data_NIJ
#
_chem_comp.id NIJ
_chem_comp.name 3-(3-fluorophenyl)-N-(4-methylpyridin-3-yl)propanamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C15 H15 F N2 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-08-16
_chem_comp.pdbx_modified_date 2023-11-03
_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 258.291
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code NIJ
_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 7GEE
_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
NIJ N1 N1 N 0 1 N N N N N N 8.492 -0.672 20.577 -1.859 0.550 -0.399 N1 NIJ 1
NIJ C4 C1 C 0 1 Y N N N N N 8.016 -0.058 18.242 -3.422 -1.224 0.115 C4 NIJ 2
NIJ C5 C2 C 0 1 Y N N N N N 7.670 -0.040 19.596 -3.172 0.094 -0.243 C5 NIJ 3
NIJ C6 C3 C 0 1 N N N N N N 9.729 -0.246 20.941 -0.849 -0.068 0.246 C6 NIJ 4
NIJ C7 C4 C 0 1 N N N N N N 10.524 -1.232 21.773 0.577 0.340 -0.020 C7 NIJ 5
NIJ C8 C5 C 0 1 N N N N N N 11.787 -0.591 22.394 1.519 -0.512 0.833 C8 NIJ 6
NIJ C10 C6 C 0 1 Y N N N N N 14.096 -1.249 23.151 3.531 0.892 1.327 C10 NIJ 7
NIJ C13 C7 C 0 1 Y N N N N N 13.130 -3.284 24.691 4.972 -0.342 -0.686 C13 NIJ 8
NIJ F F1 F 0 1 N N N N N N 12.642 -4.326 25.434 5.673 -0.936 -1.677 F NIJ 9
NIJ C12 C8 C 0 1 Y N N N N N 14.473 -3.028 24.735 5.561 0.652 0.079 C12 NIJ 10
NIJ C11 C9 C 0 1 Y N N N N N 14.957 -2.000 23.942 4.840 1.267 1.084 C11 NIJ 11
NIJ C14 C10 C 0 1 Y N N N N N 12.243 -2.555 23.917 3.666 -0.725 -0.435 C14 NIJ 12
NIJ C9 C11 C 0 1 Y N N N N N 12.730 -1.503 23.142 2.945 -0.104 0.568 C9 NIJ 13
NIJ O O1 O 0 1 N N N N N N 10.194 0.846 20.611 -1.089 -0.953 1.039 O NIJ 14
NIJ C1 C12 C 0 1 Y N N N N N 6.500 0.660 19.977 -4.248 0.955 -0.443 C1 NIJ 15
NIJ C C13 C 0 1 N N N N N N 6.079 0.793 21.418 -4.023 2.394 -0.833 C NIJ 16
NIJ N N2 N 0 1 Y N N N N N 7.306 0.547 17.284 -4.658 -1.659 0.258 N NIJ 17
NIJ C3 C14 C 0 1 Y N N N N N 6.193 1.189 17.661 -5.698 -0.870 0.071 C3 NIJ 18
NIJ C2 C15 C 0 1 Y N N N N N 5.764 1.273 18.971 -5.530 0.457 -0.277 C2 NIJ 19
NIJ H1 H1 H 0 1 N N N N N N 8.131 -1.488 21.029 -1.674 1.309 -0.974 H1 NIJ 20
NIJ H2 H2 H 0 1 N N N N N N 8.909 -0.592 17.953 -2.596 -1.901 0.272 H2 NIJ 21
NIJ H3 H3 H 0 1 N N N N N N 9.883 -1.608 22.584 0.807 0.190 -1.075 H3 NIJ 22
NIJ H4 H4 H 0 1 N N N N N N 10.832 -2.070 21.130 0.707 1.392 0.234 H4 NIJ 23
NIJ H5 H5 H 0 1 N N N N N N 12.357 -0.125 21.577 1.288 -0.362 1.888 H5 NIJ 24
NIJ H6 H6 H 0 1 N N N N N N 11.452 0.186 23.097 1.388 -1.564 0.579 H6 NIJ 25
NIJ H7 H7 H 0 1 N N N N N N 14.494 -0.457 22.535 2.968 1.374 2.112 H7 NIJ 26
NIJ H8 H8 H 0 1 N N N N N N 15.132 -3.606 25.365 6.580 0.951 -0.117 H8 NIJ 27
NIJ H9 H9 H 0 1 N N N N N N 16.014 -1.780 23.939 5.299 2.042 1.681 H9 NIJ 28
NIJ H10 H10 H 0 1 N N N N N N 11.191 -2.797 23.914 3.206 -1.500 -1.030 H10 NIJ 29
NIJ H11 H11 H 0 1 N N N N N N 5.409 -0.038 21.683 -3.996 2.476 -1.919 H11 NIJ 30
NIJ H12 H12 H 0 1 N N N N N N 6.969 0.766 22.064 -4.835 3.007 -0.442 H12 NIJ 31
NIJ H13 H13 H 0 1 N N N N N N 5.552 1.748 21.559 -3.076 2.739 -0.418 H13 NIJ 32
NIJ H14 H14 H 0 1 N N N N N N 5.597 1.668 16.898 -6.696 -1.265 0.198 H14 NIJ 33
NIJ H15 H15 H 0 1 N N N N N N 4.860 1.813 19.212 -6.388 1.096 -0.428 H15 NIJ 34
#
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
NIJ N C3 DOUB Y N 1
NIJ N C4 SING Y N 2
NIJ C3 C2 SING Y N 3
NIJ C4 C5 DOUB Y N 4
NIJ C2 C1 DOUB Y N 5
NIJ C5 C1 SING Y N 6
NIJ C5 N1 SING N N 7
NIJ C1 C SING N N 8
NIJ N1 C6 SING N N 9
NIJ O C6 DOUB N N 10
NIJ C6 C7 SING N N 11
NIJ C7 C8 SING N N 12
NIJ C8 C9 SING N N 13
NIJ C9 C10 DOUB Y N 14
NIJ C9 C14 SING Y N 15
NIJ C10 C11 SING Y N 16
NIJ C14 C13 DOUB Y N 17
NIJ C11 C12 DOUB Y N 18
NIJ C13 C12 SING Y N 19
NIJ C13 F SING N N 20
NIJ N1 H1 SING N N 21
NIJ C4 H2 SING N N 22
NIJ C7 H3 SING N N 23
NIJ C7 H4 SING N N 24
NIJ C8 H5 SING N N 25
NIJ C8 H6 SING N N 26
NIJ C10 H7 SING N N 27
NIJ C12 H8 SING N N 28
NIJ C11 H9 SING N N 29
NIJ C14 H10 SING N N 30
NIJ C H11 SING N N 31
NIJ C H12 SING N N 32
NIJ C H13 SING N N 33
NIJ C3 H14 SING N N 34
NIJ C2 H15 SING N N 35
#
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
NIJ SMILES ACDLabs 12.01 O=C(Nc1cnccc1C)CCc1cccc(F)c1
NIJ InChI InChI 1.06 InChI=1S/C15H15FN2O/c1-11-7-8-17-10-14(11)18-15(19)6-5-12-3-2-4-13(16)9-12/h2-4,7-10H,5-6H2,1H3,(H,18,19)
NIJ InChIKey InChI 1.06 RBRNVPIASJICKN-UHFFFAOYSA-N
NIJ SMILES_CANONICAL CACTVS 3.385 Cc1ccncc1NC(=O)CCc2cccc(F)c2
NIJ SMILES CACTVS 3.385 Cc1ccncc1NC(=O)CCc2cccc(F)c2
NIJ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 Cc1ccncc1NC(=O)CCc2cccc(c2)F
NIJ SMILES "OpenEye OEToolkits" 2.0.7 Cc1ccncc1NC(=O)CCc2cccc(c2)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
NIJ "SYSTEMATIC NAME" ACDLabs 12.01 3-(3-fluorophenyl)-N-(4-methylpyridin-3-yl)propanamide
NIJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 3-(3-fluorophenyl)-~{N}-(4-methylpyridin-3-yl)propanamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
NIJ 'Create component' 2023-08-16 RCSB
NIJ 'Initial release' 2023-11-08 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
NIJ N1 N 5.598 -1.500 1
NIJ C4 C 6.897 -3.750 2
NIJ C5 C 5.598 -3.000 3
NIJ C6 C 6.897 -0.750 4
NIJ C7 C 6.897 0.750 5
NIJ C8 C 8.196 1.500 6
NIJ C10 C 6.897 3.750 7
NIJ C13 C 9.495 5.250 8
NIJ F F 10.794 6.000 9
NIJ C12 C 8.196 6.000 10
NIJ C11 C 6.897 5.250 11
NIJ C14 C 9.495 3.750 12
NIJ C9 C 8.196 3.000 13
NIJ O O 8.196 -1.500 14
NIJ C1 C 4.299 -3.750 15
NIJ C C 3.000 -3.000 16
NIJ N N 6.897 -5.250 17
NIJ C3 C 5.598 -6.000 18
NIJ C2 C 4.299 -5.250 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
NIJ N C3 SINGLE NONE 1
NIJ N C4 DOUBLE NONE 2
NIJ C3 C2 DOUBLE NONE 3
NIJ C4 C5 SINGLE NONE 4
NIJ C2 C1 SINGLE NONE 5
NIJ C5 C1 DOUBLE NONE 6
NIJ C5 N1 SINGLE NONE 7
NIJ C1 C SINGLE NONE 8
NIJ N1 C6 SINGLE NONE 9
NIJ O C6 DOUBLE NONE 10
NIJ C6 C7 SINGLE NONE 11
NIJ C7 C8 SINGLE NONE 12
NIJ C8 C9 SINGLE NONE 13
NIJ C9 C10 DOUBLE NONE 14
NIJ C9 C14 SINGLE NONE 15
NIJ C10 C11 SINGLE NONE 16
NIJ C14 C13 DOUBLE NONE 17
NIJ C11 C12 DOUBLE NONE 18
NIJ C13 C12 SINGLE NONE 19
NIJ C13 F 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
NIJ MurckoScaffold S1 scaffold O=C(CCc1ccccc1)Nc1cccnc1 InChI=1S/C14H14N2O/c17-14(16-13-7-4-10-15-11-13)9-8-12-5-2-1-3-6-12/h1-7,10-11H,8-9H2,(H,16,17) VDIGXPJBFMIXHE-UHFFFAOYSA-N
NIJ amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
NIJ phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
NIJ pyridine F3 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
NIJ Z1129283193 F4 fragment CC(=O)Nc1cnccc1C InChI=1S/C8H10N2O/c1-6-3-4-9-5-8(6)10-7(2)11/h3-5H,1-2H3,(H,10,11) WRPYDRDMRXJIJA-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
NIJ N1 S1 1
NIJ C4 S1 1
NIJ C5 S1 1
NIJ C6 S1 1
NIJ C7 S1 1
NIJ C8 S1 1
NIJ C10 S1 1
NIJ C13 S1 1
NIJ C12 S1 1
NIJ C11 S1 1
NIJ C14 S1 1
NIJ C9 S1 1
NIJ O S1 1
NIJ C1 S1 1
NIJ N S1 1
NIJ C3 S1 1
NIJ C2 S1 1
NIJ N1 F1 1
NIJ C6 F1 1
NIJ O F1 1
NIJ C7 F1 1
NIJ C10 F2 1
NIJ C9 F2 1
NIJ C14 F2 1
NIJ C13 F2 1
NIJ C12 F2 1
NIJ C11 F2 1
NIJ C4 F3 1
NIJ C5 F3 1
NIJ C1 F3 1
NIJ C2 F3 1
NIJ C3 F3 1
NIJ N F3 1
NIJ C7 F4 1
NIJ C6 F4 1
NIJ O F4 1
NIJ N1 F4 1
NIJ C5 F4 1
NIJ C4 F4 1
NIJ N F4 1
NIJ C3 F4 1
NIJ C2 F4 1
NIJ C1 F4 1
NIJ C F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id NIJ
_pdbe_chem_comp_rdkit_properties.exactmw 258.117
_pdbe_chem_comp_rdkit_properties.amw 258.296
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 34
_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 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 132.177
_pdbe_chem_comp_rdkit_properties.tpsa 41.990
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.610
_pdbe_chem_comp_rdkit_properties.CrippenMR 70.969
_pdbe_chem_comp_rdkit_properties.chi0v 9.181
_pdbe_chem_comp_rdkit_properties.chi1v 4.788
_pdbe_chem_comp_rdkit_properties.chi2v 1.738
_pdbe_chem_comp_rdkit_properties.chi3v 1.738
_pdbe_chem_comp_rdkit_properties.chi4v 0.990
_pdbe_chem_comp_rdkit_properties.chi0n 24.181
_pdbe_chem_comp_rdkit_properties.chi1n 12.235
_pdbe_chem_comp_rdkit_properties.chi2n 1.738
_pdbe_chem_comp_rdkit_properties.chi3n 1.738
_pdbe_chem_comp_rdkit_properties.chi4n 0.990
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.230
_pdbe_chem_comp_rdkit_properties.kappa1 3.884
_pdbe_chem_comp_rdkit_properties.kappa2 6.089
_pdbe_chem_comp_rdkit_properties.kappa3 3.877
_pdbe_chem_comp_rdkit_properties.Phi 1.245
#
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
NIJ UniChem PubChem 156907209
NIJ UniChem BindingDb 496627
#
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
NIJ N1 -0.779 0.490 0.113 ETKDGv3 1
NIJ C4 -1.224 -1.926 0.617 ETKDGv3 2
NIJ C5 -1.694 -0.614 0.119 ETKDGv3 3
NIJ C6 -0.349 1.128 -1.098 ETKDGv3 4
NIJ C7 0.686 2.213 -1.051 ETKDGv3 5
NIJ C8 2.096 1.657 -1.288 ETKDGv3 6
NIJ C10 2.413 -0.613 -0.334 ETKDGv3 7
NIJ C13 3.328 0.449 2.111 ETKDGv3 8
NIJ F 3.761 0.956 3.291 ETKDGv3 9
NIJ C12 3.216 -1.013 1.936 ETKDGv3 10
NIJ C11 2.783 -1.518 0.775 ETKDGv3 11
NIJ C14 2.999 1.272 1.107 ETKDGv3 12
NIJ C9 2.521 0.720 -0.186 ETKDGv3 13
NIJ O -0.785 0.737 -2.215 ETKDGv3 14
NIJ C1 -2.984 -0.484 -0.268 ETKDGv3 15
NIJ C -3.562 0.830 -0.720 ETKDGv3 16
NIJ N -2.025 -2.951 0.630 ETKDGv3 17
NIJ C3 -3.383 -2.850 0.174 ETKDGv3 18
NIJ C2 -3.860 -1.680 -0.261 ETKDGv3 19
NIJ H1 -0.242 0.678 0.990 ETKDGv3 20
NIJ H2 -0.206 -2.039 0.966 ETKDGv3 21
NIJ H3 0.458 2.964 -1.837 ETKDGv3 22
NIJ H4 0.643 2.736 -0.071 ETKDGv3 23
NIJ H5 2.139 1.150 -2.278 ETKDGv3 24
NIJ H6 2.811 2.507 -1.332 ETKDGv3 25
NIJ H7 2.042 -1.040 -1.257 ETKDGv3 26
NIJ H8 3.482 -1.676 2.750 ETKDGv3 27
NIJ H9 2.695 -2.589 0.647 ETKDGv3 28
NIJ H10 3.077 2.343 1.241 ETKDGv3 29
NIJ H11 -3.097 1.681 -0.178 ETKDGv3 30
NIJ H12 -3.405 0.954 -1.811 ETKDGv3 31
NIJ H13 -4.653 0.862 -0.515 ETKDGv3 32
NIJ H14 -4.019 -3.726 0.188 ETKDGv3 33
NIJ H15 -4.886 -1.610 -0.599 ETKDGv3 34
#