data_APF
#
_chem_comp.id APF
_chem_comp.name '1,1,1-TRIFLUORO-3-ACETAMIDO-4-PHENYL BUTAN-2-ONE(N-ACETYL-L-PHENYLALANYL TRIFLUOROMETHYL KETONE)'
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C12 H12 F3 N O2'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2024-09-27
_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 259.224
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code APF
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1GG6
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
_chem_comp.pdbx_pcm Y
#
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
APF CN2 CN2 C 0 1 N N N N N N 31.300 2.538 38.057 3.763 -0.061 0.721 CN2 APF 1
APF CN1 CN1 C 0 1 N N N N N N 29.932 1.893 38.249 2.414 -0.406 0.146 CN1 APF 2
APF ON1 ON1 O 0 1 N N N N N N 29.837 0.790 38.779 2.238 -1.480 -0.388 ON1 APF 3
APF N3 N3 N 0 1 N N N N N N 28.878 2.578 37.819 1.401 0.480 0.224 N3 APF 4
APF C3 C3 C 0 1 N N S N N N 27.540 1.997 37.760 0.089 0.145 -0.334 C3 APF 5
APF C2 C2 C 0 1 N N N N N N 27.191 1.592 36.309 0.030 0.587 -1.774 C2 APF 6
APF C1 C1 C 0 1 N N N N N N 27.959 0.317 35.823 -0.828 -0.164 -2.758 C1 APF 7
APF C4 C4 C 0 1 N N N N N N 26.507 3.016 38.256 -1.002 0.859 0.463 C4 APF 8
APF O2 O2 O 0 1 N N N N N N 25.839 1.225 36.217 0.671 1.544 -2.139 O2 APF 9
APF F11 F11 F 0 1 N N N N N N 29.270 0.553 35.688 -0.720 0.430 -4.020 F11 APF 10
APF F12 F12 F 0 1 N N N N N N 27.521 -0.131 34.641 -0.400 -1.493 -2.830 F12 APF 11
APF F13 F13 F 0 1 N N N N N N 27.821 -0.706 36.678 -2.162 -0.125 -2.337 F13 APF 12
APF CP1 CP1 C 0 1 Y N N N N N 26.641 3.377 39.710 -0.943 0.417 1.903 CP1 APF 13
APF CP2 CP2 C 0 1 Y N N N N N 26.377 4.676 40.137 -0.155 1.107 2.805 CP2 APF 14
APF CP3 CP3 C 0 1 Y N N N N N 26.463 5.015 41.481 -0.100 0.701 4.126 CP3 APF 15
APF CP4 CP4 C 0 1 Y N N N N N 26.825 4.048 42.419 -0.834 -0.393 4.543 CP4 APF 16
APF CP5 CP5 C 0 1 Y N N N N N 27.094 2.749 42.005 -1.622 -1.081 3.641 CP5 APF 17
APF CP6 CP6 C 0 1 Y N N N N N 27.003 2.421 40.654 -1.680 -0.673 2.321 CP6 APF 18
APF HC21 1HC2 H 0 0 N N N N N N 31.386 3.540 37.575 3.664 0.130 1.790 HC21 APF 19
APF HC22 2HC2 H 0 0 N N N N N N 31.810 2.579 39.047 4.448 -0.894 0.564 HC22 APF 20
APF HC23 3HC2 H 0 0 N N N N N N 31.949 1.823 37.499 4.153 0.827 0.227 HC23 APF 21
APF HN3 HN3 H 0 1 N N N N N N 29.092 3.534 37.538 1.541 1.339 0.652 HN3 APF 22
APF H3 H3 H 0 1 N N N N N N 27.520 1.091 38.409 -0.064 -0.931 -0.279 H3 APF 23
APF H41 1H4 H 0 1 N N N N N N 26.530 3.933 37.623 -0.847 1.937 0.407 H41 APF 24
APF H42 2H4 H 0 1 N N N N N N 25.473 2.660 38.036 -1.978 0.610 0.047 H42 APF 25
APF HP2 HP2 H 0 1 N N N N N N 26.095 5.447 39.400 0.417 1.962 2.479 HP2 APF 26
APF HP3 HP3 H 0 1 N N N N N N 26.244 6.047 41.802 0.515 1.239 4.831 HP3 APF 27
APF HP4 HP4 H 0 1 N N N N N N 26.898 4.310 43.487 -0.791 -0.710 5.575 HP4 APF 28
APF HP5 HP5 H 0 1 N N N N N N 27.378 1.982 42.745 -2.195 -1.937 3.967 HP5 APF 29
APF HP6 HP6 H 0 1 N N N N N N 27.220 1.390 40.327 -2.296 -1.211 1.616 HP6 APF 30
#
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
APF CN2 CN1 SING N N 1
APF CN2 HC21 SING N N 2
APF CN2 HC22 SING N N 3
APF CN2 HC23 SING N N 4
APF CN1 ON1 DOUB N N 5
APF CN1 N3 SING N N 6
APF N3 C3 SING N N 7
APF N3 HN3 SING N N 8
APF C3 C2 SING N N 9
APF C3 C4 SING N N 10
APF C3 H3 SING N N 11
APF C2 C1 SING N N 12
APF C2 O2 DOUB N N 13
APF C1 F11 SING N N 14
APF C1 F12 SING N N 15
APF C1 F13 SING N N 16
APF C4 CP1 SING N N 17
APF C4 H41 SING N N 18
APF C4 H42 SING N N 19
APF CP1 CP2 DOUB Y N 20
APF CP1 CP6 SING Y N 21
APF CP2 CP3 SING Y N 22
APF CP2 HP2 SING N N 23
APF CP3 CP4 DOUB Y N 24
APF CP3 HP3 SING N N 25
APF CP4 CP5 SING Y N 26
APF CP4 HP4 SING N N 27
APF CP5 CP6 DOUB Y N 28
APF CP5 HP5 SING N N 29
APF CP6 HP6 SING N N 30
#
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
APF SMILES ACDLabs 10.04 'FC(F)(F)C(=O)C(NC(=O)C)Cc1ccccc1'
APF SMILES_CANONICAL CACTVS 3.341 'CC(=O)N[C@@H](Cc1ccccc1)C(=O)C(F)(F)F'
APF SMILES CACTVS 3.341 'CC(=O)N[CH](Cc1ccccc1)C(=O)C(F)(F)F'
APF SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'CC(=O)N[C@@H](Cc1ccccc1)C(=O)C(F)(F)F'
APF SMILES 'OpenEye OEToolkits' 1.5.0 'CC(=O)NC(Cc1ccccc1)C(=O)C(F)(F)F'
APF InChI InChI 1.03 'InChI=1S/C12H12F3NO2/c1-8(17)16-10(11(18)12(13,14)15)7-9-5-3-2-4-6-9/h2-6,10H,7H2,1H3,(H,16,17)/t10-/m0/s1'
APF InChIKey InChI 1.03 JTIIYPHJIDENCW-JTQLQIEISA-N
#
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
APF 'SYSTEMATIC NAME' ACDLabs 10.04 'N-[(1S)-1-benzyl-3,3,3-trifluoro-2-oxopropyl]acetamide'
APF 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 'N-[(2S)-4,4,4-trifluoro-3-oxo-1-phenyl-butan-2-yl]ethanamide'
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
APF 'Create component' 1999-07-08 EBI
APF 'Modify descriptor' 2011-06-04 RCSB
APF 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id APF
_pdbx_chem_comp_pcm.modified_residue_id SER
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category 'Covalent chemical modification'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain'
_pdbx_chem_comp_pcm.polypeptide_position 'Any position'
_pdbx_chem_comp_pcm.comp_id_linking_atom C2
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom OG
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ?
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ?
#
_pdbe_chem_comp_drugbank_details.comp_id APF
_pdbe_chem_comp_drugbank_details.drugbank_id DB07380
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name
'1,1,1-TRIFLUORO-3-ACETAMIDO-4-PHENYL BUTAN-2-ONE(N-ACETYL-L-PHENYLALANYL TRIFLUOROMETHYL KETONE)'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id APF
_pdbe_chem_comp_synonyms.name
'1,1,1-TRIFLUORO-3-ACETAMIDO-4-PHENYL BUTAN-2-ONE(N-ACETYL-L-PHENYLALANYL TRIFLUOROMETHYL KETONE)'
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id APF
_pdbe_chem_comp_drugbank_classification.drugbank_id DB07380
_pdbe_chem_comp_drugbank_classification.parent 'Amphetamines and derivatives'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Benzene and substituted derivatives'
_pdbe_chem_comp_drugbank_classification.superclass Benzenoids
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as amphetamines and derivatives. These are organic compounds containing or derived from 1-phenylpropan-2-amine.'
#
_pdbe_chem_comp_drugbank_targets.comp_id APF
_pdbe_chem_comp_drugbank_targets.drugbank_id DB07380
_pdbe_chem_comp_drugbank_targets.name 'Chymotrypsinogen B'
_pdbe_chem_comp_drugbank_targets.organism Humans
_pdbe_chem_comp_drugbank_targets.uniprot_id P17538
_pdbe_chem_comp_drugbank_targets.pharmacologically_active unknown
_pdbe_chem_comp_drugbank_targets.ordinal 1
#
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
APF CN2 C 8.196 2.350 1
APF CN1 C 8.196 0.851 2
APF ON1 O 9.495 0.101 3
APF N3 N 6.897 0.101 4
APF C3 C 5.598 0.851 5
APF C2 C 5.598 2.350 6
APF C1 C 4.299 3.100 7
APF C4 C 4.299 0.101 8
APF O2 O 6.897 3.100 9
APF F11 F 3.000 3.850 10
APF F12 F 5.049 4.399 11
APF F13 F 3.549 1.802 12
APF CP1 C 4.299 -1.399 13
APF CP2 C 3.000 -2.150 14
APF CP3 C 3.000 -3.650 15
APF CP4 C 4.299 -4.399 16
APF CP5 C 5.598 -3.650 17
APF CP6 C 5.598 -2.150 18
#
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
APF CN2 CN1 SINGLE NONE 1
APF CN1 ON1 DOUBLE NONE 2
APF CN1 N3 SINGLE NONE 3
APF N3 C3 SINGLE NONE 4
APF C3 C2 SINGLE NONE 5
APF C3 C4 SINGLE BEGINWEDGE 6
APF C2 C1 SINGLE NONE 7
APF C2 O2 DOUBLE NONE 8
APF C1 F11 SINGLE NONE 9
APF C1 F12 SINGLE NONE 10
APF C1 F13 SINGLE NONE 11
APF C4 CP1 SINGLE NONE 12
APF CP1 CP2 DOUBLE NONE 13
APF CP1 CP6 SINGLE NONE 14
APF CP2 CP3 SINGLE NONE 15
APF CP3 CP4 DOUBLE NONE 16
APF CP4 CP5 SINGLE NONE 17
APF CP5 CP6 DOUBLE NONE 18
#
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
APF MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
APF amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
APF peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
APF 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
APF CP1 S1 1
APF CP2 S1 1
APF CP3 S1 1
APF CP4 S1 1
APF CP5 S1 1
APF CP6 S1 1
APF N3 F1 1
APF CN1 F1 1
APF ON1 F1 1
APF CN2 F1 1
APF O2 F2 1
APF C2 F2 1
APF C3 F2 1
APF N3 F2 1
APF CP1 F3 1
APF CP2 F3 1
APF CP3 F3 1
APF CP4 F3 1
APF CP5 F3 1
APF CP6 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id APF
_pdbe_chem_comp_rdkit_properties.exactmw 259.082
_pdbe_chem_comp_rdkit_properties.amw 259.227
_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 18
_pdbe_chem_comp_rdkit_properties.NumAtoms 30
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.333
_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 118.908
_pdbe_chem_comp_rdkit_properties.tpsa 46.170
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.810
_pdbe_chem_comp_rdkit_properties.CrippenMR 58.547
_pdbe_chem_comp_rdkit_properties.chi0v 8.398
_pdbe_chem_comp_rdkit_properties.chi1v 4.172
_pdbe_chem_comp_rdkit_properties.chi2v 1.429
_pdbe_chem_comp_rdkit_properties.chi3v 1.429
_pdbe_chem_comp_rdkit_properties.chi4v 0.802
_pdbe_chem_comp_rdkit_properties.chi0n 20.398
_pdbe_chem_comp_rdkit_properties.chi1n 10.120
_pdbe_chem_comp_rdkit_properties.chi2n 1.429
_pdbe_chem_comp_rdkit_properties.chi3n 1.429
_pdbe_chem_comp_rdkit_properties.chi4n 0.802
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.850
_pdbe_chem_comp_rdkit_properties.kappa1 4.678
_pdbe_chem_comp_rdkit_properties.kappa2 5.660
_pdbe_chem_comp_rdkit_properties.kappa3 4.195
_pdbe_chem_comp_rdkit_properties.Phi 1.471
#
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
APF UniChem DrugBank DB07380
APF UniChem PubChem 124969
APF UniChem ACTor 128656-63-3
APF UniChem 'Probes And Drugs' PD005841
APF UniChem Nikkaji J1.568.381C
#
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
APF CN2 4.429 -1.341 -0.527 ETKDGv3 1
APF CN1 3.010 -1.065 -0.901 ETKDGv3 2
APF ON1 2.651 -1.163 -2.105 ETKDGv3 3
APF N3 2.060 -0.709 0.114 ETKDGv3 4
APF C3 0.659 -0.408 -0.199 ETKDGv3 5
APF C2 0.559 0.892 -0.974 ETKDGv3 6
APF C1 1.221 2.168 -0.518 ETKDGv3 7
APF C4 -0.187 -0.365 1.090 ETKDGv3 8
APF O2 -0.099 0.913 -2.003 ETKDGv3 9
APF F11 2.138 2.570 -1.471 ETKDGv3 10
APF F12 0.264 3.155 -0.371 ETKDGv3 11
APF F13 1.878 2.003 0.688 ETKDGv3 12
APF CP1 -1.657 -0.204 0.793 ETKDGv3 13
APF CP2 -2.396 -1.257 0.398 ETKDGv3 14
APF CP3 -3.828 -1.083 0.076 ETKDGv3 15
APF CP4 -4.394 0.127 0.168 ETKDGv3 16
APF CP5 -3.588 1.289 0.593 ETKDGv3 17
APF CP6 -2.292 1.135 0.889 ETKDGv3 18
APF HC21 5.054 -1.474 -1.436 ETKDGv3 19
APF HC22 4.478 -2.265 0.085 ETKDGv3 20
APF HC23 4.832 -0.490 0.062 ETKDGv3 21
APF HN3 2.387 -0.678 1.107 ETKDGv3 22
APF H3 0.264 -1.238 -0.829 ETKDGv3 23
APF H41 -0.034 -1.310 1.657 ETKDGv3 24
APF H42 0.157 0.459 1.751 ETKDGv3 25
APF HP2 -1.951 -2.240 0.306 ETKDGv3 26
APF HP3 -4.416 -1.935 -0.237 ETKDGv3 27
APF HP4 -5.442 0.256 -0.070 ETKDGv3 28
APF HP5 -4.049 2.266 0.664 ETKDGv3 29
APF HP6 -1.708 1.992 1.200 ETKDGv3 30
#