data_JZ9
#
_chem_comp.id JZ9
_chem_comp.name 4,5,6,7-tetrahydro-1H-indole
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H11 N"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2009-06-16
_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 121.180
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code JZ9
_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 3HUA
_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
JZ9 CAA CAA C 0 1 Y N N N N N -21.840 24.949 -1.888 -2.431 -0.050 0.003 CAA JZ9 1
JZ9 CAB CAB C 0 1 Y N N N N N -21.561 26.195 -2.275 -1.640 -1.143 0.070 CAB JZ9 2
JZ9 CAC CAC C 0 1 N N N N N N -22.311 27.191 -5.828 2.120 -0.651 -0.379 CAC JZ9 3
JZ9 CAD CAD C 0 1 N N N N N N -23.483 26.205 -6.010 2.098 0.680 0.380 CAD JZ9 4
JZ9 CAE CAE C 0 1 N N N N N N -22.073 27.611 -4.367 0.949 -1.524 0.090 CAE JZ9 5
JZ9 CAF CAF C 0 1 N N N N N N -23.461 24.945 -5.126 0.903 1.517 -0.090 CAF JZ9 6
JZ9 NAG NAG N 0 1 Y N N N N N -22.546 24.323 -2.830 -1.631 1.054 -0.066 NAG JZ9 7
JZ9 CAH CAH C 0 1 Y N N N N N -22.101 26.371 -3.475 -0.310 -0.697 0.042 CAH JZ9 8
JZ9 CAI CAI C 0 1 Y N N N N N -22.723 25.187 -3.819 -0.333 0.653 -0.040 CAI JZ9 9
JZ9 HAA HAA H 0 1 N N N N N N -21.538 24.511 -0.948 -3.511 -0.050 -0.001 HAA JZ9 10
JZ9 HAB HAB H 0 1 N N N N N N -20.998 26.927 -1.714 -1.969 -2.169 0.134 HAB JZ9 11
JZ9 HAC HAC H 0 1 N N N N N N -21.396 26.704 -6.196 2.027 -0.462 -1.448 HAC JZ9 12
JZ9 HACA HACA H 0 0 N N N N N N -22.534 28.097 -6.411 3.059 -1.167 -0.180 HACA JZ9 13
JZ9 HAD HAD H 0 1 N N N N N N -24.408 26.752 -5.775 2.010 0.487 1.449 HAD JZ9 14
JZ9 HADA HADA H 0 0 N N N N N N -23.466 25.869 -7.057 3.022 1.224 0.184 HADA JZ9 15
JZ9 HAE HAE H 0 1 N N N N N N -21.093 28.104 -4.281 0.847 -2.386 -0.569 HAE JZ9 16
JZ9 HAEA HAEA H 0 0 N N N N N N -22.863 28.309 -4.052 1.128 -1.861 1.111 HAEA JZ9 17
JZ9 HAF HAF H 0 1 N N N N N N -24.497 24.656 -4.898 0.776 2.377 0.567 HAF JZ9 18
JZ9 HAFA HAFA H 0 0 N N N N N N -22.953 24.138 -5.674 1.072 1.857 -1.112 HAFA JZ9 19
JZ9 HNAG HNAG H 0 0 N N N N N N -22.879 23.381 -2.797 -1.938 1.973 -0.124 HNAG JZ9 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
JZ9 CAA CAB DOUB Y N 1
JZ9 CAA NAG SING Y N 2
JZ9 CAB CAH SING Y N 3
JZ9 CAC CAD SING N N 4
JZ9 CAC CAE SING N N 5
JZ9 CAD CAF SING N N 6
JZ9 CAE CAH SING N N 7
JZ9 CAF CAI SING N N 8
JZ9 NAG CAI SING Y N 9
JZ9 CAH CAI DOUB Y N 10
JZ9 CAA HAA SING N N 11
JZ9 CAB HAB SING N N 12
JZ9 CAC HAC SING N N 13
JZ9 CAC HACA SING N N 14
JZ9 CAD HAD SING N N 15
JZ9 CAD HADA SING N N 16
JZ9 CAE HAE SING N N 17
JZ9 CAE HAEA SING N N 18
JZ9 CAF HAF SING N N 19
JZ9 CAF HAFA SING N N 20
JZ9 NAG HNAG 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
JZ9 SMILES_CANONICAL CACTVS 3.352 C1CCc2cc[nH]c2C1
JZ9 SMILES CACTVS 3.352 C1CCc2cc[nH]c2C1
JZ9 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 c1c[nH]c2c1CCCC2
JZ9 SMILES "OpenEye OEToolkits" 1.7.0 c1c[nH]c2c1CCCC2
JZ9 InChI InChI 1.03 InChI=1S/C8H11N/c1-2-4-8-7(3-1)5-6-9-8/h5-6,9H,1-4H2
JZ9 InChIKey InChI 1.03 KQBVVLOYXDVATK-UHFFFAOYSA-N
#
_pdbx_chem_comp_identifier.comp_id JZ9
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 1.6.1
_pdbx_chem_comp_identifier.identifier 4,5,6,7-tetrahydro-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
JZ9 'Create component' 2009-06-16 RCSB
JZ9 'Modify aromatic_flag' 2011-06-04 RCSB
JZ9 'Modify descriptor' 2011-06-04 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
JZ9 CAA C 7.893 0.295 1
JZ9 CAB C 7.018 -0.912 2
JZ9 CAC C 3.000 -0.455 3
JZ9 CAD C 3.000 1.046 4
JZ9 CAE C 4.299 -1.204 5
JZ9 CAF C 4.299 1.796 6
JZ9 NAG N 7.018 1.503 7
JZ9 CAH C 5.598 -0.455 8
JZ9 CAI 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
JZ9 CAA CAB DOUBLE NONE 1
JZ9 CAA NAG SINGLE NONE 2
JZ9 CAB CAH SINGLE NONE 3
JZ9 CAC CAD SINGLE NONE 4
JZ9 CAC CAE SINGLE NONE 5
JZ9 CAD CAF SINGLE NONE 6
JZ9 CAE CAH SINGLE NONE 7
JZ9 CAF CAI SINGLE NONE 8
JZ9 NAG CAI SINGLE NONE 9
JZ9 CAH CAI DOUBLE 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
JZ9 MurckoScaffold S1 scaffold 'c1cc2c([nH]1)CCCC2' InChI=1S/C8H11N/c1-2-4-8-7(3-1)5-6-9-8/h5-6,9H,1-4H2 KQBVVLOYXDVATK-UHFFFAOYSA-N
JZ9 pyrrole F1 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
JZ9 CAA S1 1
JZ9 CAB S1 1
JZ9 CAC S1 1
JZ9 CAD S1 1
JZ9 CAE S1 1
JZ9 CAF S1 1
JZ9 NAG S1 1
JZ9 CAH S1 1
JZ9 CAI S1 1
JZ9 CAA F1 1
JZ9 CAB F1 1
JZ9 CAH F1 1
JZ9 CAI F1 1
JZ9 NAG F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id JZ9
_pdbe_chem_comp_rdkit_properties.exactmw 121.089
_pdbe_chem_comp_rdkit_properties.amw 121.183
_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 20
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 1
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.500
_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 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 70.607
_pdbe_chem_comp_rdkit_properties.tpsa 15.790
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.784
_pdbe_chem_comp_rdkit_properties.CrippenMR 36.903
_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 15.447
_pdbe_chem_comp_rdkit_properties.chi1n 7.894
_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 -0.720
_pdbe_chem_comp_rdkit_properties.kappa1 1.067
_pdbe_chem_comp_rdkit_properties.kappa2 1.904
_pdbe_chem_comp_rdkit_properties.kappa3 0.766
_pdbe_chem_comp_rdkit_properties.Phi 0.226
#
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
JZ9 UniChem PDBe JZ9
JZ9 UniChem ZINC ZINC000004521854
JZ9 UniChem eMolecules 497659
JZ9 UniChem 'PubChem TPHARMA' 15119855
JZ9 UniChem PubChem 97429
JZ9 UniChem NMRShiftDB 20032302
JZ9 UniChem ACTor 13618-91-2
JZ9 UniChem Nikkaji J407.033J
JZ9 UniChem 'EPA CompTox Dashboard' DTXSID80159727
JZ9 UniChem ChemicalBook CB2675488
JZ9 UniChem SureChEMBL SCHEMBL13511
#
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
JZ9 CAA 2.701 -0.645 -0.137 ETKDGv3 1
JZ9 CAB 2.234 0.589 0.019 ETKDGv3 2
JZ9 CAC -1.632 1.148 -0.167 ETKDGv3 3
JZ9 CAD -1.949 -0.266 0.357 ETKDGv3 4
JZ9 CAE -0.217 1.593 0.248 ETKDGv3 5
JZ9 CAF -0.948 -1.301 -0.191 ETKDGv3 6
JZ9 NAG 1.631 -1.580 -0.229 ETKDGv3 7
JZ9 CAH 0.777 0.492 0.020 ETKDGv3 8
JZ9 CAI 0.460 -0.789 -0.095 ETKDGv3 9
JZ9 HAA 3.749 -0.911 -0.183 ETKDGv3 10
JZ9 HAB 2.829 1.487 0.123 ETKDGv3 11
JZ9 HAC -2.377 1.868 0.235 ETKDGv3 12
JZ9 HACA -1.712 1.155 -1.276 ETKDGv3 13
JZ9 HAD -1.908 -0.263 1.468 ETKDGv3 14
JZ9 HADA -2.978 -0.553 0.052 ETKDGv3 15
JZ9 HAE 0.079 2.491 -0.335 ETKDGv3 16
JZ9 HAEA -0.214 1.856 1.327 ETKDGv3 17
JZ9 HAF -1.040 -2.249 0.381 ETKDGv3 18
JZ9 HAFA -1.177 -1.509 -1.258 ETKDGv3 19
JZ9 HNAG 1.695 -2.613 -0.361 ETKDGv3 20
#