data_Y8M
#
_chem_comp.id Y8M
_chem_comp.name 4-(3-phenylpropyl)aniline
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C15 H17 N"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2021-02-10
_chem_comp.pdbx_modified_date 2021-05-14
_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 211.302
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code Y8M
_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 7LOJ
_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
Y8M C10 C1 C 0 1 Y N N N N N -37.245 25.399 -10.884 -3.475 1.197 -0.032 C10 Y8M 1
Y8M C13 C2 C 0 1 Y N N N N N -38.847 26.806 -12.654 -4.557 -1.193 0.840 C13 Y8M 2
Y8M C15 C3 C 0 1 Y N N N N N -33.082 22.514 -13.022 2.599 -1.201 -0.412 C15 Y8M 3
Y8M C02 C4 C 0 1 Y N N N N N -31.997 22.118 -10.910 4.369 0.003 0.669 C02 Y8M 4
Y8M C03 C5 C 0 1 Y N N N N N -32.697 23.172 -10.359 3.777 1.203 0.298 C03 Y8M 5
Y8M C04 C6 C 0 1 Y N N N N N -33.586 23.894 -11.131 2.600 1.196 -0.424 C04 Y8M 6
Y8M C05 C7 C 0 1 Y N N N N N -33.779 23.575 -12.467 2.011 -0.004 -0.779 C05 Y8M 7
Y8M C06 C8 C 0 1 N N N N N N -34.750 24.380 -13.332 0.728 -0.008 -1.569 C06 Y8M 8
Y8M C07 C9 C 0 1 N N N N N N -36.005 23.607 -13.720 -0.462 -0.003 -0.607 C07 Y8M 9
Y8M C08 C10 C 0 1 N N N N N N -36.972 23.509 -12.543 -1.766 -0.007 -1.408 C08 Y8M 10
Y8M C09 C11 C 0 1 Y N N N N N -37.533 24.876 -12.139 -2.938 -0.002 -0.460 C09 Y8M 11
Y8M C11 C12 C 0 1 Y N N N N N -37.768 26.632 -10.521 -4.550 1.202 0.837 C11 Y8M 12
Y8M C12 C13 C 0 1 Y N N N N N -38.562 27.330 -11.410 -5.091 0.007 1.273 C12 Y8M 13
Y8M C14 C14 C 0 1 Y N N N N N -38.332 25.575 -13.027 -3.475 -1.197 -0.020 C14 Y8M 14
Y8M C16 C15 C 0 1 Y N N N N N -32.190 21.788 -12.244 3.776 -1.201 0.310 C16 Y8M 15
Y8M N01 N1 N 0 1 N N N N N N -31.070 21.372 -10.079 5.560 0.006 1.399 N01 Y8M 16
Y8M H1 H1 H 0 1 N N N N N N -36.619 24.850 -10.196 -3.052 2.131 -0.372 H1 Y8M 17
Y8M H2 H2 H 0 1 N N N N N N -39.474 27.357 -13.339 -4.980 -2.126 1.181 H2 Y8M 18
Y8M H3 H3 H 0 1 N N N N N N -33.232 22.252 -14.059 2.135 -2.136 -0.687 H3 Y8M 19
Y8M H4 H4 H 0 1 N N N N N N -32.549 23.433 -9.321 4.236 2.141 0.575 H4 Y8M 20
Y8M H5 H5 H 0 1 N N N N N N -34.135 24.713 -10.691 2.138 2.129 -0.713 H5 Y8M 21
Y8M H6 H6 H 0 1 N N N N N N -34.228 24.681 -14.252 0.687 0.879 -2.201 H6 Y8M 22
Y8M H7 H7 H 0 1 N N N N N N -35.053 25.277 -12.772 0.687 -0.901 -2.192 H7 Y8M 23
Y8M H8 H8 H 0 1 N N N N N N -36.503 24.125 -14.553 -0.422 -0.890 0.026 H8 Y8M 24
Y8M H9 H9 H 0 1 N N N N N N -35.720 22.593 -14.037 -0.422 0.890 0.017 H9 Y8M 25
Y8M H10 H10 H 0 1 N N N N N N -37.808 22.852 -12.825 -1.806 0.880 -2.040 H10 Y8M 26
Y8M H11 H11 H 0 1 N N N N N N -36.440 23.076 -11.683 -1.806 -0.900 -2.032 H11 Y8M 27
Y8M H12 H12 H 0 1 N N N N N N -37.555 27.045 -9.546 -4.967 2.139 1.176 H12 Y8M 28
Y8M H13 H13 H 0 1 N N N N N N -38.963 28.293 -11.129 -5.937 0.010 1.946 H13 Y8M 29
Y8M H14 H14 H 0 1 N N N N N N -38.552 25.165 -14.002 -3.058 -2.134 -0.358 H14 Y8M 30
Y8M H15 H15 H 0 1 N N N N N N -31.644 20.963 -12.679 4.234 -2.136 0.597 H15 Y8M 31
Y8M H16 H16 H 0 1 N N N N N N -31.067 21.755 -9.155 5.974 0.848 1.648 H16 Y8M 32
Y8M H17 H17 H 0 1 N N N N N N -31.353 20.414 -10.042 5.973 -0.832 1.657 H17 Y8M 33
#
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
Y8M C07 C06 SING N N 1
Y8M C07 C08 SING N N 2
Y8M C06 C05 SING N N 3
Y8M C14 C13 DOUB Y N 4
Y8M C14 C09 SING Y N 5
Y8M C15 C05 DOUB Y N 6
Y8M C15 C16 SING Y N 7
Y8M C13 C12 SING Y N 8
Y8M C08 C09 SING N N 9
Y8M C05 C04 SING Y N 10
Y8M C16 C02 DOUB Y N 11
Y8M C09 C10 DOUB Y N 12
Y8M C12 C11 DOUB Y N 13
Y8M C04 C03 DOUB Y N 14
Y8M C02 C03 SING Y N 15
Y8M C02 N01 SING N N 16
Y8M C10 C11 SING Y N 17
Y8M C10 H1 SING N N 18
Y8M C13 H2 SING N N 19
Y8M C15 H3 SING N N 20
Y8M C03 H4 SING N N 21
Y8M C04 H5 SING N N 22
Y8M C06 H6 SING N N 23
Y8M C06 H7 SING N N 24
Y8M C07 H8 SING N N 25
Y8M C07 H9 SING N N 26
Y8M C08 H10 SING N N 27
Y8M C08 H11 SING N N 28
Y8M C11 H12 SING N N 29
Y8M C12 H13 SING N N 30
Y8M C14 H14 SING N N 31
Y8M C16 H15 SING N N 32
Y8M N01 H16 SING N N 33
Y8M N01 H17 SING N N 34
#
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
Y8M InChI InChI 1.03 InChI=1S/C15H17N/c16-15-11-9-14(10-12-15)8-4-7-13-5-2-1-3-6-13/h1-3,5-6,9-12H,4,7-8,16H2
Y8M InChIKey InChI 1.03 DKHXRITYSLFMSU-UHFFFAOYSA-N
Y8M SMILES_CANONICAL CACTVS 3.385 Nc1ccc(CCCc2ccccc2)cc1
Y8M SMILES CACTVS 3.385 Nc1ccc(CCCc2ccccc2)cc1
Y8M SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1ccc(cc1)CCCc2ccc(cc2)N
Y8M SMILES "OpenEye OEToolkits" 2.0.7 c1ccc(cc1)CCCc2ccc(cc2)N
#
_pdbx_chem_comp_identifier.comp_id Y8M
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier 4-(3-phenylpropyl)aniline
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
Y8M 'Create component' 2021-02-10 RCSB
Y8M 'Initial release' 2021-05-19 RCSB
#
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
Y8M C10 C 5.598 -5.107 1
Y8M C13 C 3.000 -3.607 2
Y8M C15 C 6.897 1.643 3
Y8M C02 C 8.196 3.893 4
Y8M C03 C 9.495 3.143 5
Y8M C04 C 9.495 1.643 6
Y8M C05 C 8.196 0.892 7
Y8M C06 C 8.196 -0.608 8
Y8M C07 C 6.897 -1.357 9
Y8M C08 C 6.897 -2.857 10
Y8M C09 C 5.598 -3.607 11
Y8M C11 C 4.299 -5.857 12
Y8M C12 C 3.000 -5.107 13
Y8M C14 C 4.299 -2.857 14
Y8M C16 C 6.897 3.143 15
Y8M N01 N 8.196 5.393 16
#
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
Y8M C07 C06 SINGLE NONE 1
Y8M C07 C08 SINGLE NONE 2
Y8M C06 C05 SINGLE NONE 3
Y8M C14 C13 DOUBLE NONE 4
Y8M C14 C09 SINGLE NONE 5
Y8M C15 C05 DOUBLE NONE 6
Y8M C15 C16 SINGLE NONE 7
Y8M C13 C12 SINGLE NONE 8
Y8M C08 C09 SINGLE NONE 9
Y8M C05 C04 SINGLE NONE 10
Y8M C16 C02 DOUBLE NONE 11
Y8M C09 C10 DOUBLE NONE 12
Y8M C12 C11 DOUBLE NONE 13
Y8M C04 C03 DOUBLE NONE 14
Y8M C02 C03 SINGLE NONE 15
Y8M C02 N01 SINGLE NONE 16
Y8M C10 C11 SINGLE NONE 17
#
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
Y8M MurckoScaffold S1 scaffold c1ccc(CCCc2ccccc2)cc1 InChI=1S/C15H16/c1-3-8-14(9-4-1)12-7-13-15-10-5-2-6-11-15/h1-6,8-11H,7,12-13H2 VEAFKIYNHVBNIP-UHFFFAOYSA-N
Y8M 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
Y8M C10 S1 1
Y8M C13 S1 1
Y8M C15 S1 1
Y8M C02 S1 1
Y8M C03 S1 1
Y8M C04 S1 1
Y8M C05 S1 1
Y8M C06 S1 1
Y8M C07 S1 1
Y8M C08 S1 1
Y8M C09 S1 1
Y8M C11 S1 1
Y8M C12 S1 1
Y8M C14 S1 1
Y8M C16 S1 1
Y8M C10 F1 1
Y8M C09 F1 1
Y8M C14 F1 1
Y8M C13 F1 1
Y8M C12 F1 1
Y8M C11 F1 1
Y8M C15 F1 2
Y8M C05 F1 2
Y8M C04 F1 2
Y8M C03 F1 2
Y8M C02 F1 2
Y8M C16 F1 2
#
_pdbe_chem_comp_rdkit_properties.comp_id Y8M
_pdbe_chem_comp_rdkit_properties.exactmw 211.136
_pdbe_chem_comp_rdkit_properties.amw 211.308
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 1
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 1
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 33
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 1
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.200
_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 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 120.924
_pdbe_chem_comp_rdkit_properties.tpsa 26.020
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.954
_pdbe_chem_comp_rdkit_properties.CrippenMR 67.965
_pdbe_chem_comp_rdkit_properties.chi0v 7.947
_pdbe_chem_comp_rdkit_properties.chi1v 4.224
_pdbe_chem_comp_rdkit_properties.chi2v 1.487
_pdbe_chem_comp_rdkit_properties.chi3v 1.487
_pdbe_chem_comp_rdkit_properties.chi4v 0.837
_pdbe_chem_comp_rdkit_properties.chi0n 24.947
_pdbe_chem_comp_rdkit_properties.chi1n 12.618
_pdbe_chem_comp_rdkit_properties.chi2n 1.487
_pdbe_chem_comp_rdkit_properties.chi3n 1.487
_pdbe_chem_comp_rdkit_properties.chi4n 0.837
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.760
_pdbe_chem_comp_rdkit_properties.kappa1 2.402
_pdbe_chem_comp_rdkit_properties.kappa2 5.358
_pdbe_chem_comp_rdkit_properties.kappa3 3.126
_pdbe_chem_comp_rdkit_properties.Phi 0.804
#
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
Y8M UniChem ZINC ZINC000039290761
Y8M UniChem 'EPA CompTox Dashboard' DTXSID30509955
Y8M UniChem eMolecules 31417403
Y8M UniChem SureChEMBL SCHEMBL9798973
Y8M UniChem PubChem 12790569
#
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
Y8M C10 -3.503 -0.743 -0.763 ETKDGv3 1
Y8M C13 -3.815 1.548 0.848 ETKDGv3 2
Y8M C15 2.404 -0.383 -1.111 ETKDGv3 3
Y8M C02 3.895 1.117 0.119 ETKDGv3 4
Y8M C03 3.398 0.504 1.372 ETKDGv3 5
Y8M C04 2.481 -0.471 1.328 ETKDGv3 6
Y8M C05 1.956 -0.947 0.025 ETKDGv3 7
Y8M C06 0.899 -2.021 -0.008 ETKDGv3 8
Y8M C07 -0.489 -1.471 0.348 ETKDGv3 9
Y8M C08 -1.034 -0.522 -0.729 ETKDGv3 10
Y8M C09 -2.417 -0.054 -0.368 ETKDGv3 11
Y8M C11 -4.855 -0.292 -0.370 ETKDGv3 12
Y8M C12 -5.003 0.797 0.394 ETKDGv3 13
Y8M C14 -2.589 1.146 0.490 ETKDGv3 14
Y8M C16 3.418 0.691 -1.062 ETKDGv3 15
Y8M N01 4.875 2.157 0.173 ETKDGv3 16
Y8M H1 -3.401 -1.635 -1.369 ETKDGv3 17
Y8M H2 -3.939 2.424 1.472 ETKDGv3 18
Y8M H3 2.024 -0.701 -2.074 ETKDGv3 19
Y8M H4 3.775 0.844 2.328 ETKDGv3 20
Y8M H5 2.122 -0.911 2.250 ETKDGv3 21
Y8M H6 0.865 -2.518 -1.003 ETKDGv3 22
Y8M H7 1.169 -2.807 0.730 ETKDGv3 23
Y8M H8 -0.444 -0.945 1.327 ETKDGv3 24
Y8M H9 -1.186 -2.331 0.457 ETKDGv3 25
Y8M H10 -1.049 -1.038 -1.714 ETKDGv3 26
Y8M H11 -0.367 0.362 -0.828 ETKDGv3 27
Y8M H12 -5.724 -0.846 -0.700 ETKDGv3 28
Y8M H13 -5.992 1.127 0.684 ETKDGv3 29
Y8M H14 -1.723 1.698 0.832 ETKDGv3 30
Y8M H15 3.768 1.129 -1.988 ETKDGv3 31
Y8M H16 5.244 2.488 1.092 ETKDGv3 32
Y8M H17 5.237 2.603 -0.699 ETKDGv3 33
#