data_KMT
#
_chem_comp.id KMT
_chem_comp.name "4-(METHYLSULFANYL)-2-OXOBUTANOIC ACID"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C5 H8 O3 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2003-10-20
_chem_comp.pdbx_modified_date 2011-06-04
_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 148.180
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code KMT
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1V2E
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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
KMT C1 C1 C 0 1 N N N N N N 42.833 79.472 23.814 0.256 0.000 -2.555 C1 KMT 1
KMT O1 O1 O 0 1 N N N N N N 42.700 80.557 23.433 -0.515 0.000 -3.657 O1 KMT 2
KMT O2 O2 O 0 1 N N N N N N 41.897 78.625 24.131 1.464 0.000 -2.661 O2 KMT 3
KMT C2 C2 C 0 1 N N N N N N 44.209 78.939 23.962 -0.373 0.000 -1.204 C2 KMT 4
KMT O5 O5 O 0 1 N N N N N N 44.956 79.491 24.812 -1.576 0.000 -1.099 O5 KMT 5
KMT C3 C3 C 0 1 N N N N N N 44.649 77.814 23.127 0.491 0.000 0.030 C3 KMT 6
KMT C4 C4 C 0 1 N N N N N N 44.728 78.294 21.675 -0.397 0.000 1.275 C4 KMT 7
KMT S1 S1 S 0 1 N N N N N N 45.230 77.041 20.546 0.642 0.000 2.761 S1 KMT 8
KMT C5 C5 C 0 1 N N N N N N 43.912 75.801 20.648 -0.639 0.000 4.044 C5 KMT 9
KMT HO1 HO1 H 0 1 N N N N N N 43.383 81.175 23.201 -0.106 0.000 -4.534 HO1 KMT 10
KMT H31 1H3 H 0 1 N N N N N N 45.605 77.363 23.482 1.120 0.890 0.033 H31 KMT 11
KMT H32 2H3 H 0 1 N N N N N N 44.003 76.912 23.246 1.120 -0.890 0.033 H32 KMT 12
KMT H41 1H4 H 0 1 N N N N N N 43.760 78.747 21.356 -1.027 -0.890 1.272 H41 KMT 13
KMT H42 2H4 H 0 1 N N N N N N 45.388 79.188 21.590 -1.027 0.890 1.272 H42 KMT 14
KMT H51 1H5 H 0 1 N N N N N N 44.230 75.007 19.932 -0.170 0.000 5.027 H51 KMT 15
KMT H52 2H5 H 0 1 N N N N N N 43.709 75.432 21.680 -1.260 0.890 3.937 H52 KMT 16
KMT H53 3H5 H 0 1 N N N N N N 42.889 76.203 20.460 -1.260 -0.890 3.937 H53 KMT 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
KMT C1 O1 SING N N 1
KMT C1 O2 DOUB N N 2
KMT C1 C2 SING N N 3
KMT O1 HO1 SING N N 4
KMT C2 O5 DOUB N N 5
KMT C2 C3 SING N N 6
KMT C3 C4 SING N N 7
KMT C3 H31 SING N N 8
KMT C3 H32 SING N N 9
KMT C4 S1 SING N N 10
KMT C4 H41 SING N N 11
KMT C4 H42 SING N N 12
KMT S1 C5 SING N N 13
KMT C5 H51 SING N N 14
KMT C5 H52 SING N N 15
KMT C5 H53 SING N N 16
#
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
KMT SMILES ACDLabs 10.04 O=C(O)C(=O)CCSC
KMT SMILES_CANONICAL CACTVS 3.341 CSCCC(=O)C(O)=O
KMT SMILES CACTVS 3.341 CSCCC(=O)C(O)=O
KMT SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 CSCCC(=O)C(=O)O
KMT SMILES "OpenEye OEToolkits" 1.5.0 CSCCC(=O)C(=O)O
KMT InChI InChI 1.03 InChI=1S/C5H8O3S/c1-9-3-2-4(6)5(7)8/h2-3H2,1H3,(H,7,8)
KMT InChIKey InChI 1.03 SXFSQZDSUWACKX-UHFFFAOYSA-N
#
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
KMT "SYSTEMATIC NAME" ACDLabs 10.04 "4-(methylsulfanyl)-2-oxobutanoic acid"
KMT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "4-methylsulfanyl-2-oxo-butanoic 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
KMT 'Create component' 2003-10-20 RCSB
KMT 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id KMT
_pdbe_chem_comp_drugbank_details.drugbank_id DB02238
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name '4-methylthio-2-oxobutanoic acid'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number 583-92-6
_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
KMT '2-Keto-4-methylthiobutyric acid' DrugBank ?
KMT '2-Oxo-4-thiomethylbutyric acid' DrugBank ?
KMT 4-Methylmercapto-2-oxobutyrate DrugBank ?
KMT '4-Methylthio-2-ketobutyric acid' DrugBank ?
KMT alpha-Keto-gamma-methiolbutyrate DrugBank ?
KMT alpha-Ketomethionine DrugBank ?
KMT 'gamma-Methiol-keto-butyric acid' DrugBank ?
KMT 'S-Methyl-alpha-ketobutyric acid' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id KMT
_pdbe_chem_comp_drugbank_classification.drugbank_id DB02238
_pdbe_chem_comp_drugbank_classification.parent 'Thia fatty acids'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Fatty Acyls'
_pdbe_chem_comp_drugbank_classification.superclass 'Lipids and lipid-like molecules'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as thia fatty acids. These are fatty acid derivatives obtained by insertion of a sulfur atom at specific positions in the chain.'
#
_pdbe_chem_comp_drugbank_targets.comp_id KMT
_pdbe_chem_comp_drugbank_targets.drugbank_id DB02238
_pdbe_chem_comp_drugbank_targets.name Aminotransferase
_pdbe_chem_comp_drugbank_targets.organism 'Thermus thermophilus'
_pdbe_chem_comp_drugbank_targets.uniprot_id Q75WK2
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
KMT C1 C 9.495 0.375 1
KMT O1 O 10.794 -0.375 2
KMT O2 O 9.495 1.875 3
KMT C2 C 8.196 -0.375 4
KMT O5 O 8.196 -1.875 5
KMT C3 C 6.897 0.375 6
KMT C4 C 5.598 -0.375 7
KMT S1 S 4.299 0.375 8
KMT C5 C 3.000 -0.375 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
KMT C1 O1 SINGLE NONE 1
KMT C1 O2 DOUBLE NONE 2
KMT C1 C2 SINGLE NONE 3
KMT C2 O5 DOUBLE NONE 4
KMT C2 C3 SINGLE NONE 5
KMT C3 C4 SINGLE NONE 6
KMT C4 S1 SINGLE NONE 7
KMT S1 C5 SINGLE NONE 8
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id KMT
_pdbe_chem_comp_rdkit_properties.exactmw 148.019
_pdbe_chem_comp_rdkit_properties.amw 148.183
_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 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 9
_pdbe_chem_comp_rdkit_properties.NumAtoms 17
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.600
_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 68.766
_pdbe_chem_comp_rdkit_properties.tpsa 54.370
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.393
_pdbe_chem_comp_rdkit_properties.CrippenMR 35.642
_pdbe_chem_comp_rdkit_properties.chi0v 4.949
_pdbe_chem_comp_rdkit_properties.chi1v 2.587
_pdbe_chem_comp_rdkit_properties.chi2v 0.605
_pdbe_chem_comp_rdkit_properties.chi3v 0.605
_pdbe_chem_comp_rdkit_properties.chi4v 0.267
_pdbe_chem_comp_rdkit_properties.chi0n 12.133
_pdbe_chem_comp_rdkit_properties.chi1n 5.679
_pdbe_chem_comp_rdkit_properties.chi2n 0.401
_pdbe_chem_comp_rdkit_properties.chi3n 0.401
_pdbe_chem_comp_rdkit_properties.chi4n 0.123
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.510
_pdbe_chem_comp_rdkit_properties.kappa1 1.985
_pdbe_chem_comp_rdkit_properties.kappa2 4.377
_pdbe_chem_comp_rdkit_properties.kappa3 4.024
_pdbe_chem_comp_rdkit_properties.Phi 0.965
#
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
KMT UniChem ChEMBL CHEMBL1233860
KMT UniChem DrugBank DB02238
KMT UniChem PDBe KMT
KMT UniChem 'KEGG LIGAND' C01180
KMT UniChem ChEBI 33574
KMT UniChem ZINC ZINC000001532883
KMT UniChem fdasrs 286060413U
KMT UniChem SureChEMBL SCHEMBL126896
KMT UniChem HMDB HMDB0001553
KMT UniChem NMRShiftDB 60021057
KMT UniChem ACTor 583-92-6
KMT UniChem BindingDb 154571
KMT UniChem 'EPA CompTox Dashboard' DTXSID50207027
KMT UniChem LipidMaps LMFA01060170
KMT UniChem MetaboLights MTBLC33574
KMT UniChem BRENDA 104634
KMT UniChem BRENDA 108155
KMT UniChem BRENDA 108359
KMT UniChem BRENDA 114851
KMT UniChem BRENDA 120540
KMT UniChem BRENDA 123551
KMT UniChem BRENDA 13262
KMT UniChem BRENDA 136956
KMT UniChem BRENDA 136957
KMT UniChem BRENDA 145525
KMT UniChem BRENDA 1550
KMT UniChem BRENDA 157322
KMT UniChem BRENDA 16061
KMT UniChem BRENDA 163592
KMT UniChem BRENDA 175252
KMT UniChem BRENDA 20014
KMT UniChem BRENDA 23837
KMT UniChem BRENDA 2680
KMT UniChem BRENDA 27232
KMT UniChem BRENDA 33102
KMT UniChem BRENDA 36692
KMT UniChem BRENDA 4211
KMT UniChem BRENDA 4351
KMT UniChem BRENDA 45128
KMT UniChem BRENDA 48268
KMT UniChem BRENDA 5100
KMT UniChem BRENDA 57982
KMT UniChem BRENDA 63083
KMT UniChem BRENDA 91155
KMT UniChem BRENDA 91740
KMT UniChem BRENDA 91741
KMT UniChem BRENDA 9850
KMT UniChem 'Probes And Drugs' PD008115
KMT UniChem Nikkaji J39.561G
KMT UniChem 'PubChem TPHARMA' 15437369
KMT UniChem PubChem 473
#
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
KMT C1 -2.353 0.619 -0.063 ETKDGv3 1
KMT O1 -1.818 0.820 1.207 ETKDGv3 2
KMT O2 -3.456 1.147 -0.366 ETKDGv3 3
KMT C2 -1.635 -0.204 -1.049 ETKDGv3 4
KMT O5 -2.116 -0.352 -2.205 ETKDGv3 5
KMT C3 -0.316 -0.836 -0.715 ETKDGv3 6
KMT C4 0.826 0.161 -0.917 ETKDGv3 7
KMT S1 2.436 -0.620 -0.544 ETKDGv3 8
KMT C5 2.421 -0.244 1.239 ETKDGv3 9
KMT HO1 -2.304 1.386 1.892 ETKDGv3 10
KMT H31 -0.153 -1.720 -1.371 ETKDGv3 11
KMT H32 -0.331 -1.197 0.335 ETKDGv3 12
KMT H41 0.844 0.484 -1.980 ETKDGv3 13
KMT H42 0.673 1.065 -0.290 ETKDGv3 14
KMT H51 1.539 -0.706 1.727 ETKDGv3 15
KMT H52 2.406 0.854 1.398 ETKDGv3 16
KMT H53 3.340 -0.658 1.702 ETKDGv3 17
#