data_1L5
#
_chem_comp.id 1L5
_chem_comp.name "[(1E)-1-nitroprop-1-en-2-yl]benzene"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C9 H9 N O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2013-03-13
_chem_comp.pdbx_modified_date 2013-05-03
_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 163.173
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 1L5
_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 4JIQ
_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
1L5 C1 C1 C 0 1 N N N N N N -0.021 1.434 9.509 -0.465 -0.374 0.113 C1 1L5 1
1L5 C2 C2 C 0 1 Y N N N N N -1.298 1.063 10.214 0.990 -0.122 0.041 C2 1L5 2
1L5 C3 C3 C 0 1 Y N N N N N -2.496 1.042 9.504 1.805 -0.941 -0.741 C3 1L5 3
1L5 C4 C4 C 0 1 Y N N N N N -3.698 0.702 10.125 3.162 -0.700 -0.804 C4 1L5 4
1L5 C5 C5 C 0 1 Y N N N N N -3.711 0.365 11.468 3.715 0.350 -0.093 C5 1L5 5
1L5 C6 C6 C 0 1 Y N N N N N -2.512 0.375 12.172 2.912 1.166 0.684 C6 1L5 6
1L5 C7 C7 C 0 1 Y N N N N N -1.312 0.715 11.553 1.553 0.940 0.751 C7 1L5 7
1L5 C8 C8 C 0 1 N N N N N N -0.116 2.050 8.329 -1.317 0.515 -0.378 C8 1L5 8
1L5 O1 O1 O 0 1 N N N N N N 0.800 2.117 6.417 -3.182 -0.570 0.528 O1 1L5 9
1L5 N N N 0 1 N N N N N N 0.861 2.391 7.600 -2.772 0.338 -0.173 N 1L5 10
1L5 O O O 0 1 N N N N N N 1.998 3.085 8.037 -3.559 1.100 -0.705 O 1L5 11
1L5 C C C 0 1 N N N N N N 1.328 1.151 10.096 -0.979 -1.644 0.740 C 1L5 12
1L5 H1 H1 H 0 1 N N N N N N -2.494 1.293 8.454 1.375 -1.761 -1.296 H1 1L5 13
1L5 H2 H2 H 0 1 N N N N N N -4.618 0.702 9.559 3.794 -1.333 -1.409 H2 1L5 14
1L5 H3 H3 H 0 1 N N N N N N -4.635 0.099 11.960 4.778 0.535 -0.146 H3 1L5 15
1L5 H4 H4 H 0 1 N N N N N N -2.511 0.114 13.220 3.350 1.984 1.237 H4 1L5 16
1L5 H5 H5 H 0 1 N N N N N N -0.392 0.707 12.118 0.927 1.580 1.354 H5 1L5 17
1L5 H6 H6 H 0 1 N N N N N N -1.108 2.276 7.966 -0.949 1.369 -0.929 H6 1L5 18
1L5 H7 H7 H 0 1 N N N N N N 1.208 0.642 11.064 -1.236 -1.457 1.782 H7 1L5 19
1L5 H8 H8 H 0 1 N N N N N N 1.898 0.506 9.411 -1.865 -1.981 0.202 H8 1L5 20
1L5 H9 H9 H 0 1 N N N N N N 1.869 2.097 10.244 -0.208 -2.413 0.688 H9 1L5 21
#
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
1L5 O1 N DOUB N N 1
1L5 N O DOUB N N 2
1L5 N C8 SING N N 3
1L5 C8 C1 DOUB N E 4
1L5 C3 C4 DOUB Y N 5
1L5 C3 C2 SING Y N 6
1L5 C1 C SING N N 7
1L5 C1 C2 SING N N 8
1L5 C4 C5 SING Y N 9
1L5 C2 C7 DOUB Y N 10
1L5 C5 C6 DOUB Y N 11
1L5 C7 C6 SING Y N 12
1L5 C3 H1 SING N N 13
1L5 C4 H2 SING N N 14
1L5 C5 H3 SING N N 15
1L5 C6 H4 SING N N 16
1L5 C7 H5 SING N N 17
1L5 C8 H6 SING N N 18
1L5 C H7 SING N N 19
1L5 C H8 SING N N 20
1L5 C H9 SING N N 21
#
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
1L5 SMILES ACDLabs 12.01 O=N(=O)/C=C(/c1ccccc1)C
1L5 InChI InChI 1.03 InChI=1S/C9H9NO2/c1-8(7-10(11)12)9-5-3-2-4-6-9/h2-7H,1H3/b8-7+
1L5 InChIKey InChI 1.03 KFNFMBKUWFTFAE-BQYQJAHWSA-N
1L5 SMILES_CANONICAL CACTVS 3.370 CC(=C/[N](=O)=O)\c1ccccc1
1L5 SMILES CACTVS 3.370 CC(=C[N](=O)=O)c1ccccc1
1L5 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 C/C(=C\N(=O)=O)/c1ccccc1
1L5 SMILES "OpenEye OEToolkits" 1.7.6 CC(=CN(=O)=O)c1ccccc1
#
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
1L5 "SYSTEMATIC NAME" ACDLabs 12.01 "[(1E)-1-nitroprop-1-en-2-yl]benzene"
1L5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(E)-1-nitroprop-1-en-2-yl]benzene"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
1L5 'Create component' 2013-03-13 RCSB
1L5 'Initial release' 2013-05-08 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
1L5 C1 C 4.299 0.750 1
1L5 C2 C 4.299 -0.750 2
1L5 C3 C 3.000 -1.500 3
1L5 C4 C 3.000 -3.000 4
1L5 C5 C 4.299 -3.750 5
1L5 C6 C 5.598 -3.000 6
1L5 C7 C 5.598 -1.500 7
1L5 C8 C 5.598 1.500 8
1L5 O1 O 6.897 3.750 9
1L5 N N 5.598 3.000 10
1L5 O O 4.299 3.750 11
1L5 C C 3.000 1.500 12
#
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
1L5 O1 N SINGLE NONE 1
1L5 N O DOUBLE NONE 2
1L5 N C8 SINGLE ENDUPRIGHT 3
1L5 C8 C1 DOUBLE NONE 4
1L5 C3 C4 SINGLE NONE 5
1L5 C3 C2 DOUBLE NONE 6
1L5 C1 C SINGLE ENDDOWNRIGHT 7
1L5 C1 C2 SINGLE ENDUPRIGHT 8
1L5 C4 C5 DOUBLE NONE 9
1L5 C2 C7 SINGLE NONE 10
1L5 C5 C6 SINGLE NONE 11
1L5 C7 C6 DOUBLE NONE 12
#
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
1L5 MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
1L5 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
1L5 C2 S1 1
1L5 C3 S1 1
1L5 C4 S1 1
1L5 C5 S1 1
1L5 C6 S1 1
1L5 C7 S1 1
1L5 C2 F1 1
1L5 C3 F1 1
1L5 C4 F1 1
1L5 C5 F1 1
1L5 C6 F1 1
1L5 C7 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 1L5
_pdbe_chem_comp_rdkit_properties.exactmw 163.063
_pdbe_chem_comp_rdkit_properties.amw 163.176
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 21
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.111
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 83.134
_pdbe_chem_comp_rdkit_properties.tpsa 43.140
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.269
_pdbe_chem_comp_rdkit_properties.CrippenMR 46.821
_pdbe_chem_comp_rdkit_properties.chi0v 5.764
_pdbe_chem_comp_rdkit_properties.chi1v 2.839
_pdbe_chem_comp_rdkit_properties.chi2v 0.953
_pdbe_chem_comp_rdkit_properties.chi3v 0.953
_pdbe_chem_comp_rdkit_properties.chi4v 0.522
_pdbe_chem_comp_rdkit_properties.chi0n 14.764
_pdbe_chem_comp_rdkit_properties.chi1n 7.339
_pdbe_chem_comp_rdkit_properties.chi2n 0.953
_pdbe_chem_comp_rdkit_properties.chi3n 0.953
_pdbe_chem_comp_rdkit_properties.chi4n 0.522
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.640
_pdbe_chem_comp_rdkit_properties.kappa1 2.422
_pdbe_chem_comp_rdkit_properties.kappa2 3.665
_pdbe_chem_comp_rdkit_properties.kappa3 2.196
_pdbe_chem_comp_rdkit_properties.Phi 0.740
#
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
1L5 UniChem ZINC ZINC000071260680
1L5 UniChem BRENDA 218023
1L5 UniChem BRENDA 25250
1L5 UniChem BRENDA 260119
1L5 UniChem BRENDA 89383
1L5 UniChem SureChEMBL SCHEMBL1986023
1L5 UniChem 'PubChem TPHARMA' 16007957
1L5 UniChem PubChem 10953851
#
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
1L5 C1 1.075 0.162 0.188 ETKDGv3 1
1L5 C2 -0.397 -0.027 0.251 ETKDGv3 2
1L5 C3 -1.167 0.791 0.994 ETKDGv3 3
1L5 C4 -2.632 0.598 1.043 ETKDGv3 4
1L5 C5 -3.203 -0.390 0.346 ETKDGv3 5
1L5 C6 -2.370 -1.292 -0.474 ETKDGv3 6
1L5 C7 -1.043 -1.122 -0.521 ETKDGv3 7
1L5 C8 1.675 0.183 -1.022 ETKDGv3 8
1L5 O1 4.014 0.108 -0.252 ETKDGv3 9
1L5 N 3.086 0.358 -1.236 ETKDGv3 10
1L5 O 3.492 0.604 -2.389 ETKDGv3 11
1L5 C 1.842 0.335 1.475 ETKDGv3 12
1L5 H1 -0.732 1.613 1.549 ETKDGv3 13
1L5 H2 -3.242 1.262 1.643 ETKDGv3 14
1L5 H3 -4.276 -0.531 0.380 ETKDGv3 15
1L5 H4 -2.835 -2.093 -1.034 ETKDGv3 16
1L5 H5 -0.440 -1.796 -1.117 ETKDGv3 17
1L5 H6 1.049 0.115 -1.906 ETKDGv3 18
1L5 H7 1.163 0.376 2.352 ETKDGv3 19
1L5 H8 2.516 -0.532 1.633 ETKDGv3 20
1L5 H9 2.426 1.279 1.451 ETKDGv3 21
#