data_E9J
#
_chem_comp.id E9J
_chem_comp.name "oxo{[(1S)-1-phenylethyl]amino}acetic acid"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C10 H11 N O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2017-12-13
_chem_comp.pdbx_modified_date 2018-12-07
_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 193.199
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code E9J
_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 6BUL
_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
E9J C02 C1 C 0 1 N N N N N N 1.984 3.352 51.520 3.113 -0.669 0.145 C02 E9J 1
E9J C03 C2 C 0 1 N N N N N N 2.581 4.730 51.883 2.022 0.353 0.149 C03 E9J 2
E9J C05 C3 C 0 1 N N S N N N 2.204 4.409 54.360 -0.300 1.004 -0.198 C05 E9J 3
E9J C06 C4 C 0 1 N N N N N N 3.381 3.455 54.552 -0.296 1.759 -1.528 C06 E9J 4
E9J C07 C5 C 0 1 Y N N N N N 2.050 5.107 55.693 -1.630 0.319 -0.012 C07 E9J 5
E9J C08 C6 C 0 1 Y N N N N N 3.034 5.987 56.085 -2.593 0.889 0.798 C08 E9J 6
E9J C09 C7 C 0 1 Y N N N N N 2.945 6.619 57.317 -3.813 0.261 0.968 C09 E9J 7
E9J C10 C8 C 0 1 Y N N N N N 1.866 6.340 58.156 -4.069 -0.937 0.327 C10 E9J 8
E9J C11 C9 C 0 1 Y N N N N N 0.882 5.434 57.764 -3.105 -1.507 -0.484 C11 E9J 9
E9J C12 C10 C 0 1 Y N N N N N 0.978 4.807 56.524 -1.887 -0.876 -0.657 C12 E9J 10
E9J N04 N1 N 0 1 N N N N N N 2.635 5.228 53.248 0.769 0.002 -0.201 N04 E9J 11
E9J O01 O1 O 0 1 N N N N N N 2.293 2.812 50.433 2.871 -1.812 -0.178 O01 E9J 12
E9J O13 O2 O 0 1 N N N N N N 2.983 5.432 51.015 2.265 1.498 0.468 O13 E9J 13
E9J O14 O3 O 0 1 N N N N N N 1.176 2.745 52.274 4.364 -0.319 0.495 O14 E9J 14
E9J H1 H1 H 0 1 N N N N N N 1.292 3.845 54.114 -0.136 1.707 0.619 H1 E9J 15
E9J H2 H2 H 0 1 N N N N N N 3.166 2.770 55.386 -1.092 2.504 -1.526 H2 E9J 16
E9J H3 H3 H 0 1 N N N N N N 3.536 2.874 53.631 0.665 2.254 -1.663 H3 E9J 17
E9J H4 H4 H 0 1 N N N N N N 4.289 4.034 54.777 -0.460 1.056 -2.345 H4 E9J 18
E9J H5 H5 H 0 1 N N N N N N 3.873 6.185 55.435 -2.394 1.825 1.299 H5 E9J 19
E9J H6 H6 H 0 1 N N N N N N 3.705 7.322 57.624 -4.566 0.706 1.602 H6 E9J 20
E9J H7 H7 H 0 1 N N N N N N 1.793 6.829 59.116 -5.022 -1.428 0.461 H7 E9J 21
E9J H8 H8 H 0 1 N N N N N N 0.050 5.219 58.418 -3.305 -2.443 -0.984 H8 E9J 22
E9J H9 H9 H 0 1 N N N N N N 0.228 4.096 56.212 -1.136 -1.319 -1.294 H9 E9J 23
E9J H10 H10 H 0 1 N N N N N N 2.976 6.152 53.421 0.575 -0.914 -0.456 H10 E9J 24
E9J H11 H11 H 0 1 N N N N N N 0.918 1.926 51.868 5.035 -1.015 0.477 H11 E9J 25
#
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
E9J O01 C02 DOUB N N 1
E9J O13 C03 DOUB N N 2
E9J C02 C03 SING N N 3
E9J C02 O14 SING N N 4
E9J C03 N04 SING N N 5
E9J N04 C05 SING N N 6
E9J C05 C06 SING N N 7
E9J C05 C07 SING N N 8
E9J C07 C08 DOUB Y N 9
E9J C07 C12 SING Y N 10
E9J C08 C09 SING Y N 11
E9J C12 C11 DOUB Y N 12
E9J C09 C10 DOUB Y N 13
E9J C11 C10 SING Y N 14
E9J C05 H1 SING N N 15
E9J C06 H2 SING N N 16
E9J C06 H3 SING N N 17
E9J C06 H4 SING N N 18
E9J C08 H5 SING N N 19
E9J C09 H6 SING N N 20
E9J C10 H7 SING N N 21
E9J C11 H8 SING N N 22
E9J C12 H9 SING N N 23
E9J N04 H10 SING N N 24
E9J O14 H11 SING N N 25
#
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
E9J SMILES ACDLabs 12.01 C(C(NC(C)c1ccccc1)=O)(O)=O
E9J InChI InChI 1.03 InChI=1S/C10H11NO3/c1-7(11-9(12)10(13)14)8-5-3-2-4-6-8/h2-7H,1H3,(H,11,12)(H,13,14)/t7-/m0/s1
E9J InChIKey InChI 1.03 RVIXKSXCAWSWSX-ZETCQYMHSA-N
E9J SMILES_CANONICAL CACTVS 3.385 C[C@H](NC(=O)C(O)=O)c1ccccc1
E9J SMILES CACTVS 3.385 C[CH](NC(=O)C(O)=O)c1ccccc1
E9J SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 C[C@@H](c1ccccc1)NC(=O)C(=O)O
E9J SMILES "OpenEye OEToolkits" 2.0.6 CC(c1ccccc1)NC(=O)C(=O)O
#
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
E9J "SYSTEMATIC NAME" ACDLabs 12.01 "oxo{[(1S)-1-phenylethyl]amino}acetic acid"
E9J "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "2-oxidanylidene-2-[[(1~{S})-1-phenylethyl]amino]ethanoic 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
E9J 'Create component' 2017-12-13 RCSB
E9J 'Modify name' 2018-03-26 RCSB
E9J 'Initial release' 2018-12-12 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
E9J C02 C 6.897 2.768 1
E9J C03 C 5.598 2.018 2
E9J C05 C 4.299 -0.233 3
E9J C06 C 3.000 0.517 4
E9J C07 C 4.299 -1.732 5
E9J C08 C 3.000 -2.482 6
E9J C09 C 3.000 -3.982 7
E9J C10 C 4.299 -4.732 8
E9J C11 C 5.598 -3.982 9
E9J C12 C 5.598 -2.482 10
E9J N04 N 5.598 0.517 11
E9J O01 O 6.897 4.268 12
E9J O13 O 4.299 2.768 13
E9J O14 O 8.196 2.018 14
#
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
E9J O01 C02 DOUBLE NONE 1
E9J O13 C03 DOUBLE NONE 2
E9J C02 C03 SINGLE NONE 3
E9J C02 O14 SINGLE NONE 4
E9J C03 N04 SINGLE NONE 5
E9J N04 C05 SINGLE NONE 6
E9J C05 C06 SINGLE BEGINDASH 7
E9J C05 C07 SINGLE NONE 8
E9J C07 C08 DOUBLE NONE 9
E9J C07 C12 SINGLE NONE 10
E9J C08 C09 SINGLE NONE 11
E9J C12 C11 DOUBLE NONE 12
E9J C09 C10 DOUBLE NONE 13
E9J C11 C10 SINGLE NONE 14
#
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
E9J MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
E9J amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
E9J peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
E9J phenyl F3 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
E9J C07 S1 1
E9J C08 S1 1
E9J C09 S1 1
E9J C10 S1 1
E9J C11 S1 1
E9J C12 S1 1
E9J N04 F1 1
E9J C03 F1 1
E9J O13 F1 1
E9J C02 F1 1
E9J O01 F2 1
E9J C02 F2 1
E9J C03 F2 1
E9J N04 F2 1
E9J C07 F3 1
E9J C08 F3 1
E9J C09 F3 1
E9J C10 F3 1
E9J C11 F3 1
E9J C12 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id E9J
_pdbe_chem_comp_rdkit_properties.exactmw 193.074
_pdbe_chem_comp_rdkit_properties.amw 193.202
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_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 14
_pdbe_chem_comp_rdkit_properties.NumAtoms 25
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.200
_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 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 97.158
_pdbe_chem_comp_rdkit_properties.tpsa 66.400
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.894
_pdbe_chem_comp_rdkit_properties.CrippenMR 50.370
_pdbe_chem_comp_rdkit_properties.chi0v 6.672
_pdbe_chem_comp_rdkit_properties.chi1v 3.310
_pdbe_chem_comp_rdkit_properties.chi2v 1.125
_pdbe_chem_comp_rdkit_properties.chi3v 1.125
_pdbe_chem_comp_rdkit_properties.chi4v 0.571
_pdbe_chem_comp_rdkit_properties.chi0n 17.672
_pdbe_chem_comp_rdkit_properties.chi1n 8.665
_pdbe_chem_comp_rdkit_properties.chi2n 1.125
_pdbe_chem_comp_rdkit_properties.chi3n 1.125
_pdbe_chem_comp_rdkit_properties.chi4n 0.571
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.840
_pdbe_chem_comp_rdkit_properties.kappa1 2.823
_pdbe_chem_comp_rdkit_properties.kappa2 4.411
_pdbe_chem_comp_rdkit_properties.kappa3 2.585
_pdbe_chem_comp_rdkit_properties.Phi 0.890
#
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
E9J UniChem PDBe E9J
E9J UniChem ZINC ZINC000020184957
E9J UniChem PubChem 28710343
E9J UniChem Nikkaji J2.109.598B
#
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
E9J C02 3.536 -0.392 1.483 ETKDGv3 1
E9J C03 2.673 -0.448 0.294 ETKDGv3 2
E9J C05 0.357 -0.343 -0.752 ETKDGv3 3
E9J C06 0.131 -1.810 -1.134 ETKDGv3 4
E9J C07 -0.964 0.343 -0.460 ETKDGv3 5
E9J C08 -1.379 1.382 -1.210 ETKDGv3 6
E9J C09 -2.669 2.044 -0.924 ETKDGv3 7
E9J C10 -3.436 1.614 0.085 ETKDGv3 8
E9J C11 -2.993 0.477 0.915 ETKDGv3 9
E9J C12 -1.826 -0.126 0.660 ETKDGv3 10
E9J N04 1.254 -0.251 0.406 ETKDGv3 11
E9J O01 3.041 -0.176 2.622 ETKDGv3 12
E9J O13 3.195 -0.668 -0.832 ETKDGv3 13
E9J O14 4.908 -0.581 1.352 ETKDGv3 14
E9J H1 0.846 0.157 -1.618 ETKDGv3 15
E9J H2 -0.270 -2.386 -0.273 ETKDGv3 16
E9J H3 -0.585 -1.879 -1.981 ETKDGv3 17
E9J H4 1.088 -2.275 -1.451 ETKDGv3 18
E9J H5 -0.780 1.749 -2.034 ETKDGv3 19
E9J H6 -2.992 2.878 -1.534 ETKDGv3 20
E9J H7 -4.381 2.099 0.294 ETKDGv3 21
E9J H8 -3.615 0.133 1.731 ETKDGv3 22
E9J H9 -1.511 -0.957 1.279 ETKDGv3 23
E9J H10 0.854 -0.038 1.348 ETKDGv3 24
E9J H11 5.518 -0.546 2.160 ETKDGv3 25
#