data_J4J
#
_chem_comp.id J4J
_chem_comp.name 2-[(2-nitrophenyl)sulfanyl]acetohydrazide
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H9 N3 O3 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2018-08-09
_chem_comp.pdbx_modified_date 2019-08-16
_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 227.240
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code J4J
_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 6ED7
_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
J4J O30 O1 O 0 1 N N N N N N 29.297 -32.374 40.638 -3.515 -2.059 0.003 O30 J4J 1
J4J N28 N1 N 1 1 N N N N N N 29.051 -32.150 41.815 -2.409 -1.548 -0.000 N28 J4J 2
J4J O29 O2 O -1 1 N N N N N N 28.347 -33.100 42.563 -1.414 -2.250 -0.006 O29 J4J 3
J4J C27 C1 C 0 1 Y N N N N N 29.535 -30.965 42.406 -2.275 -0.074 -0.003 C27 J4J 4
J4J C26 C2 C 0 1 Y N N N N N 30.766 -31.079 43.041 -3.403 0.723 -0.002 C26 J4J 5
J4J C25 C3 C 0 1 Y N N N N N 31.369 -30.002 43.665 -3.278 2.100 -0.003 C25 J4J 6
J4J C24 C4 C 0 1 Y N N N N N 30.776 -28.768 43.645 -2.025 2.685 -0.006 C24 J4J 7
J4J C23 C5 C 0 1 Y N N N N N 29.541 -28.642 43.014 -0.893 1.895 -0.007 C23 J4J 8
J4J C22 C6 C 0 1 Y N N N N N 28.903 -29.713 42.392 -1.014 0.510 -0.000 C22 J4J 9
J4J S21 S1 S 0 1 N N N N N N 27.392 -29.375 41.667 0.428 -0.503 0.005 S21 J4J 10
J4J C20 C7 C 0 1 N N N N N N 26.380 -28.353 42.707 1.778 0.709 0.007 C20 J4J 11
J4J C18 C8 C 0 1 N N N N N N 24.946 -28.285 42.203 3.101 -0.012 0.012 C18 J4J 12
J4J O19 O3 O 0 1 N N N N N N 24.612 -28.853 41.163 3.130 -1.225 0.014 O19 J4J 13
J4J N17 N2 N 0 1 N N N N N N 24.071 -27.589 42.940 4.251 0.690 0.014 N17 J4J 14
J4J N16 N3 N 0 1 N N N N N N 22.816 -27.497 42.534 5.451 0.036 0.018 N16 J4J 15
J4J H1 H1 H 0 1 N N N N N N 31.266 -32.036 43.047 -4.383 0.270 0.000 H1 J4J 16
J4J H2 H2 H 0 1 N N N N N N 32.314 -30.135 44.171 -4.162 2.721 -0.003 H2 J4J 17
J4J H3 H3 H 0 1 N N N N N N 31.253 -27.916 44.106 -1.931 3.761 -0.007 H3 J4J 18
J4J H4 H4 H 0 1 N N N N N N 29.059 -27.676 43.007 0.086 2.352 -0.010 H4 J4J 19
J4J H5 H5 H 0 1 N N N N N N 26.381 -28.769 43.725 1.707 1.333 -0.884 H5 J4J 20
J4J H6 H6 H 0 1 N N N N N N 26.800 -27.337 42.726 1.702 1.336 0.896 H6 J4J 21
J4J H7 H7 H 0 1 N N N N N N 24.363 -27.144 43.787 4.228 1.660 0.012 H7 J4J 22
J4J H8 H8 H 0 1 N N N N N N 22.293 -26.949 43.187 5.518 -0.600 -0.762 H8 J4J 23
J4J H9 H9 H 0 1 N N N N N N 22.788 -27.060 41.635 6.219 0.690 0.019 H9 J4J 24
#
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
J4J O30 N28 DOUB N N 1
J4J O19 C18 DOUB N N 2
J4J S21 C22 SING N N 3
J4J S21 C20 SING N N 4
J4J N28 C27 SING N N 5
J4J N28 O29 SING N N 6
J4J C18 C20 SING N N 7
J4J C18 N17 SING N N 8
J4J C22 C27 DOUB Y N 9
J4J C22 C23 SING Y N 10
J4J C27 C26 SING Y N 11
J4J N16 N17 SING N N 12
J4J C23 C24 DOUB Y N 13
J4J C26 C25 DOUB Y N 14
J4J C24 C25 SING Y N 15
J4J C26 H1 SING N N 16
J4J C25 H2 SING N N 17
J4J C24 H3 SING N N 18
J4J C23 H4 SING N N 19
J4J C20 H5 SING N N 20
J4J C20 H6 SING N N 21
J4J N17 H7 SING N N 22
J4J N16 H8 SING N N 23
J4J N16 H9 SING N N 24
#
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
J4J SMILES ACDLabs 12.01 O=[N+](c1ccccc1SCC(NN)=O)[O-]
J4J InChI InChI 1.03 InChI=1S/C8H9N3O3S/c9-10-8(12)5-15-7-4-2-1-3-6(7)11(13)14/h1-4H,5,9H2,(H,10,12)
J4J InChIKey InChI 1.03 CZXFCCXLFQCYBK-UHFFFAOYSA-N
J4J SMILES_CANONICAL CACTVS 3.385 NNC(=O)CSc1ccccc1[N+]([O-])=O
J4J SMILES CACTVS 3.385 NNC(=O)CSc1ccccc1[N+]([O-])=O
J4J SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 c1ccc(c(c1)[N+](=O)[O-])SCC(=O)NN
J4J SMILES "OpenEye OEToolkits" 2.0.6 c1ccc(c(c1)[N+](=O)[O-])SCC(=O)NN
#
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
J4J "SYSTEMATIC NAME" ACDLabs 12.01 2-[(2-nitrophenyl)sulfanyl]acetohydrazide
J4J "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 2-(2-nitrophenyl)sulfanylethanehydrazide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
J4J 'Create component' 2018-08-09 RCSB
J4J 'Other modification' 2018-08-09 RCSB
J4J 'Initial release' 2019-08-21 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
J4J O30 O 12.899 2.625 1
J4J N28 N 11.600 1.875 2
J4J O29 O 10.301 2.625 3
J4J C27 C 11.600 0.375 4
J4J C26 C 12.899 -0.375 5
J4J C25 C 12.899 -1.875 6
J4J C24 C 11.600 -2.625 7
J4J C23 C 10.301 -1.875 8
J4J C22 C 10.301 -0.375 9
J4J S21 S 9.002 0.375 10
J4J C20 C 7.702 -0.375 11
J4J C18 C 6.404 0.375 12
J4J O19 O 6.404 1.875 13
J4J N17 N 5.104 -0.375 14
J4J N16 N 3.805 0.375 15
#
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
J4J O30 N28 DOUBLE NONE 1
J4J O19 C18 DOUBLE NONE 2
J4J S21 C22 SINGLE NONE 3
J4J S21 C20 SINGLE NONE 4
J4J N28 C27 SINGLE NONE 5
J4J N28 O29 SINGLE NONE 6
J4J C18 C20 SINGLE NONE 7
J4J C18 N17 SINGLE NONE 8
J4J C22 C27 DOUBLE NONE 9
J4J C22 C23 SINGLE NONE 10
J4J C27 C26 SINGLE NONE 11
J4J N16 N17 SINGLE NONE 12
J4J C23 C24 DOUBLE NONE 13
J4J C26 C25 DOUBLE NONE 14
J4J C24 C25 SINGLE NONE 15
#
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
J4J MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
J4J amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
J4J 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
J4J C27 S1 1
J4J C26 S1 1
J4J C25 S1 1
J4J C24 S1 1
J4J C23 S1 1
J4J C22 S1 1
J4J N17 F1 1
J4J C18 F1 1
J4J O19 F1 1
J4J C20 F1 1
J4J C27 F2 1
J4J C22 F2 1
J4J C23 F2 1
J4J C24 F2 1
J4J C25 F2 1
J4J C26 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id J4J
_pdbe_chem_comp_rdkit_properties.exactmw 227.036
_pdbe_chem_comp_rdkit_properties.amw 227.245
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 15
_pdbe_chem_comp_rdkit_properties.NumAtoms 24
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.125
_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 102.778
_pdbe_chem_comp_rdkit_properties.tpsa 98.260
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.188
_pdbe_chem_comp_rdkit_properties.CrippenMR 55.897
_pdbe_chem_comp_rdkit_properties.chi0v 7.791
_pdbe_chem_comp_rdkit_properties.chi1v 4.191
_pdbe_chem_comp_rdkit_properties.chi2v 1.925
_pdbe_chem_comp_rdkit_properties.chi3v 1.925
_pdbe_chem_comp_rdkit_properties.chi4v 1.166
_pdbe_chem_comp_rdkit_properties.chi0n 15.975
_pdbe_chem_comp_rdkit_properties.chi1n 7.716
_pdbe_chem_comp_rdkit_properties.chi2n 1.148
_pdbe_chem_comp_rdkit_properties.chi3n 1.148
_pdbe_chem_comp_rdkit_properties.chi4n 0.612
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.600
_pdbe_chem_comp_rdkit_properties.kappa1 4.106
_pdbe_chem_comp_rdkit_properties.kappa2 5.323
_pdbe_chem_comp_rdkit_properties.kappa3 3.223
_pdbe_chem_comp_rdkit_properties.Phi 1.457
#
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
J4J UniChem ZINC ZINC000000079219
J4J UniChem MedChemExpress HY-116872
J4J UniChem 'Probes And Drugs' PD126176
J4J UniChem 'EPA CompTox Dashboard' DTXSID80384537
J4J UniChem eMolecules 5810859
J4J UniChem SureChEMBL SCHEMBL11863767
J4J UniChem PubChem 2807216
J4J UniChem Mcule MCULE-3302754330
#
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
J4J O30 -2.163 -2.577 -1.743 ETKDGv3 1
J4J N28 -2.351 -2.026 -0.639 ETKDGv3 2
J4J O29 -3.084 -2.694 0.315 ETKDGv3 3
J4J C27 -2.002 -0.645 -0.432 ETKDGv3 4
J4J C26 -2.868 0.187 0.443 ETKDGv3 5
J4J C25 -2.582 1.476 0.659 ETKDGv3 6
J4J C24 -1.398 2.085 0.031 ETKDGv3 7
J4J C23 -0.602 1.348 -0.750 ETKDGv3 8
J4J C22 -0.898 -0.085 -0.987 ETKDGv3 9
J4J S21 0.280 -1.022 -1.980 ETKDGv3 10
J4J C20 1.260 -1.610 -0.556 ETKDGv3 11
J4J C18 2.058 -0.490 0.037 ETKDGv3 12
J4J O19 1.757 -0.046 1.178 ETKDGv3 13
J4J N17 3.144 0.088 -0.698 ETKDGv3 14
J4J N16 3.880 1.172 -0.194 ETKDGv3 15
J4J H1 -3.747 -0.244 0.905 ETKDGv3 16
J4J H2 -3.222 2.075 1.294 ETKDGv3 17
J4J H3 -1.172 3.129 0.205 ETKDGv3 18
J4J H4 0.271 1.800 -1.203 ETKDGv3 19
J4J H5 0.591 -2.062 0.208 ETKDGv3 20
J4J H6 1.955 -2.400 -0.908 ETKDGv3 21
J4J H7 3.391 -0.293 -1.638 ETKDGv3 22
J4J H8 4.291 0.879 0.721 ETKDGv3 23
J4J H9 3.210 1.954 -0.011 ETKDGv3 24
#