N 4
COI C2 O3 DOUB N N 5
COI C2 C3 SING N N 6
COI C3 C4 SING N N 7
COI C3 H31 SING N N 8
COI C3 H32 SING N N 9
COI C4 C5 SING N N 10
COI C4 C6 SING N N 11
COI C4 H4 SING N N 12
COI C5 H51 SING N N 13
COI C5 H52 SING N N 14
COI C5 H53 SING N N 15
COI C6 H61 SING N N 16
COI C6 H62 SING N N 17
COI C6 H63 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
COI SMILES ACDLabs 12.01 'O=C(C(=O)O)CC(C)C'
COI InChI InChI 1.03 'InChI=1S/C6H10O3/c1-4(2)3-5(7)6(8)9/h4H,3H2,1-2H3,(H,8,9)'
COI InChIKey InChI 1.03 BKAJNAXTPSGJCU-UHFFFAOYSA-N
COI SMILES_CANONICAL CACTVS 3.370 'CC(C)CC(=O)C(O)=O'
COI SMILES CACTVS 3.370 'CC(C)CC(=O)C(O)=O'
COI SMILES_CANONICAL 'OpenEye OEToolkits' 1.7.6 'CC(C)CC(=O)C(=O)O'
COI SMILES 'OpenEye OEToolkits' 1.7.6 'CC(C)CC(=O)C(=O)O'
#
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
COI 'SYSTEMATIC NAME' ACDLabs 12.01 '4-methyl-2-oxopentanoic acid'
COI 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.7.6 '4-methyl-2-oxidanylidene-pentanoic 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
COI 'Create component' 1999-07-08 RCSB
COI 'Modify descriptor' 2011-06-04 RCSB
COI 'Modify leaving atom flag' 2012-03-12 RCSB
COI 'Modify synonyms' 2013-05-29 RCSB
COI 'Modify synonyms' 2021-03-01 PDBE
COI 'Modify backbone' 2023-11-03 PDBE
COI 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id COI
_pdbx_chem_comp_synonyms.name 'alpha-ketoisocaproic acid'
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
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
1 COI ? None 'Non-standard residue' 'Amino-acid side chain and backbone' N-terminal ? ? ? ?
2 COI HIS None 'Covalent chemical modification' 'Amino-acid side chain' 'Any position' C2 NE2 ? ?
#
_pdbe_chem_comp_drugbank_details.comp_id COI
_pdbe_chem_comp_drugbank_details.drugbank_id DB03229
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name 'alpha-Ketoisocaproic acid'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number 816-66-0
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
COI 'alpha-ketoisocaproic acid' wwPDB ?
COI '2-oxo-4-methylpentanoic acid' DrugBank ?
COI 2-Oxoisocaproate DrugBank ?
COI 2-oxoleucine DrugBank ?
COI 4-Methyl-2-oxopentanoate DrugBank ?
COI '4-methyl-2-oxopentanoic acid' DrugBank ?
COI '4-methyl-2-oxovaleric acid' DrugBank ?
COI alpha-Ketoisocaproate DrugBank ?
COI 'alpha-Ketoisocaproic acid' DrugBank ?
COI Ketoleucine DrugBank ?
COI 'α-ketoisocaproic acid' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id COI
_pdbe_chem_comp_drugbank_classification.drugbank_id DB03229
_pdbe_chem_comp_drugbank_classification.parent 'Short-chain keto acids and derivatives'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Keto acids and derivatives'
_pdbe_chem_comp_drugbank_classification.superclass 'Organic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as short-chain keto acids and derivatives. These are keto acids with an alkyl chain the contains less than 6 carbon atoms.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
COI DB03229 'Deacetoxycephalosporin C synthase' 'Streptomyces clavuligerus (strain ATCC 27064 / DSM 738 / JCM 4710 / NBRC 13307 / NCIMB 12785 / NRRL 3585 / VKM Ac-602)' P18548 unknown 1
COI DB03229 'D-2-hydroxyacid dehydrogenase (NAD+)' 'Lactobacillus paracasei' P17584 unknown 2
#
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
COI C1 C 8.196 0.375 1
COI O1 O 9.495 -0.375 2
COI O2 O 8.196 1.875 3
COI C2 C 6.897 -0.375 4
COI O3 O 6.897 -1.875 5
COI C3 C 5.598 0.375 6
COI C4 C 4.299 -0.375 7
COI C5 C 3.000 0.375 8
COI C6 C 4.299 -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
COI C1 O1 DOUBLE NONE 1
COI C1 O2 SINGLE NONE 2
COI C1 C2 SINGLE NONE 3
COI C2 O3 DOUBLE NONE 4
COI C2 C3 SINGLE NONE 5
COI C3 C4 SINGLE NONE 6
COI C4 C5 SINGLE NONE 7
COI C4 C6 SINGLE NONE 8
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id COI
_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 0.686
_pdbe_chem_comp_rdkit_properties.CrippenMR 32.098
_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 0.165
_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 0.165
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.860
_pdbe_chem_comp_rdkit_properties.kappa1 1.413
_pdbe_chem_comp_rdkit_properties.kappa2 3.222
_pdbe_chem_comp_rdkit_properties.kappa3 3.700
_pdbe_chem_comp_rdkit_properties.Phi 0.506
#
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
COI UniChem DrugBank DB03229
COI UniChem 'Guide to Pharmacology' 4656
COI UniChem 'KEGG LIGAND' C00233
COI UniChem ChEBI 48430
COI UniChem ZINC ZINC000001532578
COI UniChem eMolecules 529078
COI UniChem fdasrs 4GUJ8AH400
COI UniChem SureChEMBL SCHEMBL43491
COI UniChem HMDB HMDB0000695
COI UniChem NMRShiftDB 60019644
COI UniChem ACTor 816-66-0
COI UniChem Nikkaji J39.557I
COI UniChem BindingDb 50390988
COI UniChem 'EPA CompTox Dashboard' DTXSID6061157
COI UniChem MetaboLights MTBLC48430
COI UniChem BRENDA 1039
COI UniChem BRENDA 112656
COI UniChem BRENDA 114852
COI UniChem BRENDA 1174
COI UniChem BRENDA 126330
COI UniChem BRENDA 13251
COI UniChem BRENDA 136121
COI UniChem BRENDA 188907
COI UniChem BRENDA 19410
COI UniChem BRENDA 19739
COI UniChem BRENDA 21234
COI UniChem BRENDA 253495
COI UniChem BRENDA 27233
COI UniChem BRENDA 2785
COI UniChem BRENDA 3372
COI UniChem BRENDA 4334
COI UniChem BRENDA 57381
COI UniChem BRENDA 91727
COI UniChem BRENDA 96122
COI UniChem ChemicalBook CB5157543
COI UniChem MedChemExpress HY-W012722
COI UniChem 'Probes And Drugs' PD007318
COI UniChem 'PubChem TPHARMA' 15218977
COI UniChem PubChem 70
COI UniChem Mcule MCULE-4155006996
#
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
COI C1 2.400 -0.226 0.475 ETKDGv3 1
COI O1 2.142 -1.426 0.758 ETKDGv3 2
COI O2 3.694 0.134 0.112 ETKDGv3 3
COI C2 1.343 0.799 0.520 ETKDGv3 4
COI O3 1.627 1.987 0.210 ETKDGv3 5
COI C3 -0.074 0.460 0.901 ETKDGv3 6
COI C4 -0.993 0.357 -0.334 ETKDGv3 7
COI C5 -0.616 -0.838 -1.223 ETKDGv3 8
COI C6 -2.458 0.240 0.106 ETKDGv3 9
COI HO2 4.434 -0.557 0.073 ETKDGv3 10
COI H31 -0.109 -0.485 1.485 ETKDGv3 11
COI H32 -0.447 1.265 1.571 ETKDGv3 12
COI H4 -0.895 1.287 -0.937 ETKDGv3 13
COI H51 -1.311 -0.908 -2.087 ETKDGv3 14
COI H52 -0.664 -1.786 -0.647 ETKDGv3 15
COI H53 0.410 -0.712 -1.628 ETKDGv3 16
COI H61 -2.612 -0.677 0.715 ETKDGv3 17
COI H62 -3.124 0.197 -0.782 ETKDGv3 18
COI H63 -2.749 1.125 0.710 ETKDGv3 19
#