data_S2X
#
_chem_comp.id S2X
_chem_comp.name "2-(5-acetamido-2-oxidanyl-phenyl)pyridine-4-carboxylic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H12 N2 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2015-07-09
_chem_comp.pdbx_modified_date 2016-01-08
_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 272.256
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code S2X
_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 5A7S
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
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
S2X O3 O3 O 0 1 N N N N N N -18.278 127.011 58.239 2.594 1.925 1.212 O3 S2X 1
S2X C1 C1 C 0 1 N N N N N N -18.094 127.429 57.080 3.528 1.912 0.438 C1 S2X 2
S2X C C C 0 1 N N N N N N -17.243 128.661 56.760 4.555 3.014 0.479 C S2X 3
S2X N N N 0 1 N N N N N N -18.650 126.821 55.943 3.650 0.909 -0.454 N S2X 4
S2X C2 C2 C 0 1 Y N N N N N -19.316 125.565 55.843 2.750 -0.164 -0.429 C2 S2X 5
S2X C7 C7 C 0 1 Y N N N N N -20.278 125.462 54.825 1.423 0.053 -0.094 C7 S2X 6
S2X C6 C6 C 0 1 Y N N N N N -20.891 124.228 54.608 0.530 -1.016 -0.070 C6 S2X 7
S2X C5 C5 C 0 1 Y N N N N N -20.538 123.081 55.378 0.979 -2.302 -0.385 C5 S2X 8
S2X O2 O2 O 0 1 N N N N N N -21.120 121.895 55.028 0.112 -3.349 -0.364 O2 S2X 9
S2X C4 C4 C 0 1 Y N N N N N -19.596 123.197 56.412 2.307 -2.508 -0.719 C4 S2X 10
S2X C3 C3 C 0 1 Y N N N N N -18.994 124.439 56.646 3.188 -1.444 -0.746 C3 S2X 11
S2X C8 C8 C 0 1 Y N N N N N -21.936 124.213 53.636 -0.891 -0.790 0.289 C8 S2X 12
S2X N1 N1 N 0 1 Y N N N N N -21.995 123.127 52.783 -1.469 -1.563 1.198 N1 S2X 13
S2X C12 C12 C 0 1 Y N N N N N -22.965 123.124 51.869 -2.728 -1.402 1.550 C12 S2X 14
S2X C11 C11 C 0 1 Y N N N N N -23.922 124.162 51.742 -3.506 -0.411 0.982 C11 S2X 15
S2X C10 C10 C 0 1 Y N N N N N -23.802 125.226 52.640 -2.942 0.431 0.016 C10 S2X 16
S2X C9 C9 C 0 1 Y N N N N N -22.821 125.276 53.603 -1.603 0.236 -0.330 C9 S2X 17
S2X C13 C13 C 0 1 N N N N N N -24.678 126.374 52.542 -3.742 1.504 -0.617 C13 S2X 18
S2X O1 O1 O 0 1 N N N N N N -25.857 126.342 52.244 -3.236 2.226 -1.452 O1 S2X 19
S2X O O O 0 1 N N N N N N -24.078 127.583 52.797 -5.030 1.679 -0.266 O S2X 20
S2X HC1 HC1 H 0 1 N N N N N N -16.846 129.085 57.694 4.293 3.726 1.262 HC1 S2X 21
S2X HC2 HC2 H 0 1 N N N N N N -16.408 128.370 56.105 5.536 2.588 0.688 HC2 S2X 22
S2X HC3 HC3 H 0 1 N N N N N N -17.864 129.413 56.250 4.579 3.524 -0.484 HC3 S2X 23
S2X H H H 0 1 N N N N N N -18.568 127.338 55.091 4.361 0.931 -1.113 H S2X 24
S2X H7 H7 H 0 1 N N N N N N -20.538 126.320 54.223 1.082 1.048 0.149 H7 S2X 25
S2X H3 H3 H 0 1 N N N N N N -18.276 124.542 57.447 4.222 -1.609 -1.011 H3 S2X 26
S2X H4 H4 H 0 1 N N N N N N -19.339 122.341 57.018 2.655 -3.501 -0.961 H4 S2X 27
S2X H9 H9 H 0 1 N N N N N N -22.746 126.101 54.296 -1.129 0.867 -1.067 H9 S2X 28
S2X H12 H12 H 0 1 N N N N N N -23.025 122.287 51.189 -3.159 -2.054 2.295 H12 S2X 29
S2X H11 H11 H 0 1 N N N N N N -24.700 124.132 50.993 -4.537 -0.289 1.278 H11 S2X 30
S2X HA HA H 0 1 N N N N N N -24.715 128.280 52.698 -5.512 2.393 -0.707 HA S2X 31
S2X H21 H21 H 0 1 N N N N N N -20.812 121.208 55.607 -0.330 -3.511 -1.209 H21 S2X 32
#
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
S2X O3 C1 DOUB N N 1
S2X C1 C SING N N 2
S2X C1 N SING N N 3
S2X N C2 SING N N 4
S2X C2 C7 SING Y N 5
S2X C2 C3 DOUB Y N 6
S2X C7 C6 DOUB Y N 7
S2X C6 C5 SING Y N 8
S2X C6 C8 SING N N 9
S2X C5 O2 SING N N 10
S2X C5 C4 DOUB Y N 11
S2X C4 C3 SING Y N 12
S2X C8 N1 DOUB Y N 13
S2X C8 C9 SING Y N 14
S2X N1 C12 SING Y N 15
S2X C12 C11 DOUB Y N 16
S2X C11 C10 SING Y N 17
S2X C10 C9 DOUB Y N 18
S2X C10 C13 SING N N 19
S2X C13 O1 DOUB N N 20
S2X C13 O SING N N 21
S2X O2 H21 SING N N 22
S2X C HC1 SING N N 23
S2X C HC2 SING N N 24
S2X C HC3 SING N N 25
S2X N H SING N N 26
S2X C7 H7 SING N N 27
S2X C3 H3 SING N N 28
S2X C4 H4 SING N N 29
S2X C9 H9 SING N N 30
S2X C12 H12 SING N N 31
S2X C11 H11 SING N N 32
S2X O HA SING N N 33
#
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
S2X InChI InChI 1.03 InChI=1S/C14H12N2O4/c1-8(17)16-10-2-3-13(18)11(7-10)12-6-9(14(19)20)4-5-15-12/h2-7,18H,1H3,(H,16,17)(H,19,20)
S2X InChIKey InChI 1.03 KWHVUGFDWSYWJF-UHFFFAOYSA-N
S2X SMILES_CANONICAL CACTVS 3.385 CC(=O)Nc1ccc(O)c(c1)c2cc(ccn2)C(O)=O
S2X SMILES CACTVS 3.385 CC(=O)Nc1ccc(O)c(c1)c2cc(ccn2)C(O)=O
S2X SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 CC(=O)Nc1ccc(c(c1)c2cc(ccn2)C(=O)O)O
S2X SMILES "OpenEye OEToolkits" 1.7.6 CC(=O)Nc1ccc(c(c1)c2cc(ccn2)C(=O)O)O
#
_pdbx_chem_comp_identifier.comp_id S2X
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 1.7.6
_pdbx_chem_comp_identifier.identifier "2-(5-acetamido-2-oxidanyl-phenyl)pyridine-4-carboxylic acid"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
S2X 'Create component' 2015-07-09 EBI
S2X 'Initial release' 2016-01-13 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
S2X O3 O 7.702 -5.857 1
S2X C1 C 9.002 -5.107 2
S2X C C 10.301 -5.857 3
S2X N N 9.002 -3.607 4
S2X C2 C 7.702 -2.857 5
S2X C7 C 7.702 -1.357 6
S2X C6 C 6.404 -0.608 7
S2X C5 C 5.104 -1.357 8
S2X O2 O 3.805 -0.608 9
S2X C4 C 5.104 -2.857 10
S2X C3 C 6.404 -3.607 11
S2X C8 C 6.404 0.892 12
S2X N1 N 5.104 1.643 13
S2X C12 C 5.104 3.143 14
S2X C11 C 6.404 3.893 15
S2X C10 C 7.702 3.143 16
S2X C9 C 7.702 1.643 17
S2X C13 C 9.002 3.893 18
S2X O1 O 9.002 5.393 19
S2X O O 10.301 3.143 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
S2X O3 C1 DOUBLE NONE 1
S2X C1 C SINGLE NONE 2
S2X C1 N SINGLE NONE 3
S2X N C2 SINGLE NONE 4
S2X C2 C7 DOUBLE NONE 5
S2X C2 C3 SINGLE NONE 6
S2X C7 C6 SINGLE NONE 7
S2X C6 C5 DOUBLE NONE 8
S2X C6 C8 SINGLE NONE 9
S2X C5 O2 SINGLE NONE 10
S2X C5 C4 SINGLE NONE 11
S2X C4 C3 DOUBLE NONE 12
S2X C8 N1 DOUBLE NONE 13
S2X C8 C9 SINGLE NONE 14
S2X N1 C12 SINGLE NONE 15
S2X C12 C11 DOUBLE NONE 16
S2X C11 C10 SINGLE NONE 17
S2X C10 C9 DOUBLE NONE 18
S2X C10 C13 SINGLE NONE 19
S2X C13 O1 DOUBLE NONE 20
S2X C13 O 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
S2X MurckoScaffold S1 scaffold c1ccc(-c2ccccn2)cc1 InChI=1S/C11H9N/c1-2-6-10(7-3-1)11-8-4-5-9-12-11/h1-9H VQGHOUODWALEFC-UHFFFAOYSA-N
S2X amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
S2X phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
S2X pyridine F3 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-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
S2X C2 S1 1
S2X C7 S1 1
S2X C6 S1 1
S2X C5 S1 1
S2X C4 S1 1
S2X C3 S1 1
S2X C8 S1 1
S2X N1 S1 1
S2X C12 S1 1
S2X C11 S1 1
S2X C10 S1 1
S2X C9 S1 1
S2X N F1 1
S2X C1 F1 1
S2X O3 F1 1
S2X C F1 1
S2X C2 F2 1
S2X C7 F2 1
S2X C6 F2 1
S2X C5 F2 1
S2X C4 F2 1
S2X C3 F2 1
S2X C8 F3 1
S2X C9 F3 1
S2X C10 F3 1
S2X C11 F3 1
S2X C12 F3 1
S2X N1 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id S2X
_pdbe_chem_comp_rdkit_properties.exactmw 272.080
_pdbe_chem_comp_rdkit_properties.amw 272.260
_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 3
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 20
_pdbe_chem_comp_rdkit_properties.NumAtoms 32
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.071
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 131.355
_pdbe_chem_comp_rdkit_properties.tpsa 99.520
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.833
_pdbe_chem_comp_rdkit_properties.CrippenMR 69.579
_pdbe_chem_comp_rdkit_properties.chi0v 9.527
_pdbe_chem_comp_rdkit_properties.chi1v 4.961
_pdbe_chem_comp_rdkit_properties.chi2v 2.011
_pdbe_chem_comp_rdkit_properties.chi3v 2.011
_pdbe_chem_comp_rdkit_properties.chi4v 1.247
_pdbe_chem_comp_rdkit_properties.chi0n 21.527
_pdbe_chem_comp_rdkit_properties.chi1n 10.725
_pdbe_chem_comp_rdkit_properties.chi2n 2.011
_pdbe_chem_comp_rdkit_properties.chi3n 2.011
_pdbe_chem_comp_rdkit_properties.chi4n 1.247
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.890
_pdbe_chem_comp_rdkit_properties.kappa1 4.898
_pdbe_chem_comp_rdkit_properties.kappa2 5.395
_pdbe_chem_comp_rdkit_properties.kappa3 2.918
_pdbe_chem_comp_rdkit_properties.Phi 1.321
#
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
S2X UniChem ZINC ZINC000263620680
S2X UniChem PubChem 135567040
S2X UniChem BindingDb 50151401
#
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
S2X O3 -4.695 0.332 0.702 ETKDGv3 1
S2X C1 -4.397 -0.618 -0.072 ETKDGv3 2
S2X C -5.417 -1.671 -0.363 ETKDGv3 3
S2X N -3.067 -0.747 -0.596 ETKDGv3 4
S2X C2 -2.077 0.294 -0.538 ETKDGv3 5
S2X C7 -0.776 -0.030 -0.465 ETKDGv3 6
S2X C6 0.275 1.020 -0.424 ETKDGv3 7
S2X C5 -0.093 2.324 -0.457 ETKDGv3 8
S2X O2 0.827 3.371 -0.350 ETKDGv3 9
S2X C4 -1.523 2.677 -0.587 ETKDGv3 10
S2X C3 -2.460 1.725 -0.628 ETKDGv3 11
S2X C8 1.690 0.595 -0.373 ETKDGv3 12
S2X N1 2.552 1.096 -1.213 ETKDGv3 13
S2X C12 3.929 0.685 -1.224 ETKDGv3 14
S2X C11 4.358 -0.249 -0.369 ETKDGv3 15
S2X C10 3.408 -0.857 0.593 ETKDGv3 16
S2X C9 2.126 -0.449 0.585 ETKDGv3 17
S2X C13 3.878 -1.893 1.539 ETKDGv3 18
S2X O1 3.082 -2.420 2.363 ETKDGv3 19
S2X O 5.211 -2.294 1.527 ETKDGv3 20
S2X HC1 -5.264 -2.532 0.320 ETKDGv3 21
S2X HC2 -5.315 -2.015 -1.414 ETKDGv3 22
S2X HC3 -6.441 -1.268 -0.218 ETKDGv3 23
S2X H -2.786 -1.679 -0.979 ETKDGv3 24
S2X H7 -0.486 -1.073 -0.436 ETKDGv3 25
S2X H3 -3.495 2.011 -0.755 ETKDGv3 26
S2X H4 -1.812 3.718 -0.655 ETKDGv3 27
S2X H9 1.405 -0.866 1.279 ETKDGv3 28
S2X H12 4.615 1.132 -1.931 ETKDGv3 29
S2X H11 5.397 -0.552 -0.388 ETKDGv3 30
S2X HA 5.547 -3.002 2.169 ETKDGv3 31
S2X H21 1.806 3.235 -0.135 ETKDGv3 32
#