data_SYV
#
_chem_comp.id SYV
_chem_comp.name 6-azanyl-3-methyl-1,3-benzoxazol-2-one
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H8 N2 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-03-13
_chem_comp.pdbx_modified_date 2020-05-29
_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 164.161
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code SYV
_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 5R0I
_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
SYV C4 C1 C 0 1 Y N N N N N 28.556 16.133 37.858 -2.486 0.120 0.002 C4 SYV 1
SYV C5 C2 C 0 1 Y N N N N N 29.713 16.722 38.365 -1.515 1.112 0.002 C5 SYV 2
SYV C6 C3 C 0 1 Y N N N N N 29.579 17.685 39.323 -0.174 0.764 0.001 C6 SYV 3
SYV N1 N1 N 0 1 N N N N N N 28.629 15.270 36.789 -3.840 0.470 -0.003 N1 SYV 4
SYV C7 C4 C 0 1 N N N N N N 29.920 19.338 40.725 2.023 0.663 -0.000 C7 SYV 5
SYV O1 O1 O 0 1 N N N N N N 30.512 20.194 41.292 3.189 1.008 -0.001 O1 SYV 6
SYV N N2 N 0 1 N N N N N N 28.585 19.132 40.619 1.590 -0.614 -0.000 N SYV 7
SYV C C5 C 0 1 N N N N N N 27.514 19.836 41.290 2.430 -1.814 -0.001 C SYV 8
SYV O O2 O 0 1 N N N N N N 30.548 18.421 39.928 0.969 1.493 0.001 O SYV 9
SYV C1 C6 C 0 1 Y N N N N N 28.350 18.108 39.751 0.193 -0.582 0.000 C1 SYV 10
SYV C3 C7 C 0 1 Y N N N N N 27.312 16.526 38.356 -2.115 -1.220 0.001 C3 SYV 11
SYV C2 C8 C 0 1 Y N N N N N 27.203 17.531 39.282 -0.779 -1.569 0.000 C2 SYV 12
SYV H1 H1 H 0 1 N N N N N N 30.689 16.425 38.010 -1.804 2.152 0.002 H1 SYV 13
SYV H2 H2 H 0 1 N N N N N N 29.588 15.096 36.565 -4.520 -0.223 -0.007 H2 SYV 14
SYV H3 H3 H 0 1 N N N N N N 28.181 14.408 37.025 -4.100 1.404 -0.003 H3 SYV 15
SYV H4 H4 H 0 1 N N N N N N 27.938 20.618 41.938 3.480 -1.523 -0.001 H4 SYV 16
SYV H5 H5 H 0 1 N N N N N N 26.854 20.298 40.541 2.218 -2.406 0.890 H5 SYV 17
SYV H6 H6 H 0 1 N N N N N N 26.936 19.127 41.901 2.217 -2.406 -0.891 H6 SYV 18
SYV H7 H7 H 0 1 N N N N N N 26.420 16.029 38.005 -2.874 -1.988 0.002 H7 SYV 19
SYV H8 H8 H 0 1 N N N N N N 26.235 17.859 39.632 -0.493 -2.610 -0.000 H8 SYV 20
#
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
SYV N1 C4 SING N N 1
SYV C4 C3 DOUB Y N 2
SYV C4 C5 SING Y N 3
SYV C3 C2 SING Y N 4
SYV C5 C6 DOUB Y N 5
SYV C2 C1 DOUB Y N 6
SYV C6 C1 SING Y N 7
SYV C6 O SING N N 8
SYV C1 N SING N N 9
SYV O C7 SING N N 10
SYV N C7 SING N N 11
SYV N C SING N N 12
SYV C7 O1 DOUB N N 13
SYV C5 H1 SING N N 14
SYV N1 H2 SING N N 15
SYV N1 H3 SING N N 16
SYV C H4 SING N N 17
SYV C H5 SING N N 18
SYV C H6 SING N N 19
SYV C3 H7 SING N N 20
SYV C2 H8 SING N N 21
#
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
SYV InChI InChI 1.03 InChI=1S/C8H8N2O2/c1-10-6-3-2-5(9)4-7(6)12-8(10)11/h2-4H,9H2,1H3
SYV InChIKey InChI 1.03 FPNLXQSOWBNXCN-UHFFFAOYSA-N
SYV SMILES_CANONICAL CACTVS 3.385 CN1C(=O)Oc2cc(N)ccc12
SYV SMILES CACTVS 3.385 CN1C(=O)Oc2cc(N)ccc12
SYV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 CN1c2ccc(cc2OC1=O)N
SYV SMILES "OpenEye OEToolkits" 2.0.6 CN1c2ccc(cc2OC1=O)N
#
_pdbx_chem_comp_identifier.comp_id SYV
_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 6-azanyl-3-methyl-1,3-benzoxazol-2-one
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
SYV 'Create component' 2020-03-13 RCSB
SYV 'Initial release' 2020-06-03 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
SYV C4 C 5.104 -0.851 1
SYV C5 C 6.404 -1.601 2
SYV C6 C 7.702 -0.851 3
SYV N1 N 3.805 -1.601 4
SYV C7 C 9.997 -0.101 5
SYV O1 O 11.497 -0.101 6
SYV N N 9.122 1.106 7
SYV C C 9.588 2.531 8
SYV O O 9.122 -1.309 9
SYV C1 C 7.702 0.649 10
SYV C3 C 5.104 0.649 11
SYV C2 C 6.404 1.399 12
#
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
SYV N1 C4 SINGLE NONE 1
SYV C4 C3 DOUBLE NONE 2
SYV C4 C5 SINGLE NONE 3
SYV C3 C2 SINGLE NONE 4
SYV C5 C6 DOUBLE NONE 5
SYV C2 C1 DOUBLE NONE 6
SYV C6 C1 SINGLE NONE 7
SYV C6 O SINGLE NONE 8
SYV C1 N SINGLE NONE 9
SYV O C7 SINGLE NONE 10
SYV N C7 SINGLE NONE 11
SYV N C SINGLE NONE 12
SYV C7 O1 DOUBLE NONE 13
#
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
SYV MurckoScaffold S1 scaffold 'O=c1[nH]c2ccccc2o1' InChI=1S/C7H5NO2/c9-7-8-5-3-1-2-4-6(5)10-7/h1-4H,(H,8,9) ASSKVPFEZFQQNQ-UHFFFAOYSA-N
SYV benzoxazole F1 fragment c1ccc2ocnc2c1 InChI=1S/C7H5NO/c1-2-4-7-6(3-1)8-5-9-7/h1-5H BCMCBBGGLRIHSE-UHFFFAOYSA-N
SYV oxazole F2 fragment c1cocn1 InChI=1S/C3H3NO/c1-2-5-3-4-1/h1-3H ZCQWOFVYLHDMMC-UHFFFAOYSA-N
SYV 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
SYV C4 S1 1
SYV C5 S1 1
SYV C6 S1 1
SYV C7 S1 1
SYV O1 S1 1
SYV N S1 1
SYV O S1 1
SYV C1 S1 1
SYV C3 S1 1
SYV C2 S1 1
SYV C6 F1 1
SYV O F1 1
SYV C7 F1 1
SYV N F1 1
SYV C1 F1 1
SYV C2 F1 1
SYV C3 F1 1
SYV C4 F1 1
SYV C5 F1 1
SYV C6 F2 1
SYV C1 F2 1
SYV N F2 1
SYV C7 F2 1
SYV O F2 1
SYV C4 F3 1
SYV C3 F3 1
SYV C2 F3 1
SYV C1 F3 1
SYV C6 F3 1
SYV C5 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id SYV
_pdbe_chem_comp_rdkit_properties.exactmw 164.059
_pdbe_chem_comp_rdkit_properties.amw 164.164
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 20
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.125
_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 79.559
_pdbe_chem_comp_rdkit_properties.tpsa 61.160
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.805
_pdbe_chem_comp_rdkit_properties.CrippenMR 42.945
_pdbe_chem_comp_rdkit_properties.chi0v 5.711
_pdbe_chem_comp_rdkit_properties.chi1v 3.007
_pdbe_chem_comp_rdkit_properties.chi2v 1.342
_pdbe_chem_comp_rdkit_properties.chi3v 1.342
_pdbe_chem_comp_rdkit_properties.chi4v 0.829
_pdbe_chem_comp_rdkit_properties.chi0n 13.711
_pdbe_chem_comp_rdkit_properties.chi1n 6.901
_pdbe_chem_comp_rdkit_properties.chi2n 1.342
_pdbe_chem_comp_rdkit_properties.chi3n 1.342
_pdbe_chem_comp_rdkit_properties.chi4n 0.829
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.710
_pdbe_chem_comp_rdkit_properties.kappa1 2.387
_pdbe_chem_comp_rdkit_properties.kappa2 2.136
_pdbe_chem_comp_rdkit_properties.kappa3 0.812
_pdbe_chem_comp_rdkit_properties.Phi 0.425
#
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
SYV UniChem PDBe SYV
SYV UniChem ZINC ZINC000004418082
SYV UniChem 'EPA CompTox Dashboard' DTXSID20424547
SYV UniChem eMolecules 1555244
SYV UniChem SureChEMBL SCHEMBL3045237
SYV UniChem PubChem 6486006
SYV UniChem Mcule MCULE-8305338799
#
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
SYV C4 2.221 0.002 -0.254 ETKDGv3 1
SYV C5 1.432 -1.264 -0.225 ETKDGv3 2
SYV C6 0.127 -1.175 0.032 ETKDGv3 3
SYV N1 3.623 -0.043 -0.525 ETKDGv3 4
SYV C7 -2.026 -1.559 0.358 ETKDGv3 5
SYV O1 -3.122 -2.174 0.422 ETKDGv3 6
SYV N -1.907 -0.139 0.533 ETKDGv3 7
SYV C -2.984 0.830 0.369 ETKDGv3 8
SYV O -0.810 -2.194 0.084 ETKDGv3 9
SYV C1 -0.523 0.087 0.286 ETKDGv3 10
SYV C3 1.604 1.189 -0.027 ETKDGv3 11
SYV C2 0.144 1.244 0.258 ETKDGv3 12
SYV H1 1.896 -2.223 -0.417 ETKDGv3 13
SYV H2 4.196 0.831 -0.552 ETKDGv3 14
SYV H3 4.099 -0.955 -0.702 ETKDGv3 15
SYV H4 -2.723 1.779 0.883 ETKDGv3 16
SYV H5 -3.920 0.435 0.816 ETKDGv3 17
SYV H6 -3.147 1.028 -0.711 ETKDGv3 18
SYV H7 2.169 2.113 -0.048 ETKDGv3 19
SYV H8 -0.350 2.188 0.442 ETKDGv3 20
#