data_PY7
#
_chem_comp.id PY7
_chem_comp.name PYRIDIN-4-YLMETHANOL
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C6 H7 N O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms 4-PYRIDYLCARBINOL
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2005-11-08
_chem_comp.pdbx_modified_date 2020-06-17
_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 109.126
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code PY7
_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 2EUR
_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
PY7 N1 N1 N 0 1 Y N N N N N -8.720 72.240 14.963 -2.231 0.000 -0.214 N1 PY7 1
PY7 C2 C2 C 0 1 Y N N N N N -8.101 71.196 14.401 -1.599 1.152 -0.097 C2 PY7 2
PY7 C3 C3 C 0 1 Y N N N N N -7.915 70.035 15.115 -0.242 1.191 0.162 C3 PY7 3
PY7 C4 C4 C 0 1 Y N N N N N -8.313 69.948 16.424 0.456 0.000 0.288 C4 PY7 4
PY7 C5 C5 C 0 1 Y N N N N N -8.945 71.060 16.976 -0.241 -1.191 0.159 C5 PY7 5
PY7 C6 C6 C 0 1 Y N N N N N -9.147 72.208 16.222 -1.599 -1.152 -0.094 C6 PY7 6
PY7 C7 C7 C 0 1 N N N N N N -8.029 68.635 17.164 1.938 0.001 0.565 C7 PY7 7
PY7 O8 O8 O 0 1 N N N N N N -8.625 68.761 18.431 2.653 -0.001 -0.672 O8 PY7 8
PY7 H2 H2 H 0 1 N N N N N N -7.746 71.265 13.383 -2.150 2.075 -0.202 H2 PY7 9
PY7 H3 H3 H 0 1 N N N N N N -7.451 69.184 14.640 0.269 2.138 0.256 H3 PY7 10
PY7 H5 H5 H 0 1 N N N N N N -9.282 71.029 18.002 0.270 -2.137 0.255 H5 PY7 11
PY7 H6 H6 H 0 1 N N N N N N -9.645 73.064 16.653 -2.150 -2.076 -0.196 H6 PY7 12
PY7 H71 1H7 H 0 1 N N N N N N -6.948 68.450 17.248 2.201 -0.888 1.138 H71 PY7 13
PY7 H72 2H7 H 0 1 N N N N N N -8.459 67.783 16.618 2.200 0.892 1.135 H72 PY7 14
PY7 HO8 HO8 H 0 1 N N N N N N -7.949 68.789 19.098 3.595 0.000 -0.451 HO8 PY7 15
#
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
PY7 N1 C2 SING Y N 1
PY7 N1 C6 DOUB Y N 2
PY7 C2 C3 DOUB Y N 3
PY7 C2 H2 SING N N 4
PY7 C3 C4 SING Y N 5
PY7 C3 H3 SING N N 6
PY7 C4 C5 DOUB Y N 7
PY7 C4 C7 SING N N 8
PY7 C5 C6 SING Y N 9
PY7 C5 H5 SING N N 10
PY7 C6 H6 SING N N 11
PY7 C7 O8 SING N N 12
PY7 C7 H71 SING N N 13
PY7 C7 H72 SING N N 14
PY7 O8 HO8 SING N N 15
#
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
PY7 SMILES ACDLabs 10.04 OCc1ccncc1
PY7 SMILES_CANONICAL CACTVS 3.341 OCc1ccncc1
PY7 SMILES CACTVS 3.341 OCc1ccncc1
PY7 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1cnccc1CO
PY7 SMILES "OpenEye OEToolkits" 1.5.0 c1cnccc1CO
PY7 InChI InChI 1.03 InChI=1S/C6H7NO/c8-5-6-1-3-7-4-2-6/h1-4,8H,5H2
PY7 InChIKey InChI 1.03 PTMBWNZJOQBTBK-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
PY7 "SYSTEMATIC NAME" ACDLabs 10.04 pyridin-4-ylmethanol
PY7 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 pyridin-4-ylmethanol
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
PY7 'Create component' 2005-11-08 RCSB
PY7 'Modify descriptor' 2011-06-04 RCSB
PY7 'Modify synonyms' 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id PY7
_pdbx_chem_comp_synonyms.name 4-PYRIDYLCARBINOL
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id PY7
_pdbe_chem_comp_synonyms.name 4-PYRIDYLCARBINOL
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
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
PY7 N1 N 4.299 -3.090 1
PY7 C2 C 3.000 -2.340 2
PY7 C3 C 3.000 -0.840 3
PY7 C4 C 4.299 -0.090 4
PY7 C5 C 5.598 -0.840 5
PY7 C6 C 5.598 -2.340 6
PY7 C7 C 4.299 1.410 7
PY7 O8 O 5.598 2.160 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
PY7 N1 C2 DOUBLE NONE 1
PY7 N1 C6 SINGLE NONE 2
PY7 C2 C3 SINGLE NONE 3
PY7 C3 C4 DOUBLE NONE 4
PY7 C4 C5 SINGLE NONE 5
PY7 C4 C7 SINGLE NONE 6
PY7 C5 C6 DOUBLE NONE 7
PY7 C7 O8 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
PY7 MurckoScaffold S1 scaffold c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
PY7 pyridine F1 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-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
PY7 N1 S1 1
PY7 C2 S1 1
PY7 C3 S1 1
PY7 C4 S1 1
PY7 C5 S1 1
PY7 C6 S1 1
PY7 C2 F1 1
PY7 C3 F1 1
PY7 C4 F1 1
PY7 C5 F1 1
PY7 C6 F1 1
PY7 N1 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id PY7
_pdbe_chem_comp_rdkit_properties.exactmw 109.053
_pdbe_chem_comp_rdkit_properties.amw 109.128
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_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 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 8
_pdbe_chem_comp_rdkit_properties.NumAtoms 15
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 2
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.167
_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 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 57.732
_pdbe_chem_comp_rdkit_properties.tpsa 33.120
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.519
_pdbe_chem_comp_rdkit_properties.CrippenMR 29.894
_pdbe_chem_comp_rdkit_properties.chi0v 3.855
_pdbe_chem_comp_rdkit_properties.chi1v 1.901
_pdbe_chem_comp_rdkit_properties.chi2v 0.576
_pdbe_chem_comp_rdkit_properties.chi3v 0.576
_pdbe_chem_comp_rdkit_properties.chi4v 0.278
_pdbe_chem_comp_rdkit_properties.chi0n 10.855
_pdbe_chem_comp_rdkit_properties.chi1n 5.310
_pdbe_chem_comp_rdkit_properties.chi2n 0.576
_pdbe_chem_comp_rdkit_properties.chi3n 0.576
_pdbe_chem_comp_rdkit_properties.chi4n 0.278
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.890
_pdbe_chem_comp_rdkit_properties.kappa1 1.333
_pdbe_chem_comp_rdkit_properties.kappa2 2.426
_pdbe_chem_comp_rdkit_properties.kappa3 1.040
_pdbe_chem_comp_rdkit_properties.Phi 0.404
#
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
PY7 UniChem ChEMBL CHEMBL1235528
PY7 UniChem PDBe PY7
PY7 UniChem ZINC ZINC000000158595
PY7 UniChem eMolecules 482966
PY7 UniChem NMRShiftDB 20111976
PY7 UniChem ACTor 586-95-8
PY7 UniChem 'EPA CompTox Dashboard' DTXSID90870638
PY7 UniChem BRENDA 145605
PY7 UniChem BRENDA 164031
PY7 UniChem BRENDA 48702
PY7 UniChem BRENDA 56616
PY7 UniChem ChemicalBook CB8228420
PY7 UniChem Nikkaji J85.689D
PY7 UniChem SureChEMBL SCHEMBL102606
PY7 UniChem 'PubChem TPHARMA' 15119741
PY7 UniChem PubChem 11472
PY7 UniChem Mcule MCULE-8745577217
#
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
PY7 N1 -2.407 -0.357 -0.321 ETKDGv3 1
PY7 C2 -1.937 0.857 -0.278 ETKDGv3 2
PY7 C3 -0.483 1.085 -0.168 ETKDGv3 3
PY7 C4 0.351 0.032 -0.131 ETKDGv3 4
PY7 C5 -0.214 -1.337 -0.169 ETKDGv3 5
PY7 C6 -1.539 -1.502 -0.264 ETKDGv3 6
PY7 C7 1.833 0.229 0.019 ETKDGv3 7
PY7 O8 2.186 0.213 1.375 ETKDGv3 8
PY7 H2 -2.615 1.698 -0.320 ETKDGv3 9
PY7 H3 -0.104 2.099 -0.117 ETKDGv3 10
PY7 H5 0.437 -2.201 -0.121 ETKDGv3 11
PY7 H6 -1.962 -2.497 -0.295 ETKDGv3 12
PY7 H71 2.161 1.181 -0.458 ETKDGv3 13
PY7 H72 2.371 -0.594 -0.498 ETKDGv3 14
PY7 HO8 1.923 1.095 1.747 ETKDGv3 15
#