data_AYV
#
_chem_comp.id AYV
_chem_comp.name 1-[2-methyl-1,3-bis(oxidanyl)propan-2-yl]-3-phenyl-urea
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C11 H16 N2 O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2017-07-28
_chem_comp.pdbx_modified_date 2018-08-03
_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 224.256
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code AYV
_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 5Q20
_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
AYV N1 N1 N 0 1 N N N N N N -12.063 15.016 40.192 1.258 -0.734 -0.474 N1 AYV 1
AYV C4 C1 C 0 1 N N N N N N -12.461 17.337 40.708 2.536 1.287 0.039 C4 AYV 2
AYV C5 C2 C 0 1 N N N N N N -12.433 13.723 40.330 0.032 -0.285 -0.141 C5 AYV 3
AYV C6 C3 C 0 1 Y N N N N N -13.572 12.004 38.893 -2.335 -0.358 -0.379 C6 AYV 4
AYV C7 C4 C 0 1 Y N N N N N -14.557 11.879 37.920 -3.395 -1.251 -0.460 C7 AYV 5
AYV C8 C5 C 0 1 Y N N N N N -14.882 10.635 37.402 -4.658 -0.859 -0.061 C8 AYV 6
AYV C10 C6 C 0 1 Y N N N N N -13.257 9.623 38.816 -3.813 1.313 0.500 C10 AYV 7
AYV C1 C7 C 0 1 N N N N N N -12.699 15.655 42.532 2.320 -0.548 1.722 C1 AYV 8
AYV C2 C8 C 0 1 N N N N N N -11.913 16.023 41.276 2.439 -0.228 0.230 C2 AYV 9
AYV C3 C9 C 0 1 N N N N N N -10.426 16.171 41.613 3.694 -0.894 -0.336 C3 AYV 10
AYV O1 O1 O 0 1 N N N N N N -9.620 16.306 40.450 4.847 -0.401 0.350 O1 AYV 11
AYV O2 O2 O 0 1 N N N N N N -13.744 17.173 40.118 2.530 1.593 -1.357 O2 AYV 12
AYV O3 O3 O 0 1 N N N N N N -12.072 13.011 41.278 -0.095 0.540 0.743 O3 AYV 13
AYV N2 N2 N 0 1 N N N N N N -13.300 13.312 39.358 -1.055 -0.751 -0.788 N2 AYV 14
AYV C9 C10 C 0 1 Y N N N N N -14.230 9.508 37.850 -4.867 0.421 0.419 C9 AYV 15
AYV C11 C11 C 0 1 Y N N N N N -12.923 10.862 39.341 -2.548 0.927 0.103 C11 AYV 16
AYV H1 H1 H 0 1 N N N N N N -11.870 15.329 39.262 1.358 -1.395 -1.176 H1 AYV 17
AYV H2 H2 H 0 1 N N N N N N -11.764 17.710 39.943 1.685 1.769 0.521 H2 AYV 18
AYV H3 H3 H 0 1 N N N N N N -12.537 18.071 41.524 3.461 1.651 0.487 H3 AYV 19
AYV H4 H4 H 0 1 N N N N N N -15.073 12.759 37.565 -3.233 -2.251 -0.835 H4 AYV 20
AYV H5 H5 H 0 1 N N N N N N -15.648 10.550 36.646 -5.483 -1.553 -0.124 H5 AYV 21
AYV H6 H6 H 0 1 N N N N N N -12.748 8.738 39.169 -3.979 2.312 0.875 H6 AYV 22
AYV H7 H7 H 0 1 N N N N N N -12.552 16.431 43.298 2.251 -1.627 1.857 H7 AYV 23
AYV H8 H8 H 0 1 N N N N N N -13.769 15.580 42.286 3.199 -0.171 2.245 H8 AYV 24
AYV H9 H9 H 0 1 N N N N N N -12.343 14.688 42.917 1.426 -0.073 2.125 H9 AYV 25
AYV H10 H10 H 0 1 N N N N N N -10.099 15.280 42.169 3.625 -1.974 -0.200 H10 AYV 26
AYV H11 H11 H 0 1 N N N N N N -10.293 17.064 42.241 3.779 -0.666 -1.399 H11 AYV 27
AYV H12 H12 H 0 1 N N N N N N -8.709 16.395 40.704 5.681 -0.781 0.042 H12 AYV 28
AYV H13 H13 H 0 1 N N N N N N -14.046 18.008 39.780 2.589 2.538 -1.552 H13 AYV 29
AYV H14 H14 H 0 1 N N N N N N -13.817 14.041 38.910 -0.950 -1.358 -1.537 H14 AYV 30
AYV H15 H15 H 0 1 N N N N N N -14.481 8.539 37.445 -5.855 0.725 0.730 H15 AYV 31
AYV H16 H16 H 0 1 N N N N N N -12.157 10.938 40.099 -1.726 1.625 0.164 H16 AYV 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
AYV C8 C9 DOUB Y N 1
AYV C8 C7 SING Y N 2
AYV C9 C10 SING Y N 3
AYV C7 C6 DOUB Y N 4
AYV C10 C11 DOUB Y N 5
AYV C6 C11 SING Y N 6
AYV C6 N2 SING N N 7
AYV N2 C5 SING N N 8
AYV O2 C4 SING N N 9
AYV N1 C5 SING N N 10
AYV N1 C2 SING N N 11
AYV C5 O3 DOUB N N 12
AYV O1 C3 SING N N 13
AYV C4 C2 SING N N 14
AYV C2 C3 SING N N 15
AYV C2 C1 SING N N 16
AYV N1 H1 SING N N 17
AYV C4 H2 SING N N 18
AYV C4 H3 SING N N 19
AYV C7 H4 SING N N 20
AYV C8 H5 SING N N 21
AYV C10 H6 SING N N 22
AYV C1 H7 SING N N 23
AYV C1 H8 SING N N 24
AYV C1 H9 SING N N 25
AYV C3 H10 SING N N 26
AYV C3 H11 SING N N 27
AYV O1 H12 SING N N 28
AYV O2 H13 SING N N 29
AYV N2 H14 SING N N 30
AYV C9 H15 SING N N 31
AYV C11 H16 SING N N 32
#
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
AYV InChI InChI 1.03 InChI=1S/C11H16N2O3/c1-11(7-14,8-15)13-10(16)12-9-5-3-2-4-6-9/h2-6,14-15H,7-8H2,1H3,(H2,12,13,16)
AYV InChIKey InChI 1.03 NLGYHTMGWVQQIL-UHFFFAOYSA-N
AYV SMILES_CANONICAL CACTVS 3.385 CC(CO)(CO)NC(=O)Nc1ccccc1
AYV SMILES CACTVS 3.385 CC(CO)(CO)NC(=O)Nc1ccccc1
AYV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 CC(CO)(CO)NC(=O)Nc1ccccc1
AYV SMILES "OpenEye OEToolkits" 2.0.6 CC(CO)(CO)NC(=O)Nc1ccccc1
#
_pdbx_chem_comp_identifier.comp_id AYV
_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 1-[2-methyl-1,3-bis(oxidanyl)propan-2-yl]-3-phenyl-urea
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
AYV 'Create component' 2017-07-28 RCSB
AYV 'Initial release' 2018-08-08 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
AYV N1 N 5.598 1.643 1
AYV C4 C 8.196 3.143 2
AYV C5 C 5.598 0.142 3
AYV C6 C 4.299 -2.107 4
AYV C7 C 3.000 -2.857 5
AYV C8 C 3.000 -4.357 6
AYV C10 C 5.598 -4.357 7
AYV C1 C 7.647 1.093 8
AYV C2 C 6.897 2.393 9
AYV C3 C 6.147 3.692 10
AYV O1 O 4.647 3.692 11
AYV O2 O 8.196 4.643 12
AYV O3 O 6.897 -0.608 13
AYV N2 N 4.299 -0.608 14
AYV C9 C 4.299 -5.107 15
AYV C11 C 5.598 -2.857 16
#
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
AYV C8 C9 DOUBLE NONE 1
AYV C8 C7 SINGLE NONE 2
AYV C9 C10 SINGLE NONE 3
AYV C7 C6 DOUBLE NONE 4
AYV C10 C11 DOUBLE NONE 5
AYV C6 C11 SINGLE NONE 6
AYV C6 N2 SINGLE NONE 7
AYV N2 C5 SINGLE NONE 8
AYV O2 C4 SINGLE NONE 9
AYV N1 C5 SINGLE NONE 10
AYV N1 C2 SINGLE NONE 11
AYV C5 O3 DOUBLE NONE 12
AYV O1 C3 SINGLE NONE 13
AYV C4 C2 SINGLE NONE 14
AYV C2 C3 SINGLE NONE 15
AYV C2 C1 SINGLE NONE 16
#
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
AYV MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
AYV phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
AYV Z57472297 F2 fragment CC(CO)(CO)NC(=O)Nc1ccccc1 InChI=1S/C11H16N2O3/c1-11(7-14,8-15)13-10(16)12-9-5-3-2-4-6-9/h2-6,14-15H,7-8H2,1H3,(H2,12,13,16) NLGYHTMGWVQQIL-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
AYV C6 S1 1
AYV C7 S1 1
AYV C8 S1 1
AYV C10 S1 1
AYV C9 S1 1
AYV C11 S1 1
AYV C6 F1 1
AYV C7 F1 1
AYV C8 F1 1
AYV C9 F1 1
AYV C10 F1 1
AYV C11 F1 1
AYV C1 F2 1
AYV C2 F2 1
AYV C4 F2 1
AYV O2 F2 1
AYV C3 F2 1
AYV O1 F2 1
AYV N1 F2 1
AYV C5 F2 1
AYV O3 F2 1
AYV N2 F2 1
AYV C6 F2 1
AYV C7 F2 1
AYV C8 F2 1
AYV C9 F2 1
AYV C10 F2 1
AYV C11 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id AYV
_pdbe_chem_comp_rdkit_properties.exactmw 224.116
_pdbe_chem_comp_rdkit_properties.amw 224.260
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 7
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 32
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 2
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.364
_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 116.875
_pdbe_chem_comp_rdkit_properties.tpsa 81.590
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.171
_pdbe_chem_comp_rdkit_properties.CrippenMR 60.349
_pdbe_chem_comp_rdkit_properties.chi0v 7.619
_pdbe_chem_comp_rdkit_properties.chi1v 3.757
_pdbe_chem_comp_rdkit_properties.chi2v 1.253
_pdbe_chem_comp_rdkit_properties.chi3v 1.253
_pdbe_chem_comp_rdkit_properties.chi4v 0.630
_pdbe_chem_comp_rdkit_properties.chi0n 23.619
_pdbe_chem_comp_rdkit_properties.chi1n 11.468
_pdbe_chem_comp_rdkit_properties.chi2n 1.253
_pdbe_chem_comp_rdkit_properties.chi3n 1.253
_pdbe_chem_comp_rdkit_properties.chi4n 0.630
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.590
_pdbe_chem_comp_rdkit_properties.kappa1 2.802
_pdbe_chem_comp_rdkit_properties.kappa2 5.482
_pdbe_chem_comp_rdkit_properties.kappa3 3.525
_pdbe_chem_comp_rdkit_properties.Phi 0.960
#
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
AYV UniChem PDBe AYV
AYV UniChem ZINC ZINC000000408628
AYV UniChem Mcule MCULE-1218000011
AYV UniChem eMolecules 659431
AYV UniChem PubChem 4056614
#
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
AYV N1 -1.166 -0.372 0.532 ETKDGv3 1
AYV C4 -2.750 -0.563 -1.359 ETKDGv3 2
AYV C5 0.117 -0.232 -0.105 ETKDGv3 3
AYV C6 2.633 -0.521 0.111 ETKDGv3 4
AYV C7 3.009 0.682 -0.365 ETKDGv3 5
AYV C8 4.414 0.923 -0.757 ETKDGv3 6
AYV C10 4.928 -1.360 -0.074 ETKDGv3 7
AYV C1 -3.564 -0.220 1.012 ETKDGv3 8
AYV C2 -2.450 0.131 -0.003 ETKDGv3 9
AYV C3 -2.374 1.672 -0.164 ETKDGv3 10
AYV O1 -3.620 2.206 -0.522 ETKDGv3 11
AYV O2 -4.020 -0.219 -1.850 ETKDGv3 12
AYV O3 0.218 0.333 -1.227 ETKDGv3 13
AYV N2 1.283 -0.779 0.532 ETKDGv3 14
AYV C9 5.325 -0.047 -0.621 ETKDGv3 15
AYV C11 3.656 -1.583 0.277 ETKDGv3 16
AYV H1 -1.169 -0.865 1.454 ETKDGv3 17
AYV H2 -2.005 -0.261 -2.122 ETKDGv3 18
AYV H3 -2.658 -1.670 -1.245 ETKDGv3 19
AYV H4 2.304 1.499 -0.441 ETKDGv3 20
AYV H5 4.704 1.889 -1.149 ETKDGv3 21
AYV H6 5.669 -2.140 0.043 ETKDGv3 22
AYV H7 -3.343 0.238 2.000 ETKDGv3 23
AYV H8 -4.557 0.148 0.679 ETKDGv3 24
AYV H9 -3.630 -1.321 1.146 ETKDGv3 25
AYV H10 -1.630 1.947 -0.942 ETKDGv3 26
AYV H11 -2.043 2.124 0.799 ETKDGv3 27
AYV H12 -3.494 3.189 -0.581 ETKDGv3 28
AYV H13 -4.650 -0.925 -1.551 ETKDGv3 29
AYV H14 1.136 -1.484 1.289 ETKDGv3 30
AYV H15 6.354 0.130 -0.905 ETKDGv3 31
AYV H16 3.372 -2.548 0.678 ETKDGv3 32
#