data_010
#
_chem_comp.id 010
_chem_comp.name phenylmethanol
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C7 H8 O'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2010-11-15
_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 108.138
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 010
_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 2CNK
_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
010 C C C 0 1 N N N N N N 36.659 38.527 33.888 1.922 0.004 -0.565 C 010 1
010 O O O 0 1 N N N Y Y N 35.631 37.539 33.518 2.635 -0.003 0.673 O 010 2
010 C1 C1 C 0 1 Y N N N N N 36.486 40.574 35.477 -0.240 1.198 -0.159 C1 010 3
010 C2 C2 C 0 1 Y N N N N N 36.258 41.147 36.800 -1.600 1.196 0.092 C2 010 4
010 C3 C3 C 0 1 Y N N N N N 35.949 40.277 37.941 -2.278 -0.002 0.217 C3 010 5
010 C4 C4 C 0 1 Y N N N N N 35.867 38.822 37.749 -1.597 -1.198 0.090 C4 010 6
010 C5 C5 C 0 1 Y N N N N N 36.098 38.246 36.418 -0.237 -1.196 -0.161 C5 010 7
010 C6 C6 C 0 1 Y N N N N N 36.408 39.120 35.278 0.440 0.002 -0.291 C6 010 8
010 H H H 0 1 N N N N N N 37.640 38.030 33.889 2.185 0.897 -1.131 H 010 9
010 HA HA H 0 1 N N N N N N 36.646 39.342 33.150 2.186 -0.883 -1.141 HA 010 10
010 HO HO H 0 1 N Y N Y Y N 35.819 37.194 32.653 3.597 -0.002 0.573 HO 010 11
010 H1 H1 H 0 1 N N N N N N 36.713 41.220 34.642 0.290 2.134 -0.256 H1 010 12
010 H2 H2 H 0 1 N N N N N N 36.317 42.216 36.940 -2.132 2.131 0.192 H2 010 13
010 H3 H3 H 0 1 N N N N N N 35.782 40.705 38.919 -3.340 -0.003 0.413 H3 010 14
010 H4 H4 H 0 1 N N N N N N 35.637 38.178 38.585 -2.126 -2.134 0.188 H4 010 15
010 H5 H5 H 0 1 N N N N N N 36.040 37.177 36.277 0.295 -2.131 -0.260 H5 010 16
#
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
010 O C SING N N 1
010 C C6 SING N N 2
010 C H SING N N 3
010 C HA SING N N 4
010 O HO SING N N 5
010 C6 C1 DOUB Y N 6
010 C1 C2 SING Y N 7
010 C1 H1 SING N N 8
010 C2 C3 DOUB Y N 9
010 C2 H2 SING N N 10
010 C4 C3 SING Y N 11
010 C3 H3 SING N N 12
010 C5 C4 DOUB Y N 13
010 C4 H4 SING N N 14
010 C6 C5 SING Y N 15
010 C5 H5 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
010 SMILES ACDLabs 12.01 OCc1ccccc1
010 SMILES_CANONICAL CACTVS 3.370 OCc1ccccc1
010 SMILES CACTVS 3.370 OCc1ccccc1
010 SMILES_CANONICAL 'OpenEye OEToolkits' 1.7.0 'c1ccc(cc1)CO'
010 SMILES 'OpenEye OEToolkits' 1.7.0 'c1ccc(cc1)CO'
010 InChI InChI 1.03 InChI=1S/C7H8O/c8-6-7-4-2-1-3-5-7/h1-5,8H,6H2
010 InChIKey InChI 1.03 WVDDGKGOMKODPV-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
010 'SYSTEMATIC NAME' ACDLabs 12.01 phenylmethanol
010 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.7.0 phenylmethanol
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
010 'Create component' 2010-11-15 RCSB
010 'Modify aromatic_flag' 2011-06-04 RCSB
010 'Modify descriptor' 2011-06-04 RCSB
010 'Initial release' 2013-12-25 RCSB
010 'Modify backbone' 2023-11-03 PDBE
010 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id 010
_pdbx_chem_comp_pcm.modified_residue_id ?
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category 'Non-standard residue'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain and backbone'
_pdbx_chem_comp_pcm.polypeptide_position C-terminal
_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 ?
#
_pdbe_chem_comp_drugbank_details.comp_id 010
_pdbe_chem_comp_drugbank_details.drugbank_id DB06770
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name 'Benzyl alcohol'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number 100-51-6
_pdbe_chem_comp_drugbank_details.mechanism_of_action
'Benzyl alcohol inhibits lice from closing their respiratory spiracles, allowing the vehicle to obstruct the spiracles and causing the lice to asphyxiate.'
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
010 (hydroxymethyl)benzene DrugBank ?
010 'Alcoholum benzylicum' DrugBank ?
010 Alcoolbenzylique DrugBank ?
010 alpha-Hydroxytoluene DrugBank ?
010 'Aromatic alcohol' DrugBank ?
010 Bentalol DrugBank ?
010 Benzalalcohol DrugBank ?
010 Benzalcohol DrugBank ?
010 Benzenecarbinol DrugBank ?
010 Benzenemethanol DrugBank ?
010 'Benzoyl alcohol' DrugBank ?
010 'Benzyl alcohol' DrugBank ?
010 'Benzylic alcohol' DrugBank ?
010 Hydroxymethylbenzene DrugBank ?
010 Phenylcarbinol DrugBank ?
010 Phenylmethanol DrugBank ?
010 'Phenylmethyl alcohol' DrugBank ?
010 'α-toluenol' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id 010
_pdbe_chem_comp_drugbank_classification.drugbank_id DB06770
_pdbe_chem_comp_drugbank_classification.parent 'Benzyl alcohols'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Benzene and substituted derivatives'
_pdbe_chem_comp_drugbank_classification.superclass Benzenoids
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as benzyl alcohols. These are organic compounds containing the phenylmethanol substructure.'
#
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
010 C C 4.299 1.410 1
010 O O 5.598 2.160 2
010 C1 C 3.000 -0.840 3
010 C2 C 3.000 -2.340 4
010 C3 C 4.299 -3.090 5
010 C4 C 5.598 -2.340 6
010 C5 C 5.598 -0.840 7
010 C6 C 4.299 -0.090 8
#
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
010 O C SINGLE NONE 1
010 C C6 SINGLE NONE 2
010 C6 C1 DOUBLE NONE 3
010 C1 C2 SINGLE NONE 4
010 C2 C3 DOUBLE NONE 5
010 C4 C3 SINGLE NONE 6
010 C5 C4 DOUBLE NONE 7
010 C6 C5 SINGLE NONE 8
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
010 MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
010 phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
010 C1 S1 1
010 C2 S1 1
010 C3 S1 1
010 C4 S1 1
010 C5 S1 1
010 C6 S1 1
010 C1 F1 1
010 C6 F1 1
010 C5 F1 1
010 C4 F1 1
010 C3 F1 1
010 C2 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 010
_pdbe_chem_comp_rdkit_properties.exactmw 108.058
_pdbe_chem_comp_rdkit_properties.amw 108.140
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 1
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 1
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 8
_pdbe_chem_comp_rdkit_properties.NumAtoms 16
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 1
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.143
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_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 59.917
_pdbe_chem_comp_rdkit_properties.tpsa 20.230
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.124
_pdbe_chem_comp_rdkit_properties.CrippenMR 32.099
_pdbe_chem_comp_rdkit_properties.chi0v 3.908
_pdbe_chem_comp_rdkit_properties.chi1v 1.954
_pdbe_chem_comp_rdkit_properties.chi2v 0.602
_pdbe_chem_comp_rdkit_properties.chi3v 0.602
_pdbe_chem_comp_rdkit_properties.chi4v 0.301
_pdbe_chem_comp_rdkit_properties.chi0n 11.908
_pdbe_chem_comp_rdkit_properties.chi1n 5.862
_pdbe_chem_comp_rdkit_properties.chi2n 0.602
_pdbe_chem_comp_rdkit_properties.chi3n 0.602
_pdbe_chem_comp_rdkit_properties.chi4n 0.301
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.820
_pdbe_chem_comp_rdkit_properties.kappa1 1.190
_pdbe_chem_comp_rdkit_properties.kappa2 2.478
_pdbe_chem_comp_rdkit_properties.kappa3 1.074
_pdbe_chem_comp_rdkit_properties.Phi 0.369
#
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
010 UniChem DrugBank DB06770
010 UniChem 'KEGG LIGAND' C00556
010 UniChem 'KEGG LIGAND' C03485
010 UniChem ChEBI 17987
010 UniChem ZINC ZINC000000895302
010 UniChem eMolecules 476491
010 UniChem fdasrs LKG8494WBH
010 UniChem SureChEMBL SCHEMBL147
010 UniChem HMDB HMDB0003119
010 UniChem 'PubChem TPHARMA' 15146429
010 UniChem PubChem 244
010 UniChem Mcule MCULE-6011707909
010 UniChem NMRShiftDB 10005706
010 UniChem ACTor 100-51-6
010 UniChem 'EPA CompTox Dashboard' DTXSID5020152
010 UniChem DrugCentral 334
010 UniChem MetaboLights MTBLC17987
010 UniChem BRENDA 164189
010 UniChem BRENDA 195223
010 UniChem BRENDA 21818
010 UniChem BRENDA 260
010 UniChem BRENDA 4228
010 UniChem BRENDA 59529
010 UniChem BRENDA 92507
010 UniChem Rhea 17987
010 UniChem ChemicalBook CB3852587
010 UniChem DailyMed 'BENZYL ALCOHOL'
010 UniChem ClinicalTrials 'BENZYL ALCOHOL'
010 UniChem ClinicalTrials ULESFIA
010 UniChem rxnorm 'BENZYL ALCOHOL'
010 UniChem rxnorm ULESFIA
010 UniChem MedChemExpress HY-B0892
010 UniChem 'Probes And Drugs' PD001116
010 UniChem CCDC XAFTIJ
010 UniChem Nikkaji J4.009F
#
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
010 C 1.952 0.444 -0.535 ETKDGv3 1
010 O 2.750 -0.011 0.523 ETKDGv3 2
010 C1 -0.174 1.112 0.545 ETKDGv3 3
010 C2 -1.593 0.874 0.884 ETKDGv3 4
010 C3 -2.210 -0.231 0.448 ETKDGv3 5
010 C4 -1.473 -1.215 -0.371 ETKDGv3 6
010 C5 -0.189 -1.000 -0.684 ETKDGv3 7
010 C6 0.498 0.230 -0.216 ETKDGv3 8
010 H 2.150 1.526 -0.695 ETKDGv3 9
010 HA 2.225 -0.079 -1.480 ETKDGv3 10
010 HO 2.754 -1.002 0.469 ETKDGv3 11
010 H1 0.314 2.004 0.919 ETKDGv3 12
010 H2 -2.130 1.594 1.488 ETKDGv3 13
010 H3 -3.249 -0.408 0.697 ETKDGv3 14
010 H4 -1.973 -2.111 -0.715 ETKDGv3 15
010 H5 0.346 -1.728 -1.280 ETKDGv3 16
#