data_SYH
#
_chem_comp.id SYH
_chem_comp.name 2-(1H-benzo[d][1,2,3]triazol-1-yl)-1-(4-methylenepiperidin-1-yl)ethan-1-one
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H16 N4 O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms
"2-(1H-1,2,3-benzotriazol-1-yl)-1-(4-methylidenepiperidin-1-yl)ethan-1-one;  2-(benzotriazol-1-yl)-1-(4-methylidenepiperidin-1-yl)ethanone"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-12-07
_chem_comp.pdbx_modified_date 2022-02-18
_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 256.303
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code SYH
_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 7B5Z
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
SYH C4 C1 C 0 1 N N N N N N 12.249 1.510 22.739 -2.740 -0.594 1.190 C4 SYH 1
SYH C14 C2 C 0 1 N N N N N N 12.900 -1.225 22.131 -3.839 0.671 -1.286 C14 SYH 2
SYH C5 C3 C 0 1 N N N N N N 10.429 1.000 21.147 -0.788 -0.729 -0.275 C5 SYH 3
SYH C6 C4 C 0 1 N N N N N N 9.463 -0.002 20.537 0.089 -0.765 0.950 C6 SYH 4
SYH C11 C5 C 0 1 Y N N N N N 6.690 1.589 20.977 2.215 1.580 0.341 C11 SYH 5
SYH C7 C6 C 0 1 Y N N N N N 6.976 1.674 18.558 3.579 -0.379 -0.060 C7 SYH 6
SYH C8 C7 C 0 1 Y N N N N N 5.787 2.400 18.398 4.659 0.458 -0.370 C8 SYH 7
SYH C9 C8 C 0 1 Y N N N N N 5.093 2.700 19.535 4.505 1.812 -0.315 C9 SYH 8
SYH C10 C9 C 0 1 Y N N N N N 5.534 2.306 20.802 3.285 2.374 0.040 C10 SYH 9
SYH C12 C10 C 0 1 Y N N N N N 7.394 1.272 19.812 2.348 0.196 0.299 C12 SYH 10
SYH C13 C11 C 0 1 N N N N N N 11.487 -0.800 22.455 -2.989 -0.612 -1.331 C13 SYH 11
SYH N1 N1 N 0 1 N N N N N N 11.325 0.597 22.062 -2.127 -0.647 -0.143 N1 SYH 12
SYH N2 N2 N 0 1 Y N N N N N 8.579 0.640 19.585 1.494 -0.854 0.543 N2 SYH 13
SYH C3 C12 C 0 1 N N N N N N 13.691 1.106 22.486 -3.578 0.686 1.300 C3 SYH 14
SYH N3 N3 N 0 1 Y N N N N N 8.836 0.583 18.248 2.232 -2.026 0.325 N3 SYH 15
SYH C1 C13 C 0 1 N N N N N N 14.776 -0.797 23.715 -5.766 0.943 0.213 C1 SYH 16
SYH C2 C14 C 0 1 N N N N N N 13.891 -0.344 22.832 -4.473 0.777 0.084 C2 SYH 17
SYH N4 N4 N 0 1 Y N N N N N 7.896 1.242 17.628 3.432 -1.719 -0.022 N4 SYH 18
SYH O1 O1 O 0 1 N N N N N N 10.339 2.172 20.830 -0.289 -0.773 -1.380 O1 SYH 19
SYH H1 H1 H 0 1 N N N N N N 12.089 2.530 22.361 -3.381 -1.464 1.333 H1 SYH 20
SYH H2 H2 H 0 1 N N N N N N 12.052 1.485 23.821 -1.959 -0.586 1.951 H2 SYH 21
SYH H3 H3 H 0 1 N N N N N N 13.048 -2.265 22.456 -3.203 1.539 -1.462 H3 SYH 22
SYH H4 H4 H 0 1 N N N N N N 13.059 -1.154 21.045 -4.616 0.624 -2.049 H4 SYH 23
SYH H5 H5 H 0 1 N N N N N N 8.861 -0.454 21.339 -0.063 0.144 1.532 H5 SYH 24
SYH H6 H6 H 0 1 N N N N N N 10.037 -0.787 20.022 -0.169 -1.633 1.556 H6 SYH 25
SYH H7 H7 H 0 1 N N N N N N 7.035 1.288 21.955 1.270 2.025 0.616 H7 SYH 26
SYH H8 H8 H 0 1 N N N N N N 5.437 2.707 17.423 5.612 0.032 -0.647 H8 SYH 27
SYH H9 H9 H 0 1 N N N N N N 4.173 3.260 19.453 5.339 2.455 -0.555 H9 SYH 28
SYH H10 H10 H 0 1 N N N N N N 4.947 2.574 21.668 3.182 3.448 0.078 H10 SYH 29
SYH H11 H11 H 0 1 N N N N N N 11.305 -0.906 23.535 -3.644 -1.484 -1.333 H11 SYH 30
SYH H12 H12 H 0 1 N N N N N N 10.774 -1.427 21.900 -2.377 -0.613 -2.233 H12 SYH 31
SYH H13 H13 H 0 1 N N N N N N 13.932 1.263 21.424 -4.188 0.649 2.203 H13 SYH 32
SYH H14 H14 H 0 1 N N N N N N 14.356 1.723 23.108 -2.920 1.554 1.337 H14 SYH 33
SYH H15 H15 H 0 1 N N N N N N 15.416 -0.105 24.242 -6.393 1.005 -0.664 H15 SYH 34
SYH H16 H16 H 0 1 N N N N N N 14.855 -1.857 23.905 -6.205 1.017 1.197 H16 SYH 35
#
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
SYH N4 N3 DOUB Y N 1
SYH N4 C7 SING Y N 2
SYH N3 N2 SING Y N 3
SYH C8 C7 SING Y N 4
SYH C8 C9 DOUB Y N 5
SYH C7 C12 DOUB Y N 6
SYH C9 C10 SING Y N 7
SYH N2 C12 SING Y N 8
SYH N2 C6 SING N N 9
SYH C12 C11 SING Y N 10
SYH C6 C5 SING N N 11
SYH C10 C11 DOUB Y N 12
SYH O1 C5 DOUB N N 13
SYH C5 N1 SING N N 14
SYH N1 C13 SING N N 15
SYH N1 C4 SING N N 16
SYH C14 C13 SING N N 17
SYH C14 C2 SING N N 18
SYH C3 C4 SING N N 19
SYH C3 C2 SING N N 20
SYH C2 C1 DOUB N N 21
SYH C4 H1 SING N N 22
SYH C4 H2 SING N N 23
SYH C14 H3 SING N N 24
SYH C14 H4 SING N N 25
SYH C6 H5 SING N N 26
SYH C6 H6 SING N N 27
SYH C11 H7 SING N N 28
SYH C8 H8 SING N N 29
SYH C9 H9 SING N N 30
SYH C10 H10 SING N N 31
SYH C13 H11 SING N N 32
SYH C13 H12 SING N N 33
SYH C3 H13 SING N N 34
SYH C3 H14 SING N N 35
SYH C1 H15 SING N N 36
SYH C1 H16 SING N N 37
#
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
SYH InChI InChI 1.03 InChI=1S/C14H16N4O/c1-11-6-8-17(9-7-11)14(19)10-18-13-5-3-2-4-12(13)15-16-18/h2-5H,1,6-10H2
SYH InChIKey InChI 1.03 WYBCNWLSBYEMQV-UHFFFAOYSA-N
SYH SMILES_CANONICAL CACTVS 3.385 C=C1CCN(CC1)C(=O)Cn2nnc3ccccc23
SYH SMILES CACTVS 3.385 C=C1CCN(CC1)C(=O)Cn2nnc3ccccc23
SYH SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 C=C1CCN(CC1)C(=O)Cn2c3ccccc3nn2
SYH SMILES "OpenEye OEToolkits" 2.0.7 C=C1CCN(CC1)C(=O)Cn2c3ccccc3nn2
#
_pdbx_chem_comp_identifier.comp_id SYH
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier 2-(benzotriazol-1-yl)-1-(4-methylidenepiperidin-1-yl)ethanone
#
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1 SYH 2-(1H-1,2,3-benzotriazol-1-yl)-1-(4-methylidenepiperidin-1-yl)ethan-1-one AUTHOR ?
2 SYH 2-(benzotriazol-1-yl)-1-(4-methylidenepiperidin-1-yl)ethanone PDB ?
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
SYH 'Create component' 2020-12-07 PDBE
SYH 'Initial release' 2022-02-23 RCSB
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
SYH 2-(1H-1,2,3-benzotriazol-1-yl)-1-(4-methylidenepiperidin-1-yl)ethan-1-one wwPDB ?
SYH 2-(benzotriazol-1-yl)-1-(4-methylidenepiperidin-1-yl)ethanone wwPDB ?
#
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
SYH C4 C 8.415 1.912 1
SYH C14 C 11.351 2.530 2
SYH C5 C 8.951 -0.630 3
SYH C6 C 7.483 -0.940 4
SYH C11 C 4.299 -2.073 5
SYH C7 C 5.598 -4.323 6
SYH C8 C 4.299 -5.073 7
SYH C9 C 3.000 -4.323 8
SYH C10 C 3.000 -2.823 9
SYH C12 C 5.598 -2.823 10
SYH C13 C 10.885 1.105 11
SYH N1 N 9.417 0.795 12
SYH N2 N 7.018 -2.365 13
SYH C3 C 8.881 3.337 14
SYH N3 N 7.893 -3.573 15
SYH C1 C 10.815 5.073 16
SYH C2 C 10.349 3.647 17
SYH N4 N 7.018 -4.780 18
SYH O1 O 9.953 -1.747 19
#
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
SYH N4 N3 DOUBLE NONE 1
SYH N4 C7 SINGLE NONE 2
SYH N3 N2 SINGLE NONE 3
SYH C8 C7 DOUBLE NONE 4
SYH C8 C9 SINGLE NONE 5
SYH C7 C12 SINGLE NONE 6
SYH C9 C10 DOUBLE NONE 7
SYH N2 C12 SINGLE NONE 8
SYH N2 C6 SINGLE NONE 9
SYH C12 C11 DOUBLE NONE 10
SYH C6 C5 SINGLE NONE 11
SYH C10 C11 SINGLE NONE 12
SYH O1 C5 DOUBLE NONE 13
SYH C5 N1 SINGLE NONE 14
SYH N1 C13 SINGLE NONE 15
SYH N1 C4 SINGLE NONE 16
SYH C14 C13 SINGLE NONE 17
SYH C14 C2 SINGLE NONE 18
SYH C3 C4 SINGLE NONE 19
SYH C3 C2 SINGLE NONE 20
SYH C2 C1 DOUBLE 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
SYH MurckoScaffold S1 scaffold C=C1CCN(C(=O)Cn2nnc3ccccc32)CC1 InChI=1S/C14H16N4O/c1-11-6-8-17(9-7-11)14(19)10-18-13-5-3-2-4-12(13)15-16-18/h2-5H,1,6-10H2 WYBCNWLSBYEMQV-UHFFFAOYSA-N
SYH amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
SYH peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
SYH 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
SYH C4 S1 1
SYH C14 S1 1
SYH C5 S1 1
SYH C6 S1 1
SYH C11 S1 1
SYH C7 S1 1
SYH C8 S1 1
SYH C9 S1 1
SYH C10 S1 1
SYH C12 S1 1
SYH C13 S1 1
SYH N1 S1 1
SYH N2 S1 1
SYH C3 S1 1
SYH N3 S1 1
SYH C1 S1 1
SYH C2 S1 1
SYH N4 S1 1
SYH O1 S1 1
SYH N1 F1 1
SYH C5 F1 1
SYH O1 F1 1
SYH C6 F1 1
SYH O1 F2 1
SYH C5 F2 1
SYH C6 F2 1
SYH N2 F2 1
SYH C11 F3 1
SYH C12 F3 1
SYH C7 F3 1
SYH C8 F3 1
SYH C9 F3 1
SYH C10 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id SYH
_pdbe_chem_comp_rdkit_properties.exactmw 256.132
_pdbe_chem_comp_rdkit_properties.amw 256.309
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 35
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.357
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 133.533
_pdbe_chem_comp_rdkit_properties.tpsa 51.020
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.181
_pdbe_chem_comp_rdkit_properties.CrippenMR 70.276
_pdbe_chem_comp_rdkit_properties.chi0v 9.197
_pdbe_chem_comp_rdkit_properties.chi1v 4.946
_pdbe_chem_comp_rdkit_properties.chi2v 2.085
_pdbe_chem_comp_rdkit_properties.chi3v 2.085
_pdbe_chem_comp_rdkit_properties.chi4v 1.262
_pdbe_chem_comp_rdkit_properties.chi0n 25.197
_pdbe_chem_comp_rdkit_properties.chi1n 12.946
_pdbe_chem_comp_rdkit_properties.chi2n 2.085
_pdbe_chem_comp_rdkit_properties.chi3n 2.085
_pdbe_chem_comp_rdkit_properties.chi4n 1.262
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.170
_pdbe_chem_comp_rdkit_properties.kappa1 3.476
_pdbe_chem_comp_rdkit_properties.kappa2 4.836
_pdbe_chem_comp_rdkit_properties.kappa3 2.358
_pdbe_chem_comp_rdkit_properties.Phi 0.885
#
_pdbe_chem_comp_external_mappings.comp_id SYH
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PubChem
_pdbe_chem_comp_external_mappings.resource_id 162625289
#
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
SYH C4 -3.010 -1.087 0.723 ETKDGv3 1
SYH C14 -1.979 1.334 -0.664 ETKDGv3 2
SYH C5 -0.663 -1.815 0.115 ETKDGv3 3
SYH C6 0.635 -1.501 -0.575 ETKDGv3 4
SYH C11 2.969 0.674 -0.759 ETKDGv3 5
SYH C7 3.660 -0.506 1.244 ETKDGv3 6
SYH C8 4.828 0.126 1.354 ETKDGv3 7
SYH C9 5.136 1.161 0.325 ETKDGv3 8
SYH C10 4.258 1.420 -0.674 ETKDGv3 9
SYH C12 2.737 -0.232 0.193 ETKDGv3 10
SYH C13 -1.244 0.649 0.490 ETKDGv3 11
SYH N1 -1.589 -0.779 0.517 ETKDGv3 12
SYH N2 1.644 -1.108 0.404 ETKDGv3 13
SYH C3 -3.838 -0.476 -0.413 ETKDGv3 14
SYH N3 1.990 -1.882 1.531 ETKDGv3 15
SYH C1 -4.375 1.873 -0.992 ETKDGv3 16
SYH C2 -3.448 0.969 -0.643 ETKDGv3 17
SYH N4 3.119 -1.554 2.036 ETKDGv3 18
SYH O1 -0.928 -3.023 0.362 ETKDGv3 19
SYH H1 -3.195 -2.182 0.765 ETKDGv3 20
SYH H2 -3.341 -0.658 1.694 ETKDGv3 21
SYH H3 -1.836 2.434 -0.579 ETKDGv3 22
SYH H4 -1.542 1.000 -1.629 ETKDGv3 23
SYH H5 0.472 -0.693 -1.317 ETKDGv3 24
SYH H6 0.997 -2.393 -1.130 ETKDGv3 25
SYH H7 2.260 0.867 -1.552 ETKDGv3 26
SYH H8 5.525 -0.108 2.148 ETKDGv3 27
SYH H9 6.070 1.705 0.378 ETKDGv3 28
SYH H10 4.491 2.170 -1.418 ETKDGv3 29
SYH H11 -0.153 0.818 0.398 ETKDGv3 30
SYH H12 -1.557 1.116 1.449 ETKDGv3 31
SYH H13 -3.654 -1.047 -1.348 ETKDGv3 32
SYH H14 -4.917 -0.566 -0.157 ETKDGv3 33
SYH H15 -5.426 1.602 -1.048 ETKDGv3 34
SYH H16 -4.098 2.895 -1.228 ETKDGv3 35
#