data_HNF
#
_chem_comp.id HNF
_chem_comp.name 7-nitro-9H-fluoren-2-ol
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C13 H9 N O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms 2-hydroxy-7-nitrofluorene
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2009-03-27
_chem_comp.pdbx_modified_date 2021-03-01
_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 227.215
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code HNF
_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 2KGZ
_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
HNF "H15'" "H15'" H 0 0 N Y N N N N 134.555 -3.876 4.871 -5.898 0.481 0.868 "H15'" HNF 1
HNF O1 O1 O 0 1 N N N N N N 134.473 -3.714 3.938 -5.512 0.396 -0.014 O1 HNF 2
HNF C1 C1 C 0 1 Y N N N N N 135.627 -2.975 3.473 -4.186 0.102 -0.012 C1 HNF 3
HNF C2 C2 C 0 1 Y N N N N N 136.933 -3.216 3.896 -3.767 -1.222 -0.010 C2 HNF 4
HNF C3 C3 C 0 1 Y N N N N N 137.997 -2.520 3.323 -2.423 -1.524 -0.007 C3 HNF 5
HNF C4 C4 C 0 1 Y N N N N N 137.745 -1.549 2.356 -1.475 -0.497 -0.007 C4 HNF 6
HNF C5 C5 C 0 1 Y N N N N N 136.433 -1.291 1.962 -1.903 0.828 -0.009 C5 HNF 7
HNF C6 C6 C 0 1 Y N N N N N 135.365 -1.974 2.538 -3.248 1.126 -0.018 C6 HNF 8
HNF C7 C7 C 0 1 Y N N N N N 138.637 -0.673 1.617 0.008 -0.538 -0.004 C7 HNF 9
HNF C8 C8 C 0 1 Y N N N N N 137.874 0.124 0.761 0.508 0.761 -0.004 C8 HNF 10
HNF C9 C9 C 0 1 N N N N N N 136.414 -0.221 0.904 -0.672 1.702 -0.007 C9 HNF 11
HNF C10 C10 C 0 1 Y N N N N N 140.026 -0.536 1.657 0.898 -1.614 -0.000 C10 HNF 12
HNF C11 C11 C 0 1 Y N N N N N 140.648 0.379 0.809 2.258 -1.383 0.003 C11 HNF 13
HNF C12 C12 C 0 1 Y N N N N N 139.868 1.177 -0.026 2.745 -0.088 0.002 C12 HNF 14
HNF C13 C13 C 0 1 Y N N N N N 138.478 1.063 -0.074 1.869 0.983 -0.002 C13 HNF 15
HNF N1 N1 N 1 1 N N N N N N 140.534 2.174 -0.891 4.205 0.152 0.005 N1 HNF 16
HNF O2 O2 O -1 1 N N N N N N 141.758 2.258 -0.837 4.977 -0.790 0.008 O2 HNF 17
HNF O3 O3 O 0 1 N N N N N N 139.830 2.865 -1.622 4.635 1.292 0.005 O3 HNF 18
HNF "H25'" "H25'" H 0 0 N N N N N N 137.122 -3.945 4.671 -4.497 -2.017 -0.010 "H25'" HNF 19
HNF "H4'" "H4'" H 0 1 N N N N N N 139.011 -2.733 3.627 -2.101 -2.555 -0.005 "H4'" HNF 20
HNF "H1'" "H1'" H 0 1 N N N N N N 134.349 -1.732 2.265 -3.573 2.156 -0.020 "H1'" HNF 21
HNF "H12'" "H12'" H 0 0 N N N N N N 135.816 0.649 1.213 -0.653 2.325 -0.902 "H12'" HNF 22
HNF "H22'" "H22'" H 0 0 N N N N N N 135.950 -0.549 -0.038 -0.657 2.327 0.886 "H22'" HNF 23
HNF "H3'" "H3'" H 0 1 N N N N N N 140.613 -1.133 2.339 0.522 -2.626 0.001 "H3'" HNF 24
HNF "HO3'" "HO3'" H 0 0 N N N N N N 141.724 0.469 0.799 2.945 -2.216 0.006 "HO3'" HNF 25
HNF H3 H3 H 0 1 N Y N N N N 137.890 1.681 -0.736 2.251 1.993 -0.003 H3 HNF 26
#
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
HNF O1 "H15'" SING N N 1
HNF C1 C2 SING Y N 2
HNF C1 O1 SING N N 3
HNF C2 "H25'" SING N N 4
HNF C3 C2 DOUB Y N 5
HNF C3 "H4'" SING N N 6
HNF C4 C3 SING Y N 7
HNF C5 C4 DOUB Y N 8
HNF C5 C6 SING Y N 9
HNF C6 C1 DOUB Y N 10
HNF C6 "H1'" SING N N 11
HNF C7 C10 SING Y N 12
HNF C7 C4 SING Y N 13
HNF C8 C9 SING N N 14
HNF C8 C7 DOUB Y N 15
HNF C9 C5 SING N N 16
HNF C9 "H12'" SING N N 17
HNF C9 "H22'" SING N N 18
HNF C10 "H3'" SING N N 19
HNF C11 C10 DOUB Y N 20
HNF C11 "HO3'" SING N N 21
HNF C12 C11 SING Y N 22
HNF C13 C12 DOUB Y N 23
HNF C13 C8 SING Y N 24
HNF C13 H3 SING N N 25
HNF N1 O2 SING N N 26
HNF N1 C12 SING N N 27
HNF O3 N1 DOUB N N 28
#
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
HNF SMILES_CANONICAL CACTVS 3.352 Oc1ccc2c(Cc3cc(ccc23)[N+]([O-])=O)c1
HNF SMILES CACTVS 3.352 Oc1ccc2c(Cc3cc(ccc23)[N+]([O-])=O)c1
HNF SMILES_CANONICAL "OpenEye OEToolkits" 1.6.1 c1cc-2c(cc1[N+](=O)[O-])Cc3c2ccc(c3)O
HNF SMILES "OpenEye OEToolkits" 1.6.1 c1cc-2c(cc1[N+](=O)[O-])Cc3c2ccc(c3)O
HNF InChI InChI 1.03 InChI=1S/C13H9NO3/c15-11-2-4-13-9(7-11)5-8-6-10(14(16)17)1-3-12(8)13/h1-4,6-7,15H,5H2
HNF InChIKey InChI 1.03 VFTOHJFKIJLYKN-UHFFFAOYSA-N
#
_pdbx_chem_comp_identifier.comp_id HNF
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 1.6.1
_pdbx_chem_comp_identifier.identifier 7-nitro-9H-fluoren-2-ol
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
HNF 'Create component' 2009-03-27 RCSB
HNF 'Modify aromatic_flag' 2011-06-04 RCSB
HNF 'Modify descriptor' 2011-06-04 RCSB
HNF 'Modify synonyms' 2021-03-01 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id HNF
_pdbx_chem_comp_synonyms.name 2-hydroxy-7-nitrofluorene
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id HNF
_pdbe_chem_comp_synonyms.name 2-hydroxy-7-nitrofluorene
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
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
HNF O1 O 3.625 0.344 1
HNF C1 C 5.091 0.027 2
HNF C2 C 5.574 -1.459 3
HNF C3 C 7.105 -1.772 4
HNF C4 C 8.132 -0.595 5
HNF C5 C 7.668 0.831 6
HNF C6 C 6.145 1.180 7
HNF C7 C 9.632 -0.595 8
HNF C8 C 10.096 0.831 9
HNF C9 C 8.882 1.713 10
HNF C10 C 10.659 -1.772 11
HNF C11 C 12.190 -1.459 12
HNF C12 C 12.673 0.027 13
HNF C13 C 11.619 1.180 14
HNF N1 N 14.139 0.344 15
HNF O2 O 15.147 -0.767 16
HNF O3 O 14.597 1.772 17
#
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
HNF C1 C2 DOUBLE NONE 1
HNF C1 O1 SINGLE NONE 2
HNF C3 C2 SINGLE NONE 3
HNF C4 C3 DOUBLE NONE 4
HNF C5 C4 SINGLE NONE 5
HNF C5 C6 DOUBLE NONE 6
HNF C6 C1 SINGLE NONE 7
HNF C7 C10 DOUBLE NONE 8
HNF C7 C4 SINGLE NONE 9
HNF C8 C9 SINGLE NONE 10
HNF C8 C7 SINGLE NONE 11
HNF C9 C5 SINGLE NONE 12
HNF C11 C10 SINGLE NONE 13
HNF C12 C11 DOUBLE NONE 14
HNF C13 C12 SINGLE NONE 15
HNF C13 C8 DOUBLE NONE 16
HNF N1 O2 SINGLE NONE 17
HNF N1 C12 SINGLE NONE 18
HNF O3 N1 DOUBLE NONE 19
#
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
HNF MurckoScaffold S1 scaffold c1ccc2c(c1)Cc1ccccc1-2 InChI=1S/C13H10/c1-3-7-12-10(5-1)9-11-6-2-4-8-13(11)12/h1-8H,9H2 NIHNNTQXNPWCJQ-UHFFFAOYSA-N
HNF 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
HNF C1 S1 1
HNF C2 S1 1
HNF C3 S1 1
HNF C4 S1 1
HNF C5 S1 1
HNF C6 S1 1
HNF C7 S1 1
HNF C8 S1 1
HNF C9 S1 1
HNF C10 S1 1
HNF C11 S1 1
HNF C12 S1 1
HNF C13 S1 1
HNF O1 F1 1
HNF C1 F1 1
HNF C2 F1 1
HNF C3 F1 1
HNF C4 F1 1
HNF C5 F1 1
HNF C6 F1 2
HNF C9 F1 2
HNF C10 F1 2
HNF C11 F1 2
HNF C12 F1 2
HNF C7 F1 2
#
_pdbe_chem_comp_rdkit_properties.comp_id HNF
_pdbe_chem_comp_rdkit_properties.exactmw 227.058
_pdbe_chem_comp_rdkit_properties.amw 227.219
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 17
_pdbe_chem_comp_rdkit_properties.NumAtoms 26
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.077
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_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 110.026
_pdbe_chem_comp_rdkit_properties.tpsa 63.370
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.539
_pdbe_chem_comp_rdkit_properties.CrippenMR 59.715
_pdbe_chem_comp_rdkit_properties.chi0v 8.172
_pdbe_chem_comp_rdkit_properties.chi1v 4.543
_pdbe_chem_comp_rdkit_properties.chi2v 2.271
_pdbe_chem_comp_rdkit_properties.chi3v 2.271
_pdbe_chem_comp_rdkit_properties.chi4v 1.564
_pdbe_chem_comp_rdkit_properties.chi0n 17.172
_pdbe_chem_comp_rdkit_properties.chi1n 8.951
_pdbe_chem_comp_rdkit_properties.chi2n 2.271
_pdbe_chem_comp_rdkit_properties.chi3n 2.271
_pdbe_chem_comp_rdkit_properties.chi4n 1.564
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.360
_pdbe_chem_comp_rdkit_properties.kappa1 4.143
_pdbe_chem_comp_rdkit_properties.kappa2 3.315
_pdbe_chem_comp_rdkit_properties.kappa3 1.455
_pdbe_chem_comp_rdkit_properties.Phi 0.808
#
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
HNF UniChem ZINC ZINC000001687565
HNF UniChem eMolecules 7381591
HNF UniChem HMDB HMDB0245147
HNF UniChem PubChem 23119
HNF UniChem ACTor 6633-40-5
HNF UniChem 'EPA CompTox Dashboard' DTXSID2074871
#
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
HNF "H15'" -5.430 0.940 -0.495 ETKDGv3 1
HNF O1 -5.020 0.048 -0.746 ETKDGv3 2
HNF C1 -3.648 -0.166 -0.649 ETKDGv3 3
HNF C2 -3.134 -1.367 -0.991 ETKDGv3 4
HNF C3 -1.673 -1.617 -0.895 ETKDGv3 5
HNF C4 -0.895 -0.621 -0.462 ETKDGv3 6
HNF C5 -1.439 0.681 -0.089 ETKDGv3 7
HNF C6 -2.751 0.923 -0.169 ETKDGv3 8
HNF C7 0.538 -0.567 -0.267 ETKDGv3 9
HNF C8 0.866 0.765 0.224 ETKDGv3 10
HNF C9 -0.360 1.625 0.364 ETKDGv3 11
HNF C10 1.473 -1.498 -0.466 ETKDGv3 12
HNF C11 2.884 -1.144 -0.172 ETKDGv3 13
HNF C12 3.210 0.090 0.286 ETKDGv3 14
HNF C13 2.130 1.103 0.495 ETKDGv3 15
HNF N1 4.579 0.428 0.570 ETKDGv3 16
HNF O2 5.586 -0.492 0.383 ETKDGv3 17
HNF O3 4.874 1.565 0.991 ETKDGv3 18
HNF "H25'" -3.785 -2.158 -1.340 ETKDGv3 19
HNF "H4'" -1.258 -2.578 -1.169 ETKDGv3 20
HNF "H1'" -3.152 1.889 0.108 ETKDGv3 21
HNF "H12'" -0.515 1.923 1.423 ETKDGv3 22
HNF "H22'" -0.301 2.509 -0.307 ETKDGv3 23
HNF "H3'" 1.216 -2.484 -0.832 ETKDGv3 24
HNF "HO3'" 3.645 -1.896 -0.333 ETKDGv3 25
HNF H3 2.359 2.097 0.860 ETKDGv3 26
#