data_2OP
#
_chem_comp.id 2OP
_chem_comp.name '(2S)-2-HYDROXYPROPANOIC ACID'
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C3 H6 O3'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2004-12-29
_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 90.078
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 2OP
_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 1VQ7
_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
2OP C C C 0 1 N N N Y N Y 29.639 -9.816 -5.859 -0.725 -0.128 0.051 C 2OP 1
2OP O O O 0 1 N N N Y N Y 29.511 -8.819 -5.147 -1.001 -1.198 -0.437 O 2OP 2
2OP CB CB C 0 1 N N N N N N 31.642 -10.478 -7.196 1.199 1.347 -0.468 CB 2OP 3
2OP OHN OHN O 0 1 N N N Y Y N 30.564 -8.342 -7.518 1.520 -0.958 0.183 OHN 2OP 4
2OP CA CA C 0 1 N N S Y N N 30.327 -9.720 -7.212 0.703 0.193 0.406 CA 2OP 5
2OP OXT OXT O 0 1 N Y N Y N Y 29.196 -11.011 -5.519 -1.691 0.778 0.271 OXT 2OP 6
2OP HB1 HB1 H 0 1 N N N N N N 32.124 -10.397 -8.181 2.233 1.579 -0.211 HB1 2OP 7
2OP HB2 HB2 H 0 1 N N N N N N 32.303 -10.049 -6.428 1.142 1.059 -1.517 HB2 2OP 8
2OP HB3 HB3 H 0 1 N N N N N N 31.452 -11.537 -6.967 0.577 2.225 -0.298 HB3 2OP 9
2OP H HHN H 0 1 N Y N Y Y N 30.291 -7.803 -6.785 2.455 -0.824 0.392 HHN 2OP 10
2OP HA HA H 0 1 N N N Y N N 29.679 -10.168 -7.980 0.761 0.482 1.456 HA 2OP 11
2OP HXT HXT H 0 1 N Y N Y N Y 28.780 -10.964 -4.666 -2.592 0.528 0.023 HXT 2OP 12
#
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
2OP C O DOUB N N 1
2OP C CA SING N N 2
2OP CB CA SING N N 3
2OP CB HB1 SING N N 4
2OP CB HB2 SING N N 5
2OP CB HB3 SING N N 6
2OP OHN CA SING N N 7
2OP C OXT SING N N 8
2OP OHN H SING N N 9
2OP CA HA SING N N 10
2OP OXT HXT SING N N 11
#
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
2OP SMILES ACDLabs 12.01 'O=C(O)C(O)C'
2OP SMILES_CANONICAL CACTVS 3.370 'C[C@H](O)C(O)=O'
2OP SMILES CACTVS 3.370 'C[CH](O)C(O)=O'
2OP SMILES_CANONICAL 'OpenEye OEToolkits' 1.7.0 'C[C@@H](C(=O)O)O'
2OP SMILES 'OpenEye OEToolkits' 1.7.0 'CC(C(=O)O)O'
2OP InChI InChI 1.03 'InChI=1S/C3H6O3/c1-2(4)3(5)6/h2,4H,1H3,(H,5,6)/t2-/m0/s1'
2OP InChIKey InChI 1.03 JVTAAEKCZFNVCJ-REOHCLBHSA-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
2OP 'SYSTEMATIC NAME' ACDLabs 12.01 '(2S)-2-hydroxypropanoic acid'
2OP 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.7.0 '(2S)-2-hydroxypropanoic 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
2OP 'Create component' 2004-12-29 RCSB
2OP 'Modify descriptor' 2011-06-04 RCSB
2OP 'Modify backbone' 2023-11-03 PDBE
2OP '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
1 2OP ? L-lactate 'Named protein modification' 'Amino-acid side chain and backbone' 'Any position' ? ? ? ?
2 2OP CYS None 'Covalent chemical modification' 'Amino-acid side chain' 'Any position' CA SG ? ?
3 2OP LYS None 'Covalent chemical modification' 'Amino-acid side chain' 'Any position' C NZ ? ?
4 2OP PRO None 'Covalent chemical modification' 'Amino-acid backbone' N-terminal CB N ? ?
#
_pdbe_chem_comp_drugbank_details.comp_id 2OP
_pdbe_chem_comp_drugbank_details.drugbank_id DB14475
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name 'L-Lactic acid'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number 79-33-4
_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
2OP '(+)-lactic acid' DrugBank ?
2OP '(S)-(+)-lactic acid' DrugBank ?
2OP '(S)-2-hydroxypropanoic acid' DrugBank ?
2OP '(S)-2-hydroxypropionic acid' DrugBank ?
2OP '(S)-lactic acid' DrugBank ?
2OP 'L-(+)-lactic acid' DrugBank ?
2OP 'L-(+)-α-hydroxypropionic acid' DrugBank ?
2OP 'L-Lactic acid' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id 2OP
_pdbe_chem_comp_drugbank_classification.drugbank_id DB14475
_pdbe_chem_comp_drugbank_classification.parent 'Alpha hydroxy acids and derivatives'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Hydroxy 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 alpha hydroxy acids and derivatives. These are organic compounds containing a carboxylic acid substituted with a hydroxyl group on the adjacent carbon.'
#
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
2OP C C 5.104 -0.375 1
2OP O O 3.805 0.375 2
2OP CB C 7.702 -0.375 3
2OP OHN O 6.404 1.875 4
2OP CA C 6.404 0.375 5
2OP OXT O 5.104 -1.875 6
#
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
2OP C O DOUBLE NONE 1
2OP C CA SINGLE NONE 2
2OP CA CB SINGLE BEGINWEDGE 3
2OP OHN CA SINGLE NONE 4
2OP C OXT SINGLE NONE 5
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id 2OP
_pdbe_chem_comp_rdkit_properties.exactmw 90.032
_pdbe_chem_comp_rdkit_properties.amw 90.078
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 6
_pdbe_chem_comp_rdkit_properties.NumAtoms 12
_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 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 43.822
_pdbe_chem_comp_rdkit_properties.tpsa 57.530
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.548
_pdbe_chem_comp_rdkit_properties.CrippenMR 19.317
_pdbe_chem_comp_rdkit_properties.chi0v 2.725
_pdbe_chem_comp_rdkit_properties.chi1v 1.112
_pdbe_chem_comp_rdkit_properties.chi2v 0.185
_pdbe_chem_comp_rdkit_properties.chi3v 0.185
_pdbe_chem_comp_rdkit_properties.chi4v 0
_pdbe_chem_comp_rdkit_properties.chi0n 8.725
_pdbe_chem_comp_rdkit_properties.chi1n 3.929
_pdbe_chem_comp_rdkit_properties.chi2n 0.185
_pdbe_chem_comp_rdkit_properties.chi3n 0.185
_pdbe_chem_comp_rdkit_properties.chi4n 0
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.570
_pdbe_chem_comp_rdkit_properties.kappa1 0.980
_pdbe_chem_comp_rdkit_properties.kappa2 1.768
_pdbe_chem_comp_rdkit_properties.kappa3 1.722
_pdbe_chem_comp_rdkit_properties.Phi 0.289
#
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
2OP UniChem DrugBank DB14475
2OP UniChem 'Guide to Pharmacology' 2932
2OP UniChem 'KEGG LIGAND' C00186
2OP UniChem ChEBI 422
2OP UniChem ZINC ZINC000004658560
2OP UniChem eMolecules 477273
2OP UniChem fdasrs F9S9FFU82N
2OP UniChem SureChEMBL SCHEMBL16958
2OP UniChem HMDB HMDB0000190
2OP UniChem 'PubChem TPHARMA' 15119658
2OP UniChem NMRShiftDB 60020744
2OP UniChem ACTor 1715-99-7
2OP UniChem ACTor 26811-96-1
2OP UniChem ACTor 598-82-3
2OP UniChem Nikkaji J9.134K
2OP UniChem 'EPA CompTox Dashboard' DTXSID6034689
2OP UniChem MetaboLights MTBLC422
2OP UniChem BRENDA 16100
2OP UniChem BRENDA 170083
2OP UniChem BRENDA 208032
2OP UniChem BRENDA 403
2OP UniChem BRENDA 44285
2OP UniChem BRENDA 57433
2OP UniChem BRENDA 669
2OP UniChem ChemicalBook CB1138319
2OP UniChem MedChemExpress HY-Y0479
2OP UniChem 'Probes And Drugs' PD051524
2OP UniChem CCDC YILLAG
2OP UniChem 'PubChem TPHARMA' 15296943
2OP UniChem PubChem 107689
2OP UniChem Mcule MCULE-8864689875
#
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
2OP C 1.082 -0.180 0.122 ETKDGv3 1
2OP O 1.414 -0.915 1.090 ETKDGv3 2
2OP CB -1.233 0.611 0.545 ETKDGv3 3
2OP OHN -0.804 -1.510 -0.472 ETKDGv3 4
2OP CA -0.330 -0.192 -0.388 ETKDGv3 5
2OP OXT 2.017 0.675 -0.453 ETKDGv3 6
2OP HB1 -2.271 0.616 0.150 ETKDGv3 7
2OP HB2 -1.241 0.163 1.562 ETKDGv3 8
2OP HB3 -0.878 1.662 0.613 ETKDGv3 9
2OP H -0.365 -1.921 -1.262 ETKDGv3 10
2OP HA -0.362 0.285 -1.395 ETKDGv3 11
2OP HXT 2.971 0.706 -0.113 ETKDGv3 12
#