data_IND
#
_chem_comp.id IND
_chem_comp.name INDOLE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H7 N"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2011-06-04
_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 117.148
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code IND
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 185L
_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
IND N1 N1 N 0 1 Y N N N N N 28.556 7.358 3.183 -1.065 0.001 1.574 N1 IND 1
IND C2 C2 C 0 1 Y N N N N N 28.367 6.590 2.068 0.042 0.000 2.378 C2 IND 2
IND C3 C3 C 0 1 Y N N N N N 27.481 5.601 2.323 1.153 0.000 1.625 C3 IND 3
IND C4 C4 C 0 1 Y N N N N N 26.141 5.118 4.468 1.396 0.000 -0.996 C4 IND 4
IND C5 C5 C 0 1 Y N N N N N 26.002 5.525 5.765 0.685 0.000 -2.163 C5 IND 5
IND C6 C6 C 0 1 Y N N N N N 26.718 6.587 6.277 -0.702 0.000 -2.143 C6 IND 6
IND C7 C7 C 0 1 Y N N N N N 27.597 7.292 5.505 -1.387 0.001 -0.947 C7 IND 7
IND C8 C8 C 0 1 Y N N N N N 27.747 6.877 4.189 -0.683 -0.004 0.251 C8 IND 8
IND C9 C9 C 0 1 Y N N N N N 27.054 5.773 3.675 0.723 0.000 0.225 C9 IND 9
IND HN1 HN1 H 0 1 N N N N N N 29.191 8.153 3.252 -1.982 0.000 1.890 HN1 IND 10
IND H2 H2 H 0 1 N N N N N N 28.862 6.747 1.094 0.024 0.000 3.458 H2 IND 11
IND H3 H3 H 0 1 N N N N N N 27.176 4.830 1.594 2.172 0.000 1.984 H3 IND 12
IND H4 H4 H 0 1 N N N N N N 25.534 4.285 4.073 2.476 0.000 -1.020 H4 IND 13
IND H5 H5 H 0 1 N N N N N N 25.294 4.982 6.414 1.207 0.000 -3.109 H5 IND 14
IND H6 H6 H 0 1 N N N N N N 26.584 6.880 7.331 -1.250 0.000 -3.073 H6 IND 15
IND H7 H7 H 0 1 N N N N N N 28.154 8.148 5.920 -2.467 0.001 -0.942 H7 IND 16
#
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
IND N1 C2 SING Y N 1
IND N1 C8 SING Y N 2
IND N1 HN1 SING N N 3
IND C2 C3 DOUB Y N 4
IND C2 H2 SING N N 5
IND C3 C9 SING Y N 6
IND C3 H3 SING N N 7
IND C4 C5 DOUB Y N 8
IND C4 C9 SING Y N 9
IND C4 H4 SING N N 10
IND C5 C6 SING Y N 11
IND C5 H5 SING N N 12
IND C6 C7 DOUB Y N 13
IND C6 H6 SING N N 14
IND C7 C8 SING Y N 15
IND C7 H7 SING N N 16
IND C8 C9 DOUB Y N 17
#
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
IND SMILES ACDLabs 10.04 c1cccc2c1ccn2
IND SMILES_CANONICAL CACTVS 3.341 "[nH]1ccc2ccccc12"
IND SMILES CACTVS 3.341 "[nH]1ccc2ccccc12"
IND SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1ccc2c(c1)cc[nH]2
IND SMILES "OpenEye OEToolkits" 1.5.0 c1ccc2c(c1)cc[nH]2
IND InChI InChI 1.03 InChI=1S/C8H7N/c1-2-4-8-7(3-1)5-6-9-8/h1-6,9H
IND InChIKey InChI 1.03 SIKJAQJRHWYJAI-UHFFFAOYSA-N
#
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
IND "SYSTEMATIC NAME" ACDLabs 10.04 1H-indole
IND "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 1H-indole
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
IND 'Create component' 1999-07-08 RCSB
IND 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id IND
_pdbe_chem_comp_drugbank_details.drugbank_id DB04532
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Indole
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number 120-72-9
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_drugbank_classification.comp_id IND
_pdbe_chem_comp_drugbank_classification.drugbank_id DB04532
_pdbe_chem_comp_drugbank_classification.parent Indoles
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Indoles and derivatives'
_pdbe_chem_comp_drugbank_classification.superclass 'Organoheterocyclic compounds'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as indoles. These are compounds containing an indole moiety, which consists of pyrrole ring fused to benzene  to form 2,3-benzopyrrole.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
IND DB04532 Endolysin 'Enterobacteria phage T4' P00720 unknown 1
IND DB04532 'Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase' 'Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)' Q05603 unknown 2
#
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
IND N1 N 7.018 -0.912 1
IND C2 C 7.893 0.295 2
IND C3 C 7.018 1.503 3
IND C4 C 4.299 1.796 4
IND C5 C 3.000 1.046 5
IND C6 C 3.000 -0.455 6
IND C7 C 4.299 -1.204 7
IND C8 C 5.598 -0.455 8
IND C9 C 5.598 1.046 9
#
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
IND N1 C2 SINGLE NONE 1
IND N1 C8 SINGLE NONE 2
IND C2 C3 DOUBLE NONE 3
IND C3 C9 SINGLE NONE 4
IND C4 C5 SINGLE NONE 5
IND C4 C9 DOUBLE NONE 6
IND C5 C6 DOUBLE NONE 7
IND C6 C7 SINGLE NONE 8
IND C7 C8 DOUBLE NONE 9
IND C8 C9 SINGLE NONE 10
#
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
IND 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
IND 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
IND phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
IND 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
IND N1 S1 1
IND C2 S1 1
IND C3 S1 1
IND C4 S1 1
IND C5 S1 1
IND C6 S1 1
IND C7 S1 1
IND C8 S1 1
IND C9 S1 1
IND C8 F1 1
IND C9 F1 1
IND C3 F1 1
IND C2 F1 1
IND N1 F1 1
IND C4 F1 1
IND C5 F1 1
IND C6 F1 1
IND C7 F1 1
IND C4 F2 1
IND C5 F2 1
IND C6 F2 1
IND C7 F2 1
IND C8 F2 1
IND C9 F2 1
IND C2 F3 1
IND C3 F3 1
IND C9 F3 1
IND C8 F3 1
IND N1 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id IND
_pdbe_chem_comp_rdkit_properties.exactmw 117.058
_pdbe_chem_comp_rdkit_properties.amw 117.151
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 1
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 0
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 0
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 9
_pdbe_chem_comp_rdkit_properties.NumAtoms 16
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 1
_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 63.215
_pdbe_chem_comp_rdkit_properties.tpsa 15.790
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.739
_pdbe_chem_comp_rdkit_properties.CrippenMR 36.093
_pdbe_chem_comp_rdkit_properties.chi0v 4.447
_pdbe_chem_comp_rdkit_properties.chi1v 2.447
_pdbe_chem_comp_rdkit_properties.chi2v 1.016
_pdbe_chem_comp_rdkit_properties.chi3v 1.016
_pdbe_chem_comp_rdkit_properties.chi4v 0.620
_pdbe_chem_comp_rdkit_properties.chi0n 11.447
_pdbe_chem_comp_rdkit_properties.chi1n 5.894
_pdbe_chem_comp_rdkit_properties.chi2n 1.016
_pdbe_chem_comp_rdkit_properties.chi3n 1.016
_pdbe_chem_comp_rdkit_properties.chi4n 0.620
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.240
_pdbe_chem_comp_rdkit_properties.kappa1 1.428
_pdbe_chem_comp_rdkit_properties.kappa2 1.622
_pdbe_chem_comp_rdkit_properties.kappa3 0.617
_pdbe_chem_comp_rdkit_properties.Phi 0.257
#
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
IND UniChem ChEMBL CHEMBL15844
IND UniChem DrugBank DB04532
IND UniChem PDBe IND
IND UniChem 'KEGG LIGAND' C00463
IND UniChem ChEBI 16881
IND UniChem ZINC ZINC000014516984
IND UniChem fdasrs 8724FJW4M5
IND UniChem HMDB HMDB0000738
IND UniChem NMRShiftDB 10006007
IND UniChem ACTor 2584-75-0
IND UniChem BindingDb 50094702
IND UniChem 'EPA CompTox Dashboard' DTXSID0020737
IND UniChem MetaboLights MTBLC16881
IND UniChem BRENDA 472
IND UniChem BRENDA 49126
IND UniChem Rhea 16881
IND UniChem ChemicalBook CB8275772
IND UniChem rxnorm INDOLE
IND UniChem MedChemExpress HY-W001132
IND UniChem 'Probes And Drugs' PD014419
IND UniChem Nikkaji J2.920C
IND UniChem eMolecules 493363
IND UniChem SureChEMBL SCHEMBL698
IND UniChem 'PubChem TPHARMA' 15119819
IND UniChem PubChem 798
IND UniChem Mcule MCULE-9442796928
#
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
IND N1 -1.717 1.022 0.087 ETKDGv3 1
IND C2 -2.404 -0.237 0.062 ETKDGv3 2
IND C3 -1.566 -1.281 -0.000 ETKDGv3 3
IND C4 0.980 -1.350 -0.077 ETKDGv3 4
IND C5 2.188 -0.479 -0.081 ETKDGv3 5
IND C6 2.061 0.867 -0.029 ETKDGv3 6
IND C7 0.713 1.495 0.033 ETKDGv3 7
IND C8 -0.344 0.680 0.035 ETKDGv3 8
IND C9 -0.210 -0.749 -0.021 ETKDGv3 9
IND HN1 -2.139 1.976 0.134 ETKDGv3 10
IND H2 -3.481 -0.328 0.090 ETKDGv3 11
IND H3 -1.855 -2.323 -0.029 ETKDGv3 12
IND H4 1.064 -2.428 -0.119 ETKDGv3 13
IND H5 3.171 -0.929 -0.126 ETKDGv3 14
IND H6 2.944 1.494 -0.032 ETKDGv3 15
IND H7 0.595 2.570 0.075 ETKDGv3 16
#