data_LW6
#
_chem_comp.id LW6
_chem_comp.name 1H-indole-4-carbaldehyde
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C9 H7 N O"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-08-15
_chem_comp.pdbx_modified_date 2023-11-03
_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 145.158
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code LW6
_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 7GCY
_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
LW6 N1 N1 N 0 1 Y N N N N N 5.034 -4.106 24.272 -2.277 0.715 -0.003 N1 LW6 1
LW6 C4 C1 C 0 1 N N N N N N 7.139 -4.224 20.009 2.424 0.191 -0.000 C4 LW6 2
LW6 C5 C2 C 0 1 Y N N N N N 6.999 -3.591 21.350 1.104 -0.446 -0.001 C5 LW6 3
LW6 C6 C3 C 0 1 Y N N N N N 7.672 -2.397 21.615 0.993 -1.838 -0.001 C6 LW6 4
LW6 C7 C4 C 0 1 Y N N N N N 7.427 -1.687 22.783 -0.253 -2.436 -0.001 C7 LW6 5
LW6 C8 C5 C 0 1 Y N N N N N 6.514 -2.151 23.719 -1.405 -1.673 0.003 C8 LW6 6
LW6 C10 C6 C 0 1 Y N N N N N 4.760 -5.295 23.645 -1.643 1.925 0.001 C10 LW6 7
LW6 C9 C7 C 0 1 Y N N N N N 5.873 -3.362 23.477 -1.328 -0.286 0.001 C9 LW6 8
LW6 C12 C8 C 0 1 Y N N N N N 6.103 -4.107 22.302 -0.070 0.342 0.000 C12 LW6 9
LW6 C11 C9 C 0 1 Y N N N N N 5.390 -5.345 22.446 -0.311 1.736 0.001 C11 LW6 10
LW6 O1 O1 O 0 1 N N N N N N 6.321 -4.956 19.517 2.513 1.401 0.000 O1 LW6 11
LW6 H1 H1 H 0 1 N N N N N N 4.680 -3.826 25.164 -3.238 0.581 -0.003 H1 LW6 12
LW6 H2 H2 H 0 1 N N N N N N 8.033 -4.012 19.441 3.317 -0.416 -0.000 H2 LW6 13
LW6 H3 H3 H 0 1 N N N N N N 8.392 -2.021 20.903 1.883 -2.449 -0.002 H3 LW6 14
LW6 H4 H4 H 0 1 N N N N N N 7.954 -0.762 22.965 -0.327 -3.513 -0.002 H4 LW6 15
LW6 H5 H5 H 0 1 N N N N N N 6.306 -1.585 24.615 -2.370 -2.158 0.003 H5 LW6 16
LW6 H6 H6 H 0 1 N N N N N N 4.134 -6.077 24.048 -2.136 2.886 0.003 H6 LW6 17
LW6 H7 H7 H 0 1 N N N N N N 5.361 -6.159 21.736 0.441 2.512 0.001 H7 LW6 18
#
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
LW6 O1 C4 DOUB N N 1
LW6 C4 C5 SING N N 2
LW6 C5 C6 DOUB Y N 3
LW6 C5 C12 SING Y N 4
LW6 C6 C7 SING Y N 5
LW6 C12 C11 SING Y N 6
LW6 C12 C9 DOUB Y N 7
LW6 C11 C10 DOUB Y N 8
LW6 C7 C8 DOUB Y N 9
LW6 C9 C8 SING Y N 10
LW6 C9 N1 SING Y N 11
LW6 C10 N1 SING Y N 12
LW6 N1 H1 SING N N 13
LW6 C4 H2 SING N N 14
LW6 C6 H3 SING N N 15
LW6 C7 H4 SING N N 16
LW6 C8 H5 SING N N 17
LW6 C10 H6 SING N N 18
LW6 C11 H7 SING N N 19
#
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
LW6 SMILES ACDLabs 12.01 O=Cc1cccc2[NH]ccc12
LW6 InChI InChI 1.06 InChI=1S/C9H7NO/c11-6-7-2-1-3-9-8(7)4-5-10-9/h1-6,10H
LW6 InChIKey InChI 1.06 JFDDFGLNZWNJTK-UHFFFAOYSA-N
LW6 SMILES_CANONICAL CACTVS 3.385 O=Cc1cccc2[nH]ccc12
LW6 SMILES CACTVS 3.385 O=Cc1cccc2[nH]ccc12
LW6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1cc(c2cc[nH]c2c1)C=O
LW6 SMILES "OpenEye OEToolkits" 2.0.7 c1cc(c2cc[nH]c2c1)C=O
#
loop_
_pdbx_chem_comp_identifier.comp_id
_pdbx_chem_comp_identifier.type
_pdbx_chem_comp_identifier.program
_pdbx_chem_comp_identifier.program_version
_pdbx_chem_comp_identifier.identifier
LW6 "SYSTEMATIC NAME" ACDLabs 12.01 1H-indole-4-carbaldehyde
LW6 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 1~{H}-indole-4-carbaldehyde
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
LW6 'Create component' 2023-08-15 RCSB
LW6 'Initial release' 2023-11-08 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
LW6 N1 N 7.018 -2.037 1
LW6 C4 C 4.299 2.171 2
LW6 C5 C 4.299 0.670 3
LW6 C6 C 3.000 -0.080 4
LW6 C7 C 3.000 -1.579 5
LW6 C8 C 4.299 -2.329 6
LW6 C10 C 7.893 -0.830 7
LW6 C9 C 5.598 -1.579 8
LW6 C12 C 5.598 -0.080 9
LW6 C11 C 7.018 0.378 10
LW6 O1 O 3.000 2.921 11
#
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
LW6 O1 C4 DOUBLE NONE 1
LW6 C4 C5 SINGLE NONE 2
LW6 C5 C6 DOUBLE NONE 3
LW6 C5 C12 SINGLE NONE 4
LW6 C6 C7 SINGLE NONE 5
LW6 C12 C11 SINGLE NONE 6
LW6 C12 C9 DOUBLE NONE 7
LW6 C11 C10 DOUBLE NONE 8
LW6 C7 C8 DOUBLE NONE 9
LW6 C9 C8 SINGLE NONE 10
LW6 C9 N1 SINGLE NONE 11
LW6 C10 N1 SINGLE NONE 12
#
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
LW6 MurckoScaffold S1 scaffold 'c1ccc2[nH]ccc2c1' InChI=1S/C8H7N/c1-2-4-8-7(3-1)5-6-9-8/h1-6,9H SIKJAQJRHWYJAI-UHFFFAOYSA-N
LW6 indole F1 fragment 'c1ccc2[nH]ccc2c1' InChI=1S/C8H7N/c1-2-4-8-7(3-1)5-6-9-8/h1-6,9H SIKJAQJRHWYJAI-UHFFFAOYSA-N
LW6 phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
LW6 pyrrole F3 fragment 'c1cc[nH]c1' InChI=1S/C4H5N/c1-2-4-5-3-1/h1-5H KAESVJOAVNADME-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
LW6 N1 S1 1
LW6 C5 S1 1
LW6 C6 S1 1
LW6 C7 S1 1
LW6 C8 S1 1
LW6 C10 S1 1
LW6 C9 S1 1
LW6 C12 S1 1
LW6 C11 S1 1
LW6 C9 F1 1
LW6 C12 F1 1
LW6 C11 F1 1
LW6 C10 F1 1
LW6 N1 F1 1
LW6 C5 F1 1
LW6 C6 F1 1
LW6 C7 F1 1
LW6 C8 F1 1
LW6 C5 F2 1
LW6 C6 F2 1
LW6 C7 F2 1
LW6 C8 F2 1
LW6 C9 F2 1
LW6 C12 F2 1
LW6 C10 F3 1
LW6 C11 F3 1
LW6 C12 F3 1
LW6 C9 F3 1
LW6 N1 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id LW6
_pdbe_chem_comp_rdkit_properties.exactmw 145.053
_pdbe_chem_comp_rdkit_properties.amw 145.161
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 1
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 1
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 11
_pdbe_chem_comp_rdkit_properties.NumAtoms 18
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 2
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_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 73.742
_pdbe_chem_comp_rdkit_properties.tpsa 32.860
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.497
_pdbe_chem_comp_rdkit_properties.CrippenMR 41.214
_pdbe_chem_comp_rdkit_properties.chi0v 5.355
_pdbe_chem_comp_rdkit_properties.chi1v 2.901
_pdbe_chem_comp_rdkit_properties.chi2v 1.306
_pdbe_chem_comp_rdkit_properties.chi3v 1.306
_pdbe_chem_comp_rdkit_properties.chi4v 0.818
_pdbe_chem_comp_rdkit_properties.chi0n 12.355
_pdbe_chem_comp_rdkit_properties.chi1n 6.349
_pdbe_chem_comp_rdkit_properties.chi2n 1.306
_pdbe_chem_comp_rdkit_properties.chi3n 1.306
_pdbe_chem_comp_rdkit_properties.chi4n 0.818
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.570
_pdbe_chem_comp_rdkit_properties.kappa1 2.206
_pdbe_chem_comp_rdkit_properties.kappa2 2.235
_pdbe_chem_comp_rdkit_properties.kappa3 0.835
_pdbe_chem_comp_rdkit_properties.Phi 0.448
#
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
LW6 UniChem PDBe LW6
LW6 UniChem ChEBI 143235
LW6 UniChem ZINC ZINC000001576624
LW6 UniChem eMolecules 525253
LW6 UniChem NMRShiftDB 70076208
LW6 UniChem ACTor 1074-86-8
LW6 UniChem Nikkaji J1.412.229J
LW6 UniChem MetaboLights MTBLC143235
LW6 UniChem ChemicalBook CB0217303
LW6 UniChem 'Probes And Drugs' PD020355
LW6 UniChem 'EPA CompTox Dashboard' DTXSID40318838
LW6 UniChem SureChEMBL SCHEMBL97761
LW6 UniChem 'PubChem TPHARMA' 16190411
LW6 UniChem PubChem 333703
LW6 UniChem Mcule MCULE-8062190168
#
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
LW6 N1 2.248 0.682 0.113 ETKDGv3 1
LW6 C4 -1.807 -1.921 0.041 ETKDGv3 2
LW6 C5 -1.194 -0.581 -0.039 ETKDGv3 3
LW6 C6 -1.940 0.535 -0.206 ETKDGv3 4
LW6 C7 -1.293 1.878 -0.285 ETKDGv3 5
LW6 C8 0.042 1.998 -0.190 ETKDGv3 6
LW6 C10 2.484 -0.717 0.267 ETKDGv3 7
LW6 C9 0.838 0.776 -0.008 ETKDGv3 8
LW6 C12 0.273 -0.415 0.062 ETKDGv3 9
LW6 C11 1.340 -1.398 0.242 ETKDGv3 10
LW6 O1 -3.054 -2.073 -0.043 ETKDGv3 11
LW6 H1 2.950 1.454 0.095 ETKDGv3 12
LW6 H2 -1.183 -2.794 0.176 ETKDGv3 13
LW6 H3 -3.018 0.476 -0.287 ETKDGv3 14
LW6 H4 -1.906 2.759 -0.419 ETKDGv3 15
LW6 H5 0.519 2.968 -0.245 ETKDGv3 16
LW6 H6 3.464 -1.158 0.388 ETKDGv3 17
LW6 H7 1.239 -2.471 0.338 ETKDGv3 18
#