data_WCW
#
_chem_comp.id WCW
_chem_comp.name "4-azanyl-1-phenyl-piperidine-4-carboxylic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C12 H16 N2 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-05-12
_chem_comp.pdbx_modified_date 2024-05-03
_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 220.268
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code WCW
_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 8P1F
_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
WCW N1 N1 N 0 1 N N N N N N 30.534 -42.042 48.853 3.666 0.882 0.789 N1 WCW 1
WCW C1 C1 C 0 1 N N N N N N 31.873 -42.390 48.261 2.344 0.397 0.371 C1 WCW 2
WCW C2 C2 C 0 1 N N N N N N 32.142 -43.885 48.618 2.510 -0.756 -0.586 C2 WCW 3
WCW O1 O1 O 0 1 N N N N N N 31.887 -44.728 47.788 1.762 -1.702 -0.528 O1 WCW 4
WCW O2 O2 O 0 1 N N N N N N 32.592 -44.197 49.697 3.490 -0.730 -1.504 O2 WCW 5
WCW C3 C3 C 0 1 N N N N N N 31.827 -42.195 46.735 1.555 -0.068 1.598 C3 WCW 6
WCW C4 C4 C 0 1 N N N N N N 33.210 -42.374 46.108 0.158 -0.515 1.162 C4 WCW 7
WCW N2 N2 N 0 1 N N N N N N 34.218 -41.457 46.726 -0.533 0.604 0.507 N2 WCW 8
WCW C5 C5 C 0 1 Y N N N N N 35.054 -40.605 46.003 -1.858 0.271 0.214 C5 WCW 9
WCW C6 C6 C 0 1 Y N N N N N 35.953 -39.762 46.654 -2.686 1.195 -0.409 C6 WCW 10
WCW C7 C7 C 0 1 Y N N N N N 36.794 -38.942 45.920 -3.995 0.862 -0.698 C7 WCW 11
WCW C8 C8 C 0 1 Y N N N N N 36.750 -38.930 44.550 -4.481 -0.390 -0.368 C8 WCW 12
WCW C9 C9 C 0 1 Y N N N N N 35.863 -39.748 43.899 -3.659 -1.312 0.252 C9 WCW 13
WCW C10 C10 C 0 1 Y N N N N N 35.024 -40.589 44.609 -2.347 -0.988 0.539 C10 WCW 14
WCW C11 C11 C 0 1 N N N N N N 34.272 -41.596 48.206 0.181 1.035 -0.701 C11 WCW 15
WCW C12 C12 C 0 1 N N N N N N 32.899 -41.393 48.822 1.579 1.529 -0.320 C12 WCW 16
WCW H1 H1 H 0 1 N N N N N N 30.564 -42.169 49.844 4.189 0.152 1.250 H1 WCW 17
WCW H2 H2 H 0 1 N N N N N N 30.316 -41.088 48.646 4.179 1.255 0.005 H2 WCW 18
WCW H4 H4 H 0 1 N N N N N N 32.688 -45.141 49.739 3.557 -1.492 -2.095 H4 WCW 19
WCW H5 H5 H 0 1 N N N N N N 31.463 -41.181 46.515 2.073 -0.902 2.070 H5 WCW 20
WCW H6 H6 H 0 1 N N N N N N 31.138 -42.935 46.300 1.469 0.755 2.308 H6 WCW 21
WCW H7 H7 H 0 1 N N N N N N 33.144 -42.159 45.031 0.245 -1.347 0.463 H7 WCW 22
WCW H8 H8 H 0 1 N N N N N N 33.536 -43.414 46.255 -0.411 -0.832 2.035 H8 WCW 23
WCW H9 H9 H 0 1 N N N N N N 35.994 -39.748 47.733 -2.307 2.173 -0.667 H9 WCW 24
WCW H10 H10 H 0 1 N N N N N N 37.495 -38.302 46.435 -4.640 1.581 -1.182 H10 WCW 25
WCW H11 H11 H 0 1 N N N N N N 37.408 -38.283 43.989 -5.505 -0.647 -0.595 H11 WCW 26
WCW H12 H12 H 0 1 N N N N N N 35.819 -39.736 42.820 -4.041 -2.289 0.508 H12 WCW 27
WCW H13 H13 H 0 1 N N N N N N 34.341 -41.237 44.080 -1.706 -1.709 1.023 H13 WCW 28
WCW H14 H14 H 0 1 N N N N N N 34.635 -42.603 48.460 0.268 0.196 -1.391 H14 WCW 29
WCW H15 H15 H 0 1 N N N N N N 34.964 -40.844 48.613 -0.372 1.844 -1.180 H15 WCW 30
WCW H16 H16 H 0 1 N N N N N N 32.972 -41.531 49.911 1.492 2.377 0.359 H16 WCW 31
WCW H17 H17 H 0 1 N N N N N N 32.558 -40.370 48.605 2.114 1.835 -1.219 H17 WCW 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
WCW C9 C8 DOUB Y N 1
WCW C9 C10 SING Y N 2
WCW C8 C7 SING Y N 3
WCW C10 C5 DOUB Y N 4
WCW C7 C6 DOUB Y N 5
WCW C5 C6 SING Y N 6
WCW C5 N2 SING N N 7
WCW C4 N2 SING N N 8
WCW C4 C3 SING N N 9
WCW N2 C11 SING N N 10
WCW C3 C1 SING N N 11
WCW O1 C2 DOUB N N 12
WCW C11 C12 SING N N 13
WCW C1 C2 SING N N 14
WCW C1 C12 SING N N 15
WCW C1 N1 SING N N 16
WCW C2 O2 SING N N 17
WCW N1 H1 SING N N 18
WCW N1 H2 SING N N 19
WCW O2 H4 SING N N 20
WCW C3 H5 SING N N 21
WCW C3 H6 SING N N 22
WCW C4 H7 SING N N 23
WCW C4 H8 SING N N 24
WCW C6 H9 SING N N 25
WCW C7 H10 SING N N 26
WCW C8 H11 SING N N 27
WCW C9 H12 SING N N 28
WCW C10 H13 SING N N 29
WCW C11 H14 SING N N 30
WCW C11 H15 SING N N 31
WCW C12 H16 SING N N 32
WCW C12 H17 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
WCW InChI InChI 1.06 "InChI=1S/C12H16N2O2/c13-12(11(15)16)6-8-14(9-7-12)10-4-2-1-3-5-10/h1-5H,6-9,13H2,(H,15,16)"
WCW InChIKey InChI 1.06 FPGAOFXYANTSRQ-UHFFFAOYSA-N
WCW SMILES_CANONICAL CACTVS 3.385 "NC1(CCN(CC1)c2ccccc2)C(O)=O"
WCW SMILES CACTVS 3.385 "NC1(CCN(CC1)c2ccccc2)C(O)=O"
WCW SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)N2CCC(CC2)(C(=O)O)N"
WCW SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)N2CCC(CC2)(C(=O)O)N"
#
_pdbx_chem_comp_identifier.comp_id WCW
_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 "4-azanyl-1-phenyl-piperidine-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
WCW 'Create component' 2023-05-12 PDBE
WCW 'Initial release' 2024-05-08 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
WCW N1 N 3.874 3.326 1
WCW C1 C 5.023 2.362 2
WCW C2 C 5.773 3.661 3
WCW O1 O 7.273 3.661 4
WCW O2 O 5.513 5.138 5
WCW C3 C 6.322 1.612 6
WCW C4 C 6.322 0.112 7
WCW N2 N 5.023 -0.638 8
WCW C5 C 5.023 -2.138 9
WCW C6 C 3.724 -2.888 10
WCW C7 C 3.724 -4.388 11
WCW C8 C 5.023 -5.138 12
WCW C9 C 6.322 -4.388 13
WCW C10 C 6.322 -2.888 14
WCW C11 C 3.724 0.112 15
WCW C12 C 3.724 1.612 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
WCW C9 C8 DOUBLE NONE 1
WCW C9 C10 SINGLE NONE 2
WCW C8 C7 SINGLE NONE 3
WCW C10 C5 DOUBLE NONE 4
WCW C7 C6 DOUBLE NONE 5
WCW C5 C6 SINGLE NONE 6
WCW C5 N2 SINGLE NONE 7
WCW C4 N2 SINGLE NONE 8
WCW C4 C3 SINGLE NONE 9
WCW N2 C11 SINGLE NONE 10
WCW C3 C1 SINGLE NONE 11
WCW O1 C2 DOUBLE NONE 12
WCW C11 C12 SINGLE NONE 13
WCW C1 C2 SINGLE NONE 14
WCW C1 C12 SINGLE NONE 15
WCW C1 N1 SINGLE NONE 16
WCW C2 O2 SINGLE NONE 17
#
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
WCW MurckoScaffold S1 scaffold c1ccc(N2CCCCC2)cc1 InChI=1S/C11H15N/c1-3-7-11(8-4-1)12-9-5-2-6-10-12/h1,3-4,7-8H,2,5-6,9-10H2 LLSKXGRDUPMXLC-UHFFFAOYSA-N
WCW peptide F1 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 LYIIBVSRGJSHAV-UHFFFAOYSA-N
WCW 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
WCW C1 S1 1
WCW C3 S1 1
WCW C4 S1 1
WCW N2 S1 1
WCW C5 S1 1
WCW C6 S1 1
WCW C7 S1 1
WCW C8 S1 1
WCW C9 S1 1
WCW C10 S1 1
WCW C11 S1 1
WCW C12 S1 1
WCW O1 F1 1
WCW C2 F1 1
WCW C1 F1 1
WCW N1 F1 1
WCW C5 F2 1
WCW C10 F2 1
WCW C9 F2 1
WCW C8 F2 1
WCW C7 F2 1
WCW C6 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id WCW
_pdbe_chem_comp_rdkit_properties.exactmw 220.121
_pdbe_chem_comp_rdkit_properties.amw 220.272
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 32
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.417
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_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 117.353
_pdbe_chem_comp_rdkit_properties.tpsa 66.560
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.688
_pdbe_chem_comp_rdkit_properties.CrippenMR 61.619
_pdbe_chem_comp_rdkit_properties.chi0v 7.711
_pdbe_chem_comp_rdkit_properties.chi1v 4.053
_pdbe_chem_comp_rdkit_properties.chi2v 1.703
_pdbe_chem_comp_rdkit_properties.chi3v 1.703
_pdbe_chem_comp_rdkit_properties.chi4v 0.902
_pdbe_chem_comp_rdkit_properties.chi0n 23.711
_pdbe_chem_comp_rdkit_properties.chi1n 11.855
_pdbe_chem_comp_rdkit_properties.chi2n 1.703
_pdbe_chem_comp_rdkit_properties.chi3n 1.703
_pdbe_chem_comp_rdkit_properties.chi4n 0.902
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.550
_pdbe_chem_comp_rdkit_properties.kappa1 2.643
_pdbe_chem_comp_rdkit_properties.kappa2 4.136
_pdbe_chem_comp_rdkit_properties.kappa3 2.017
_pdbe_chem_comp_rdkit_properties.Phi 0.683
#
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
WCW UniChem ZINC ZINC000035630243
WCW UniChem SureChEMBL SCHEMBL4433783
WCW UniChem PubChem 22145262
WCW UniChem 'EPA CompTox Dashboard' DTXSID20622889
#
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
WCW N1 -3.316 0.853 -0.950 ETKDGv3 1
WCW C1 -2.493 0.044 -0.037 ETKDGv3 2
WCW C2 -3.418 -0.768 0.848 ETKDGv3 3
WCW O1 -2.997 -1.263 1.929 ETKDGv3 4
WCW O2 -4.723 -1.033 0.438 ETKDGv3 5
WCW C3 -1.603 0.990 0.833 ETKDGv3 6
WCW C4 -0.236 0.381 1.163 ETKDGv3 7
WCW N2 0.484 0.037 -0.074 ETKDGv3 8
WCW C5 1.928 0.052 -0.095 ETKDGv3 9
WCW C6 2.702 -0.316 1.122 ETKDGv3 10
WCW C7 4.041 -0.296 1.108 ETKDGv3 11
WCW C8 4.762 0.092 -0.120 ETKDGv3 12
WCW C9 4.078 0.423 -1.220 ETKDGv3 13
WCW C10 2.601 0.403 -1.210 ETKDGv3 14
WCW C11 -0.276 -0.365 -1.270 ETKDGv3 15
WCW C12 -1.638 -0.949 -0.877 ETKDGv3 16
WCW H1 -3.860 1.555 -0.396 ETKDGv3 17
WCW H2 -2.698 1.389 -1.602 ETKDGv3 18
WCW H4 -5.343 -1.595 1.010 ETKDGv3 19
WCW H5 -1.413 1.941 0.288 ETKDGv3 20
WCW H6 -2.122 1.273 1.776 ETKDGv3 21
WCW H7 -0.360 -0.530 1.786 ETKDGv3 22
WCW H8 0.345 1.129 1.746 ETKDGv3 23
WCW H9 2.189 -0.617 2.026 ETKDGv3 24
WCW H10 4.598 -0.569 1.994 ETKDGv3 25
WCW H11 5.844 0.107 -0.127 ETKDGv3 26
WCW H12 4.605 0.708 -2.122 ETKDGv3 27
WCW H13 2.074 0.693 -2.109 ETKDGv3 28
WCW H14 -0.412 0.513 -1.936 ETKDGv3 29
WCW H15 0.285 -1.146 -1.829 ETKDGv3 30
WCW H16 -1.441 -1.881 -0.299 ETKDGv3 31
WCW H17 -2.188 -1.254 -1.795 ETKDGv3 32
#