data_LEY
#
_chem_comp.id LEY
_chem_comp.name N-[(4-fluorophenyl)methyl]-2-(propan-2-yl)-1H-imidazole-5-carboxamide
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H16 F N3 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2019-02-22
_chem_comp.pdbx_modified_date 2019-05-03
_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 261.295
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code LEY
_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 5QOR
_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
LEY N1 N1 N 0 1 Y N N N N N -38.286 23.515 76.412 -2.383 0.261 -0.079 N1 LEY 1
LEY N3 N2 N 0 1 N N N N N N -39.638 21.941 78.385 0.252 -1.107 0.001 N3 LEY 2
LEY C4 C1 C 0 1 Y N N N N N -37.344 24.175 75.732 -3.712 0.468 -0.113 C4 LEY 3
LEY C5 C2 C 0 1 Y N N N N N -37.623 22.637 77.265 -2.186 -1.105 -0.040 C5 LEY 4
LEY C6 C3 C 0 1 Y N N N N N -36.280 22.767 77.053 -3.430 -1.673 -0.045 C6 LEY 5
LEY C7 C4 C 0 1 N N N N N N -38.336 21.705 78.160 -0.899 -1.808 0.000 C7 LEY 6
LEY C8 C5 C 0 1 N N N N N N -40.522 20.922 78.944 1.538 -1.808 0.041 C8 LEY 7
LEY C10 C6 C 0 1 Y N N N N N -40.401 21.557 81.378 3.193 -0.373 -1.168 C10 LEY 8
LEY C13 C7 C 0 1 Y N N N N N -39.529 19.042 82.102 4.190 0.606 1.219 C13 LEY 9
LEY C1 C8 C 0 1 N N N N N N -36.598 26.356 74.722 -4.531 2.365 1.258 C1 LEY 10
LEY C11 C9 C 0 1 Y N N N N N -40.132 21.282 82.710 4.222 0.550 -1.178 C11 LEY 11
LEY C12 C10 C 0 1 Y N N N N N -39.705 20.026 83.033 4.721 1.041 0.017 C12 LEY 12
LEY C14 C11 C 0 1 Y N N N N N -39.793 19.340 80.772 3.154 -0.309 1.225 C14 LEY 13
LEY C2 C12 C 0 1 N N N N N N -37.611 25.211 74.689 -4.386 1.815 -0.163 C2 LEY 14
LEY C3 C13 C 0 1 N N N N N N -39.039 25.743 74.775 -3.540 2.777 -0.998 C3 LEY 15
LEY C9 C14 C 0 1 Y N N N N N -40.231 20.599 80.392 2.659 -0.802 0.032 C9 LEY 16
LEY F1 F1 F 0 1 N N N N N N -39.444 19.742 84.338 5.727 1.944 0.009 F1 LEY 17
LEY N2 N3 N 0 1 Y N N N N N -36.116 23.727 76.097 -4.327 -0.688 -0.096 N2 LEY 18
LEY O1 O1 O 0 1 N N N N N N -37.751 20.706 78.609 -0.870 -3.024 0.034 O1 LEY 19
LEY H1 H1 H 0 1 N N N N N N -39.276 23.630 76.325 -1.694 0.943 -0.086 H1 LEY 20
LEY H2 H2 H 0 1 N N N N N N -40.014 22.841 78.163 0.229 -0.137 -0.026 H2 LEY 21
LEY H3 H3 H 0 1 N N N N N N -35.496 22.214 77.549 -3.647 -2.730 -0.020 H3 LEY 22
LEY H4 H4 H 0 1 N N N N N N -41.559 21.282 78.869 1.595 -2.409 0.948 H4 LEY 23
LEY H5 H5 H 0 1 N N N N N N -40.410 20.001 78.353 1.625 -2.457 -0.831 H5 LEY 24
LEY H6 H6 H 0 1 N N N N N N -40.751 22.541 81.103 2.803 -0.755 -2.100 H6 LEY 25
LEY H7 H7 H 0 1 N N N N N N -39.193 18.058 82.393 4.579 0.988 2.152 H7 LEY 26
LEY H8 H8 H 0 1 N N N N N N -35.579 25.947 74.659 -5.134 1.679 1.853 H8 LEY 27
LEY H9 H9 H 0 1 N N N N N N -36.777 27.028 73.870 -3.545 2.468 1.710 H9 LEY 28
LEY H10 H10 H 0 1 N N N N N N -36.710 26.917 75.661 -5.019 3.339 1.222 H10 LEY 29
LEY H11 H11 H 0 1 N N N N N N -40.257 22.039 83.470 4.636 0.889 -2.116 H11 LEY 30
LEY H12 H12 H 0 1 N N N N N N -39.655 18.577 80.020 2.740 -0.649 2.163 H12 LEY 31
LEY H13 H13 H 0 1 N N N N N N -37.510 24.722 73.709 -5.372 1.711 -0.615 H13 LEY 32
LEY H14 H14 H 0 1 N N N N N N -39.747 24.901 74.749 -2.554 2.881 -0.546 H14 LEY 33
LEY H15 H15 H 0 1 N N N N N N -39.166 26.301 75.715 -3.436 2.385 -2.010 H15 LEY 34
LEY H16 H16 H 0 1 N N N N N N -39.233 26.411 73.923 -4.027 3.752 -1.034 H16 LEY 35
#
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
LEY C2 C1 SING N N 1
LEY C2 C3 SING N N 2
LEY C2 C4 SING N N 3
LEY C4 N2 DOUB Y N 4
LEY C4 N1 SING Y N 5
LEY N2 C6 SING Y N 6
LEY N1 C5 SING Y N 7
LEY C6 C5 DOUB Y N 8
LEY C5 C7 SING N N 9
LEY C7 N3 SING N N 10
LEY C7 O1 DOUB N N 11
LEY N3 C8 SING N N 12
LEY C8 C9 SING N N 13
LEY C9 C14 DOUB Y N 14
LEY C9 C10 SING Y N 15
LEY C14 C13 SING Y N 16
LEY C10 C11 DOUB Y N 17
LEY C13 C12 DOUB Y N 18
LEY C11 C12 SING Y N 19
LEY C12 F1 SING N N 20
LEY N1 H1 SING N N 21
LEY N3 H2 SING N N 22
LEY C6 H3 SING N N 23
LEY C8 H4 SING N N 24
LEY C8 H5 SING N N 25
LEY C10 H6 SING N N 26
LEY C13 H7 SING N N 27
LEY C1 H8 SING N N 28
LEY C1 H9 SING N N 29
LEY C1 H10 SING N N 30
LEY C11 H11 SING N N 31
LEY C14 H12 SING N N 32
LEY C2 H13 SING N N 33
LEY C3 H14 SING N N 34
LEY C3 H15 SING N N 35
LEY C3 H16 SING N N 36
#
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
LEY SMILES ACDLabs 12.01 n2c(C(NCc1ccc(cc1)F)=O)cnc2C(C)C
LEY InChI InChI 1.03 InChI=1S/C14H16FN3O/c1-9(2)13-16-8-12(18-13)14(19)17-7-10-3-5-11(15)6-4-10/h3-6,8-9H,7H2,1-2H3,(H,16,18)(H,17,19)
LEY InChIKey InChI 1.03 TURNDZZBBPNUCW-UHFFFAOYSA-N
LEY SMILES_CANONICAL CACTVS 3.385 CC(C)c1[nH]c(cn1)C(=O)NCc2ccc(F)cc2
LEY SMILES CACTVS 3.385 CC(C)c1[nH]c(cn1)C(=O)NCc2ccc(F)cc2
LEY SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 CC(C)c1[nH]c(cn1)C(=O)NCc2ccc(cc2)F
LEY SMILES "OpenEye OEToolkits" 2.0.6 CC(C)c1[nH]c(cn1)C(=O)NCc2ccc(cc2)F
#
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
LEY "SYSTEMATIC NAME" ACDLabs 12.01 N-[(4-fluorophenyl)methyl]-2-(propan-2-yl)-1H-imidazole-5-carboxamide
LEY "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 ~{N}-[(4-fluorophenyl)methyl]-2-propan-2-yl-1~{H}-imidazole-5-carboxamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
LEY 'Create component' 2019-02-22 RCSB
LEY 'Initial release' 2019-05-08 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
LEY N1 N 7.054 3.798 1
LEY N3 N 5.598 0.056 2
LEY C4 C 8.521 4.110 3
LEY C5 C 6.897 2.306 4
LEY C6 C 8.267 1.696 5
LEY C7 C 5.598 1.556 6
LEY C8 C 4.299 -0.694 7
LEY C10 C 3.000 -2.944 8
LEY C13 C 5.598 -4.444 9
LEY C1 C 10.623 5.637 10
LEY C11 C 3.000 -4.444 11
LEY C12 C 4.299 -5.194 12
LEY C14 C 5.598 -2.944 13
LEY C2 C 9.131 5.480 14
LEY C3 C 8.249 6.694 15
LEY C9 C 4.299 -2.194 16
LEY F1 F 4.299 -6.694 17
LEY N2 N 9.271 2.811 18
LEY O1 O 4.299 2.306 19
#
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
LEY C2 C1 SINGLE NONE 1
LEY C2 C3 SINGLE NONE 2
LEY C2 C4 SINGLE NONE 3
LEY C4 N2 DOUBLE NONE 4
LEY C4 N1 SINGLE NONE 5
LEY N2 C6 SINGLE NONE 6
LEY N1 C5 SINGLE NONE 7
LEY C6 C5 DOUBLE NONE 8
LEY C5 C7 SINGLE NONE 9
LEY C7 N3 SINGLE NONE 10
LEY C7 O1 DOUBLE NONE 11
LEY N3 C8 SINGLE NONE 12
LEY C8 C9 SINGLE NONE 13
LEY C9 C14 SINGLE NONE 14
LEY C9 C10 DOUBLE NONE 15
LEY C14 C13 DOUBLE NONE 16
LEY C10 C11 SINGLE NONE 17
LEY C13 C12 SINGLE NONE 18
LEY C11 C12 DOUBLE NONE 19
LEY C12 F1 SINGLE NONE 20
#
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
LEY MurckoScaffold S1 scaffold 'O=C(NCc1ccccc1)c1cnc[nH]1' InChI=1S/C11H11N3O/c15-11(10-7-12-8-14-10)13-6-9-4-2-1-3-5-9/h1-5,7-8H,6H2,(H,12,14)(H,13,15) NXKFKZXQHBQTHY-UHFFFAOYSA-N
LEY amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
LEY imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
LEY 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
LEY N1 S1 1
LEY N3 S1 1
LEY C4 S1 1
LEY C5 S1 1
LEY C6 S1 1
LEY C7 S1 1
LEY C8 S1 1
LEY C10 S1 1
LEY C13 S1 1
LEY C11 S1 1
LEY C12 S1 1
LEY C14 S1 1
LEY C9 S1 1
LEY N2 S1 1
LEY O1 S1 1
LEY N3 F1 1
LEY C7 F1 1
LEY O1 F1 1
LEY C5 F1 1
LEY C5 F2 1
LEY C6 F2 1
LEY N2 F2 1
LEY C4 F2 1
LEY N1 F2 1
LEY C10 F3 1
LEY C9 F3 1
LEY C14 F3 1
LEY C13 F3 1
LEY C12 F3 1
LEY C11 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id LEY
_pdbe_chem_comp_rdkit_properties.exactmw 261.128
_pdbe_chem_comp_rdkit_properties.amw 261.300
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 35
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.286
_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 133.215
_pdbe_chem_comp_rdkit_properties.tpsa 57.780
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.438
_pdbe_chem_comp_rdkit_properties.CrippenMR 69.449
_pdbe_chem_comp_rdkit_properties.chi0v 9.128
_pdbe_chem_comp_rdkit_properties.chi1v 4.735
_pdbe_chem_comp_rdkit_properties.chi2v 1.775
_pdbe_chem_comp_rdkit_properties.chi3v 1.775
_pdbe_chem_comp_rdkit_properties.chi4v 0.982
_pdbe_chem_comp_rdkit_properties.chi0n 25.128
_pdbe_chem_comp_rdkit_properties.chi1n 12.629
_pdbe_chem_comp_rdkit_properties.chi2n 1.775
_pdbe_chem_comp_rdkit_properties.chi3n 1.775
_pdbe_chem_comp_rdkit_properties.chi4n 0.982
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.170
_pdbe_chem_comp_rdkit_properties.kappa1 3.685
_pdbe_chem_comp_rdkit_properties.kappa2 5.647
_pdbe_chem_comp_rdkit_properties.kappa3 3.403
_pdbe_chem_comp_rdkit_properties.Phi 1.095
#
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
LEY UniChem ChEMBL CHEMBL4921316
LEY UniChem PDBe LEY
LEY UniChem PubChem 132344825
#
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
LEY N1 -1.923 -0.177 0.675 ETKDGv3 1
LEY N3 1.460 1.669 0.540 ETKDGv3 2
LEY C4 -2.936 0.105 -0.282 ETKDGv3 3
LEY C5 -0.862 0.672 0.269 ETKDGv3 4
LEY C6 -1.244 1.352 -0.805 ETKDGv3 5
LEY C7 0.445 0.737 0.950 ETKDGv3 6
LEY C8 2.797 1.674 1.130 ETKDGv3 7
LEY C10 4.015 0.415 -0.618 ETKDGv3 8
LEY C13 4.534 -1.719 1.148 ETKDGv3 9
LEY C1 -5.397 0.478 -0.105 ETKDGv3 10
LEY C11 4.765 -0.769 -1.087 ETKDGv3 11
LEY C12 5.012 -1.783 -0.249 ETKDGv3 12
LEY C14 3.856 -0.647 1.577 ETKDGv3 13
LEY C2 -4.285 -0.561 -0.281 ETKDGv3 14
LEY C3 -4.486 -1.370 -1.565 ETKDGv3 15
LEY C9 3.583 0.483 0.654 ETKDGv3 16
LEY F1 5.698 -2.870 -0.679 ETKDGv3 17
LEY N2 -2.577 0.989 -1.159 ETKDGv3 18
LEY O1 0.665 -0.043 1.915 ETKDGv3 19
LEY H1 -1.953 -0.847 1.475 ETKDGv3 20
LEY H2 1.250 2.386 -0.189 ETKDGv3 21
LEY H3 -0.653 2.070 -1.356 ETKDGv3 22
LEY H4 2.720 1.687 2.239 ETKDGv3 23
LEY H5 3.329 2.604 0.830 ETKDGv3 24
LEY H6 3.815 1.222 -1.312 ETKDGv3 25
LEY H7 4.732 -2.542 1.822 ETKDGv3 26
LEY H8 -6.385 -0.028 -0.049 ETKDGv3 27
LEY H9 -5.409 1.192 -0.957 ETKDGv3 28
LEY H10 -5.243 1.045 0.837 ETKDGv3 29
LEY H11 5.111 -0.812 -2.112 ETKDGv3 30
LEY H12 3.508 -0.611 2.602 ETKDGv3 31
LEY H13 -4.332 -1.264 0.580 ETKDGv3 32
LEY H14 -5.460 -1.902 -1.532 ETKDGv3 33
LEY H15 -4.472 -0.706 -2.457 ETKDGv3 34
LEY H16 -3.680 -2.127 -1.669 ETKDGv3 35
#