data_7L7
#
_chem_comp.id 7L7
_chem_comp.name "methyl (2~{Z})-2-cyano-2-[3-(2-fluorophenyl)-4-oxidanylidene-1,3-thiazolidin-2-ylidene]ethanoate"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C13 H9 F N2 O3 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2016-11-18
_chem_comp.pdbx_modified_date 2017-07-21
_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 292.286
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 7L7
_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 5H73
_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
7L7 C1 C1 C 0 1 N N N N N N -33.489 -5.588 3.888 -1.257 0.508 0.082 C1 7L7 1
7L7 C2 C2 C 0 1 N N N N N N -34.103 -4.928 5.037 -2.667 0.634 0.012 C2 7L7 2
7L7 C3 C3 C 0 1 N N N N N N -34.090 -6.669 3.552 -0.435 1.680 0.132 C3 7L7 3
7L7 N4 N1 N 0 1 N N N N N N -34.657 -7.657 3.254 0.217 2.609 0.173 N4 7L7 4
7L7 O5 O1 O 0 1 N N N N N N -33.568 -3.962 5.576 -3.366 -0.361 -0.031 O5 7L7 5
7L7 O6 O2 O 0 1 N N N N N N -35.301 -5.495 5.597 -3.235 1.858 -0.007 O6 7L7 6
7L7 C7 C4 C 0 1 N N N N N N -35.923 -4.883 6.757 -4.661 1.911 -0.078 C7 7L7 7
7L7 C8 C5 C 0 1 N N N N N N -32.426 -4.982 3.305 -0.670 -0.759 0.106 C8 7L7 8
7L7 N9 N2 N 0 1 N N N N N N -31.710 -5.531 2.294 0.664 -1.014 0.177 N9 7L7 9
7L7 C10 C6 C 0 1 N N N N N N -30.653 -4.789 1.829 1.106 -2.262 0.200 C10 7L7 10
7L7 C11 C7 C 0 1 N N N N N N -30.581 -3.380 2.426 -0.007 -3.284 0.139 C11 7L7 11
7L7 S12 S1 S 0 1 N N N N N N -31.706 -3.465 3.783 -1.512 -2.258 0.060 S12 7L7 12
7L7 C13 C8 C 0 1 Y N N N N N -31.876 -6.815 1.678 1.576 0.050 0.227 C13 7L7 13
7L7 C14 C9 C 0 1 Y N N N N N -32.337 -6.891 0.343 1.969 0.573 1.451 C14 7L7 14
7L7 C15 C10 C 0 1 Y N N N N N -32.432 -8.180 -0.192 2.868 1.621 1.496 C15 7L7 15
7L7 C16 C11 C 0 1 Y N N N N N -32.040 -9.341 0.550 3.376 2.150 0.324 C16 7L7 16
7L7 C17 C12 C 0 1 Y N N N N N -31.630 -9.256 1.843 2.988 1.632 -0.898 C17 7L7 17
7L7 C18 C13 C 0 1 Y N N N N N -31.497 -7.956 2.399 2.093 0.579 -0.950 C18 7L7 18
7L7 F19 F1 F 0 1 N N N N N N -31.039 -7.774 3.642 1.718 0.069 -2.144 F19 7L7 19
7L7 O20 O3 O 0 1 N N N N N N -29.832 -5.146 0.966 2.281 -2.555 0.262 O20 7L7 20
7L7 H1 H1 H 0 1 N N N N N N -36.821 -5.454 7.036 -5.087 1.403 0.788 H1 7L7 21
7L7 H2 H2 H 0 1 N N N N N N -35.212 -4.883 7.597 -4.987 2.951 -0.085 H2 7L7 22
7L7 H3 H3 H 0 1 N N N N N N -36.207 -3.848 6.517 -4.998 1.418 -0.990 H3 7L7 23
7L7 H4 H4 H 0 1 N N N N N N -29.562 -3.148 2.771 0.085 -3.901 -0.754 H4 7L7 24
7L7 H5 H5 H 0 1 N N N N N N -30.901 -2.624 1.694 -0.010 -3.902 1.037 H5 7L7 25
7L7 H6 H6 H 0 1 N N N N N N -32.599 -6.011 -0.226 1.572 0.161 2.367 H6 7L7 26
7L7 H7 H7 H 0 1 N N N N N N -32.813 -8.304 -1.195 3.173 2.029 2.449 H7 7L7 27
7L7 H8 H8 H 0 1 N N N N N N -32.071 -10.308 0.070 4.079 2.970 0.363 H8 7L7 28
7L7 H9 H9 H 0 1 N N N N N N -31.414 -10.141 2.424 3.388 2.048 -1.811 H9 7L7 29
#
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
7L7 C15 C14 DOUB Y N 1
7L7 C15 C16 SING Y N 2
7L7 C14 C13 SING Y N 3
7L7 C16 C17 DOUB Y N 4
7L7 O20 C10 DOUB N N 5
7L7 C13 N9 SING N N 6
7L7 C13 C18 DOUB Y N 7
7L7 C10 N9 SING N N 8
7L7 C10 C11 SING N N 9
7L7 C17 C18 SING Y N 10
7L7 N9 C8 SING N N 11
7L7 C18 F19 SING N N 12
7L7 C11 S12 SING N N 13
7L7 N4 C3 TRIP N N 14
7L7 C8 S12 SING N N 15
7L7 C8 C1 DOUB N Z 16
7L7 C3 C1 SING N N 17
7L7 C1 C2 SING N N 18
7L7 C2 O5 DOUB N N 19
7L7 C2 O6 SING N N 20
7L7 O6 C7 SING N N 21
7L7 C7 H1 SING N N 22
7L7 C7 H2 SING N N 23
7L7 C7 H3 SING N N 24
7L7 C11 H4 SING N N 25
7L7 C11 H5 SING N N 26
7L7 C14 H6 SING N N 27
7L7 C15 H7 SING N N 28
7L7 C16 H8 SING N N 29
7L7 C17 H9 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
7L7 InChI InChI 1.03 InChI=1S/C13H9FN2O3S/c1-19-13(18)8(6-15)12-16(11(17)7-20-12)10-5-3-2-4-9(10)14/h2-5H,7H2,1H3/b12-8-
7L7 InChIKey InChI 1.03 HTTRHNVVYSAQQD-WQLSENKSSA-N
7L7 SMILES_CANONICAL CACTVS 3.385 "COC(=O)/C(C#N)=C/1SCC(=O)N/1c2ccccc2F"
7L7 SMILES CACTVS 3.385 "COC(=O)C(C#N)=C1SCC(=O)N1c2ccccc2F"
7L7 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "COC(=O)/C(=C\1/N(C(=O)CS1)c2ccccc2F)/C#N"
7L7 SMILES "OpenEye OEToolkits" 2.0.6 "COC(=O)C(=C1N(C(=O)CS1)c2ccccc2F)C#N"
#
_pdbx_chem_comp_identifier.comp_id 7L7
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.6
_pdbx_chem_comp_identifier.identifier
"methyl (2~{Z})-2-cyano-2-[3-(2-fluorophenyl)-4-oxidanylidene-1,3-thiazolidin-2-ylidene]ethanoate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
7L7 'Create component' 2016-11-18 RCSB
7L7 'Initial release' 2017-07-26 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
7L7 C1 C 8.280 1.224 1
7L7 C2 C 9.395 2.227 2
7L7 C3 C 8.592 -0.244 3
7L7 N4 N 8.904 -1.711 4
7L7 O5 O 9.083 3.695 5
7L7 O6 O 10.822 1.764 6
7L7 C7 C 11.936 2.768 7
7L7 C8 C 6.854 1.687 8
7L7 N9 N 5.640 0.805 9
7L7 C10 C 4.427 1.687 10
7L7 C11 C 4.890 3.114 11
7L7 S12 S 6.390 3.114 12
7L7 C13 C 5.640 -0.695 13
7L7 C14 C 6.939 -1.444 14
7L7 C15 C 6.939 -2.945 15
7L7 C16 C 5.640 -3.695 16
7L7 C17 C 4.341 -2.945 17
7L7 C18 C 4.341 -1.444 18
7L7 F19 F 3.042 -0.695 19
7L7 O20 O 3.000 1.224 20
#
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
7L7 C15 C14 DOUBLE NONE 1
7L7 C15 C16 SINGLE NONE 2
7L7 C14 C13 SINGLE NONE 3
7L7 C16 C17 DOUBLE NONE 4
7L7 O20 C10 DOUBLE NONE 5
7L7 C13 N9 SINGLE NONE 6
7L7 C13 C18 DOUBLE NONE 7
7L7 C10 N9 SINGLE NONE 8
7L7 C10 C11 SINGLE NONE 9
7L7 C17 C18 SINGLE NONE 10
7L7 N9 C8 SINGLE ENDUPRIGHT 11
7L7 C18 F19 SINGLE NONE 12
7L7 C11 S12 SINGLE NONE 13
7L7 N4 C3 TRIPLE NONE 14
7L7 C8 S12 SINGLE ENDUPRIGHT 15
7L7 C8 C1 DOUBLE NONE 16
7L7 C3 C1 SINGLE ENDUPRIGHT 17
7L7 C1 C2 SINGLE ENDUPRIGHT 18
7L7 C2 O5 DOUBLE NONE 19
7L7 C2 O6 SINGLE NONE 20
7L7 O6 C7 SINGLE NONE 21
#
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
7L7 MurckoScaffold S1 scaffold C=C1SCC(=O)N1c1ccccc1 InChI=1S/C10H9NOS/c1-8-11(10(12)7-13-8)9-5-3-2-4-6-9/h2-6H,1,7H2 FWCRGFMMYZLHOD-UHFFFAOYSA-N
7L7 amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
7L7 phenyl F2 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
7L7 C1 S1 1
7L7 C8 S1 1
7L7 N9 S1 1
7L7 C10 S1 1
7L7 C11 S1 1
7L7 S12 S1 1
7L7 C13 S1 1
7L7 C14 S1 1
7L7 C15 S1 1
7L7 C16 S1 1
7L7 C17 S1 1
7L7 C18 S1 1
7L7 O20 S1 1
7L7 N9 F1 1
7L7 C10 F1 1
7L7 O20 F1 1
7L7 C11 F1 1
7L7 C13 F2 1
7L7 C14 F2 1
7L7 C15 F2 1
7L7 C16 F2 1
7L7 C17 F2 1
7L7 C18 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 7L7
_pdbe_chem_comp_rdkit_properties.exactmw 292.032
_pdbe_chem_comp_rdkit_properties.amw 292.291
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_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 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 20
_pdbe_chem_comp_rdkit_properties.NumAtoms 29
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.154
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 1
_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 130.813
_pdbe_chem_comp_rdkit_properties.tpsa 70.400
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.433
_pdbe_chem_comp_rdkit_properties.CrippenMR 70.175
_pdbe_chem_comp_rdkit_properties.chi0v 10.222
_pdbe_chem_comp_rdkit_properties.chi1v 5.625
_pdbe_chem_comp_rdkit_properties.chi2v 2.968
_pdbe_chem_comp_rdkit_properties.chi3v 2.968
_pdbe_chem_comp_rdkit_properties.chi4v 2.090
_pdbe_chem_comp_rdkit_properties.chi0n 18.405
_pdbe_chem_comp_rdkit_properties.chi1n 9.308
_pdbe_chem_comp_rdkit_properties.chi2n 2.111
_pdbe_chem_comp_rdkit_properties.chi3n 2.111
_pdbe_chem_comp_rdkit_properties.chi4n 1.318
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.330
_pdbe_chem_comp_rdkit_properties.kappa1 6.413
_pdbe_chem_comp_rdkit_properties.kappa2 5.755
_pdbe_chem_comp_rdkit_properties.kappa3 2.377
_pdbe_chem_comp_rdkit_properties.Phi 1.845
#
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
7L7 UniChem ChEMBL CHEMBL4290037
7L7 UniChem PDBe 7L7
7L7 UniChem PubChem 129012054
#
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
7L7 C1 0.398 -1.100 0.904 ETKDGv3 1
7L7 C2 1.379 -2.043 1.490 ETKDGv3 2
7L7 C3 -0.486 -0.422 1.825 ETKDGv3 3
7L7 N4 -1.193 0.119 2.565 ETKDGv3 4
7L7 O5 1.166 -2.532 2.634 ETKDGv3 5
7L7 O6 2.562 -2.353 0.809 ETKDGv3 6
7L7 C7 3.540 -3.243 1.334 ETKDGv3 7
7L7 C8 0.290 -0.896 -0.432 ETKDGv3 8
7L7 N9 -0.660 0.004 -1.015 ETKDGv3 9
7L7 C10 -1.020 -0.438 -2.318 ETKDGv3 10
7L7 C11 -0.372 -1.696 -2.779 ETKDGv3 11
7L7 S12 1.029 -2.001 -1.646 ETKDGv3 12
7L7 C13 -0.974 1.323 -0.531 ETKDGv3 13
7L7 C14 -2.390 1.765 -0.473 ETKDGv3 14
7L7 C15 -2.699 2.986 -0.022 ETKDGv3 15
7L7 C16 -1.630 3.905 0.417 ETKDGv3 16
7L7 C17 -0.351 3.518 0.364 ETKDGv3 17
7L7 C18 -0.003 2.169 -0.133 ETKDGv3 18
7L7 F19 1.304 1.811 -0.203 ETKDGv3 19
7L7 O20 -1.835 0.195 -3.042 ETKDGv3 20
7L7 H1 3.094 -4.248 1.491 ETKDGv3 21
7L7 H2 3.932 -2.852 2.297 ETKDGv3 22
7L7 H3 4.378 -3.330 0.613 ETKDGv3 23
7L7 H4 0.002 -1.584 -3.818 ETKDGv3 24
7L7 H5 -1.095 -2.536 -2.719 ETKDGv3 25
7L7 H6 -3.179 1.092 -0.783 ETKDGv3 26
7L7 H7 -3.733 3.303 0.024 ETKDGv3 27
7L7 H8 -1.885 4.892 0.781 ETKDGv3 28
7L7 H9 0.433 4.192 0.684 ETKDGv3 29
#