data_E0J
#
_chem_comp.id E0J
_chem_comp.name 2-[(4-methoxy-2-methylphenoxy)methyl]pyridine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H15 N O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2017-11-20
_chem_comp.pdbx_modified_date 2018-08-31
_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 229.274
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code E0J
_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 6BNR
_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
E0J C4 C1 C 0 1 Y N N N N N 16.854 -9.347 -19.896 -3.600 -0.016 -0.004 C4 E0J 1
E0J C1 C2 C 0 1 N N N N N N 14.709 -11.679 -22.120 -1.015 2.741 0.002 C1 E0J 2
E0J C2 C3 C 0 1 Y N N N N N 15.164 -10.851 -20.922 -1.645 1.372 0.000 C2 E0J 3
E0J C3 C4 C 0 1 Y N N N N N 16.398 -10.129 -20.997 -3.020 1.244 -0.001 C3 E0J 4
E0J C5 C5 C 0 1 Y N N N N N 16.049 -9.288 -18.689 -2.799 -1.148 -0.004 C5 E0J 5
E0J C6 C6 C 0 1 Y N N N N N 14.829 -10.005 -18.623 -1.423 -1.020 -0.003 C6 E0J 6
E0J C7 C7 C 0 1 Y N N N N N 14.370 -10.793 -19.727 -0.844 0.240 -0.001 C7 E0J 7
E0J C9 C8 C 0 1 N N N N N N 17.953 -7.207 -20.102 -5.482 -1.470 0.004 C9 E0J 8
E0J C11 C9 C 0 1 N N N N N N 12.495 -12.030 -18.461 1.274 -0.842 -0.000 C11 E0J 9
E0J C13 C10 C 0 1 Y N N N N N 11.349 -14.080 -19.495 3.143 0.815 0.004 C13 E0J 10
E0J C12 C11 C 0 1 Y N N N N N 11.234 -12.775 -18.879 2.743 -0.508 0.002 C12 E0J 11
E0J C15 C12 C 0 1 Y N N N N N 8.852 -14.158 -19.666 5.403 0.063 -0.007 C15 E0J 12
E0J C14 C13 C 0 1 Y N N N N N 10.147 -14.762 -19.885 4.497 1.112 -0.000 C14 E0J 13
E0J O8 O1 O 0 1 N N N N N N 18.069 -8.648 -19.981 -4.954 -0.142 0.001 O8 E0J 14
E0J O10 O2 O 0 1 N N N N N N 13.140 -11.536 -19.680 0.511 0.365 0.001 O10 E0J 15
E0J C16 C14 C 0 1 Y N N N N N 8.778 -12.853 -19.044 4.929 -1.235 0.003 C16 E0J 16
E0J N17 N1 N 0 1 Y N N N N N 9.963 -12.210 -18.674 3.634 -1.481 0.002 N17 E0J 17
E0J H1 H1 H 0 1 N N N N N N 15.105 -12.701 -22.031 -0.863 3.072 -1.025 H1 E0J 18
E0J H2 H2 H 0 1 N N N N N N 13.610 -11.713 -22.146 -1.673 3.442 0.516 H2 E0J 19
E0J H3 H3 H 0 1 N N N N N N 15.084 -11.220 -23.047 -0.056 2.699 0.516 H3 E0J 20
E0J H4 H4 H 0 1 N N N N N N 16.991 -10.177 -21.899 -3.645 2.125 -0.001 H4 E0J 21
E0J H5 H5 H 0 1 N N N N N N 16.379 -8.700 -17.845 -3.250 -2.129 -0.006 H5 E0J 22
E0J H6 H6 H 0 1 N N N N N N 14.234 -9.956 -17.723 -0.799 -1.902 -0.003 H6 E0J 23
E0J H7 H7 H 0 1 N N N N N N 18.957 -6.761 -20.161 -5.142 -1.999 -0.886 H7 E0J 24
E0J H8 H8 H 0 1 N N N N N N 17.388 -6.960 -21.013 -5.136 -1.996 0.894 H8 E0J 25
E0J H9 H9 H 0 1 N N N N N N 17.425 -6.807 -19.224 -6.571 -1.427 0.007 H9 E0J 26
E0J H10 H10 H 0 1 N N N N N N 13.174 -12.711 -17.927 1.035 -1.423 -0.891 H10 E0J 27
E0J H11 H11 H 0 1 N N N N N N 12.233 -11.186 -17.806 1.033 -1.425 0.889 H11 E0J 28
E0J H12 H12 H 0 1 N N N N N N 12.317 -14.530 -19.658 2.409 1.608 0.004 H12 E0J 29
E0J H13 H13 H 0 1 N N N N N N 7.951 -14.674 -19.963 6.465 0.258 -0.006 H13 E0J 30
E0J H14 H14 H 0 1 N N N N N N 10.211 -15.736 -20.347 4.838 2.137 0.000 H14 E0J 31
E0J H15 H15 H 0 1 N N N N N N 7.822 -12.383 -18.868 5.628 -2.059 0.012 H15 E0J 32
#
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
E0J C1 C2 SING N N 1
E0J C3 C2 DOUB Y N 2
E0J C3 C4 SING Y N 3
E0J C2 C7 SING Y N 4
E0J C9 O8 SING N N 5
E0J O8 C4 SING N N 6
E0J C4 C5 DOUB Y N 7
E0J C14 C15 DOUB Y N 8
E0J C14 C13 SING Y N 9
E0J C7 O10 SING N N 10
E0J C7 C6 DOUB Y N 11
E0J O10 C11 SING N N 12
E0J C15 C16 SING Y N 13
E0J C13 C12 DOUB Y N 14
E0J C16 N17 DOUB Y N 15
E0J C12 N17 SING Y N 16
E0J C12 C11 SING N N 17
E0J C5 C6 SING Y N 18
E0J C1 H1 SING N N 19
E0J C1 H2 SING N N 20
E0J C1 H3 SING N N 21
E0J C3 H4 SING N N 22
E0J C5 H5 SING N N 23
E0J C6 H6 SING N N 24
E0J C9 H7 SING N N 25
E0J C9 H8 SING N N 26
E0J C9 H9 SING N N 27
E0J C11 H10 SING N N 28
E0J C11 H11 SING N N 29
E0J C13 H12 SING N N 30
E0J C15 H13 SING N N 31
E0J C14 H14 SING N N 32
E0J C16 H15 SING N N 33
#
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
E0J SMILES ACDLabs 12.01 c1(ccc(c(C)c1)OCc2ccccn2)OC
E0J InChI InChI 1.03 InChI=1S/C14H15NO2/c1-11-9-13(16-2)6-7-14(11)17-10-12-5-3-4-8-15-12/h3-9H,10H2,1-2H3
E0J InChIKey InChI 1.03 IJQMLIQZWDSRCW-UHFFFAOYSA-N
E0J SMILES_CANONICAL CACTVS 3.385 COc1ccc(OCc2ccccn2)c(C)c1
E0J SMILES CACTVS 3.385 COc1ccc(OCc2ccccn2)c(C)c1
E0J SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 Cc1cc(ccc1OCc2ccccn2)OC
E0J SMILES "OpenEye OEToolkits" 2.0.6 Cc1cc(ccc1OCc2ccccn2)OC
#
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
E0J "SYSTEMATIC NAME" ACDLabs 12.01 2-[(4-methoxy-2-methylphenoxy)methyl]pyridine
E0J "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 2-[(4-methoxy-2-methyl-phenoxy)methyl]pyridine
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
E0J 'Create component' 2017-11-20 RCSB
E0J 'Initial release' 2018-09-05 RCSB
#
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
E0J C4 C 5.598 -3.750 1
E0J C1 C 3.000 -0.750 2
E0J C2 C 4.299 -1.500 3
E0J C3 C 4.299 -3.000 4
E0J C5 C 6.897 -3.000 5
E0J C6 C 6.897 -1.500 6
E0J C7 C 5.598 -0.750 7
E0J C9 C 6.897 -6.000 8
E0J C11 C 6.897 1.500 9
E0J C13 C 5.598 3.750 10
E0J C12 C 6.897 3.000 11
E0J C15 C 6.897 6.000 12
E0J C14 C 5.598 5.250 13
E0J O8 O 5.598 -5.250 14
E0J O10 O 5.598 0.750 15
E0J C16 C 8.196 5.250 16
E0J N17 N 8.196 3.750 17
#
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
E0J C1 C2 SINGLE NONE 1
E0J C3 C2 SINGLE NONE 2
E0J C3 C4 DOUBLE NONE 3
E0J C2 C7 DOUBLE NONE 4
E0J C9 O8 SINGLE NONE 5
E0J O8 C4 SINGLE NONE 6
E0J C4 C5 SINGLE NONE 7
E0J C14 C15 SINGLE NONE 8
E0J C14 C13 DOUBLE NONE 9
E0J C7 O10 SINGLE NONE 10
E0J C7 C6 SINGLE NONE 11
E0J O10 C11 SINGLE NONE 12
E0J C15 C16 DOUBLE NONE 13
E0J C13 C12 SINGLE NONE 14
E0J C16 N17 SINGLE NONE 15
E0J C12 N17 DOUBLE NONE 16
E0J C12 C11 SINGLE NONE 17
E0J C5 C6 DOUBLE NONE 18
#
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
E0J MurckoScaffold S1 scaffold c1ccc(OCc2ccccn2)cc1 InChI=1S/C12H11NO/c1-2-7-12(8-3-1)14-10-11-6-4-5-9-13-11/h1-9H,10H2 HEMZNKOBGSXYFU-UHFFFAOYSA-N
E0J phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
E0J pyridine F2 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
E0J C4 S1 1
E0J C2 S1 1
E0J C3 S1 1
E0J C5 S1 1
E0J C6 S1 1
E0J C7 S1 1
E0J C11 S1 1
E0J C13 S1 1
E0J C12 S1 1
E0J C15 S1 1
E0J C14 S1 1
E0J O10 S1 1
E0J C16 S1 1
E0J N17 S1 1
E0J C4 F1 1
E0J C3 F1 1
E0J C2 F1 1
E0J C7 F1 1
E0J C6 F1 1
E0J C5 F1 1
E0J C12 F2 1
E0J C13 F2 1
E0J C14 F2 1
E0J C15 F2 1
E0J C16 F2 1
E0J N17 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id E0J
_pdbe_chem_comp_rdkit_properties.exactmw 229.110
_pdbe_chem_comp_rdkit_properties.amw 229.279
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 17
_pdbe_chem_comp_rdkit_properties.NumAtoms 32
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.214
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_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 122.105
_pdbe_chem_comp_rdkit_properties.tpsa 31.350
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.943
_pdbe_chem_comp_rdkit_properties.CrippenMR 64.548
_pdbe_chem_comp_rdkit_properties.chi0v 8.264
_pdbe_chem_comp_rdkit_properties.chi1v 4.264
_pdbe_chem_comp_rdkit_properties.chi2v 1.574
_pdbe_chem_comp_rdkit_properties.chi3v 1.574
_pdbe_chem_comp_rdkit_properties.chi4v 0.883
_pdbe_chem_comp_rdkit_properties.chi0n 23.264
_pdbe_chem_comp_rdkit_properties.chi1n 11.764
_pdbe_chem_comp_rdkit_properties.chi2n 1.574
_pdbe_chem_comp_rdkit_properties.chi3n 1.574
_pdbe_chem_comp_rdkit_properties.chi4n 0.883
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.030
_pdbe_chem_comp_rdkit_properties.kappa1 3.046
_pdbe_chem_comp_rdkit_properties.kappa2 5.344
_pdbe_chem_comp_rdkit_properties.kappa3 2.968
_pdbe_chem_comp_rdkit_properties.Phi 0.958
#
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
E0J UniChem PDBe E0J
E0J UniChem PubChem 137349220
#
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
E0J C4 -2.832 0.175 -0.308 ETKDGv3 1
E0J C1 -0.955 -3.031 -1.152 ETKDGv3 2
E0J C2 -1.259 -1.700 -0.523 ETKDGv3 3
E0J C3 -2.537 -1.017 -0.843 ETKDGv3 4
E0J C5 -1.863 0.813 0.619 ETKDGv3 5
E0J C6 -0.709 0.205 0.912 ETKDGv3 6
E0J C7 -0.376 -1.117 0.313 ETKDGv3 7
E0J C9 -4.478 2.041 -0.143 ETKDGv3 8
E0J C11 1.903 -1.226 1.366 ETKDGv3 9
E0J C13 3.025 -0.291 -0.769 ETKDGv3 10
E0J C12 2.567 -0.102 0.627 ETKDGv3 11
E0J C15 3.825 2.008 -0.709 ETKDGv3 12
E0J C14 3.623 0.723 -1.405 ETKDGv3 13
E0J O8 -4.052 0.779 -0.644 ETKDGv3 14
E0J O10 0.834 -1.774 0.597 ETKDGv3 15
E0J C16 3.408 2.141 0.555 ETKDGv3 16
E0J N17 2.767 1.040 1.223 ETKDGv3 17
E0J H1 -0.786 -3.792 -0.361 ETKDGv3 18
E0J H2 -0.044 -2.950 -1.782 ETKDGv3 19
E0J H3 -1.794 -3.375 -1.793 ETKDGv3 20
E0J H4 -3.242 -1.485 -1.520 ETKDGv3 21
E0J H5 -2.080 1.772 1.069 ETKDGv3 22
E0J H6 -0.027 0.691 1.595 ETKDGv3 23
E0J H7 -5.474 2.282 -0.567 ETKDGv3 24
E0J H8 -3.761 2.833 -0.445 ETKDGv3 25
E0J H9 -4.562 2.003 0.964 ETKDGv3 26
E0J H10 1.531 -0.897 2.360 ETKDGv3 27
E0J H11 2.656 -2.023 1.540 ETKDGv3 28
E0J H12 2.875 -1.237 -1.274 ETKDGv3 29
E0J H13 4.307 2.832 -1.217 ETKDGv3 30
E0J H14 3.960 0.602 -2.426 ETKDGv3 31
E0J H15 3.551 3.077 1.080 ETKDGv3 32
#