data_4IJ
#
_chem_comp.id 4IJ
_chem_comp.name "5-chloropyridin-3-yl 2,3-dihydro-1H-indole-4-carboxylate"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C14 H11 Cl N2 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2021-07-08
_chem_comp.pdbx_modified_date 2021-09-24
_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 274.702
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 4IJ
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 7RBZ
_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
4IJ C10 C1 C 0 1 Y N N N N N 4.294 29.594 24.912 3.553 2.058 0.972 C10 4IJ 1
4IJ C02 C2 C 0 1 N N N N N N 5.725 31.255 21.806 0.426 0.266 -0.073 C02 4IJ 2
4IJ C03 C3 C 0 1 Y N N N N N 5.622 30.347 23.028 1.849 0.559 0.194 C03 4IJ 3
4IJ C04 C4 C 0 1 Y N N N N N 6.649 29.457 23.390 2.824 -0.398 -0.088 C04 4IJ 4
4IJ C05 C5 C 0 1 Y N N N N N 6.499 28.652 24.531 4.160 -0.128 0.153 C05 4IJ 5
4IJ C07 C6 C 0 1 N N N N N N 8.709 28.247 23.734 4.157 -2.309 -0.712 C07 4IJ 6
4IJ C08 C7 C 0 1 N N N N N N 8.017 29.176 22.774 2.709 -1.794 -0.658 C08 4IJ 7
4IJ C09 C8 C 0 1 Y N N N N N 5.302 28.711 25.284 4.516 1.110 0.693 C09 4IJ 8
4IJ C11 C9 C 0 1 Y N N N N N 4.452 30.413 23.788 2.222 1.794 0.728 C11 4IJ 9
4IJ N06 N1 N 0 1 N N N N N N 7.711 27.812 24.702 4.974 -1.209 -0.193 N06 4IJ 10
4IJ O12 O1 O 0 1 N N N N N N 4.935 32.122 21.838 0.103 -0.809 -0.537 O12 4IJ 11
4IJ H101 H1 H 0 0 N N N N N N 3.385 29.648 25.493 3.844 3.011 1.389 H101 4IJ 12
4IJ H072 H4 H 0 0 N N N N N N 9.114 27.379 23.193 4.269 -3.193 -0.085 H072 4IJ 13
4IJ O1 O2 O 0 1 N Y N N N N ? ? ? -0.515 1.192 0.200 O1 4IJ 14
4IJ C2 C10 C 0 1 Y Y N N N N ? ? ? -1.792 0.900 -0.163 C2 4IJ 15
4IJ C3 C11 C 0 1 Y Y N N N N ? ? ? -2.351 1.478 -1.294 C3 4IJ 16
4IJ N1 N2 N 0 1 Y Y N N N N ? ? ? -3.589 1.198 -1.651 N1 4IJ 17
4IJ C5 C12 C 0 1 Y Y N N N N ? ? ? -4.340 0.366 -0.957 C5 4IJ 18
4IJ C6 C13 C 0 1 Y Y N N N N ? ? ? -3.853 -0.250 0.182 C6 4IJ 19
4IJ C7 C14 C 0 1 Y Y N N N N ? ? ? -2.554 0.014 0.590 C7 4IJ 20
4IJ CL1 CL1 CL 0 0 N Y N N N N ? ? ? -4.853 -1.343 1.087 CL1 4IJ 21
4IJ H1 H3 H 0 1 N N N N N N 9.527 28.774 24.246 4.439 -2.537 -1.740 H1 4IJ 22
4IJ H2 H2 H 0 1 N N N N N N 7.904 28.697 21.790 2.106 -2.424 -0.004 H2 4IJ 23
4IJ H3 H5 H 0 1 N N N N N N 8.588 30.110 22.664 2.279 -1.762 -1.659 H3 4IJ 24
4IJ H4 H6 H 0 1 N N N N N N 5.172 28.072 26.145 5.555 1.327 0.894 H4 4IJ 25
4IJ H5 H7 H 0 1 N N N N N N 3.666 31.099 23.507 1.471 2.539 0.948 H5 4IJ 26
4IJ H6 H8 H 0 1 N N N N N N 7.482 26.852 24.543 5.940 -1.228 -0.103 H6 4IJ 27
4IJ H7 H9 H 0 1 N Y N N N N ? ? ? -1.766 2.164 -1.888 H7 4IJ 28
4IJ H8 H10 H 0 1 N Y N N N N ? ? ? -5.350 0.162 -1.282 H8 4IJ 29
4IJ H9 H11 H 0 1 N Y N N N N ? ? ? -2.147 -0.452 1.475 H9 4IJ 30
#
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
4IJ C02 O12 DOUB N N 1
4IJ C02 C03 SING N N 2
4IJ C08 C04 SING N N 3
4IJ C08 C07 SING N N 4
4IJ C03 C04 DOUB Y N 5
4IJ C03 C11 SING Y N 6
4IJ C04 C05 SING Y N 7
4IJ C07 N06 SING N N 8
4IJ C11 C10 DOUB Y N 9
4IJ C05 N06 SING N N 10
4IJ C05 C09 DOUB Y N 11
4IJ C10 C09 SING Y N 12
4IJ C10 H101 SING N N 13
4IJ C07 H072 SING N N 14
4IJ C02 O1 SING N N 15
4IJ O1 C2 SING N N 16
4IJ C2 C3 SING Y N 17
4IJ C3 N1 DOUB Y N 18
4IJ N1 C5 SING Y N 19
4IJ C5 C6 DOUB Y N 20
4IJ C6 C7 SING Y N 21
4IJ C7 C2 DOUB Y N 22
4IJ C6 CL1 SING N N 23
4IJ C07 H1 SING N N 24
4IJ C08 H2 SING N N 25
4IJ C08 H3 SING N N 26
4IJ C09 H4 SING N N 27
4IJ C11 H5 SING N N 28
4IJ N06 H6 SING N N 29
4IJ C3 H7 SING N N 30
4IJ C5 H8 SING N N 31
4IJ C7 H9 SING N N 32
#
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
4IJ SMILES ACDLabs 12.01 Clc1cc(cnc1)OC(=O)c1cccc2NCCc12
4IJ InChI InChI 1.03 InChI=1S/C14H11ClN2O2/c15-9-6-10(8-16-7-9)19-14(18)12-2-1-3-13-11(12)4-5-17-13/h1-3,6-8,17H,4-5H2
4IJ InChIKey InChI 1.03 JROSKNTUYSPHGX-UHFFFAOYSA-N
4IJ SMILES_CANONICAL CACTVS 3.385 Clc1cncc(OC(=O)c2cccc3NCCc23)c1
4IJ SMILES CACTVS 3.385 Clc1cncc(OC(=O)c2cccc3NCCc23)c1
4IJ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 c1cc(c2c(c1)NCC2)C(=O)Oc3cc(cnc3)Cl
4IJ SMILES "OpenEye OEToolkits" 2.0.7 c1cc(c2c(c1)NCC2)C(=O)Oc3cc(cnc3)Cl
#
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
4IJ "SYSTEMATIC NAME" ACDLabs 12.01 "5-chloropyridin-3-yl 2,3-dihydro-1H-indole-4-carboxylate"
4IJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(5-chloranylpyridin-3-yl) 2,3-dihydro-1~{H}-indole-4-carboxylate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
4IJ 'Create component' 2021-07-08 RCSB
4IJ 'Initial release' 2021-09-29 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
4IJ C10 C 5.598 -3.829 1
4IJ C02 C 6.897 -0.080 2
4IJ C03 C 6.897 -1.579 3
4IJ C04 C 8.196 -2.329 4
4IJ C05 C 8.196 -3.829 5
4IJ C07 C 10.491 -3.079 6
4IJ C08 C 9.616 -1.872 7
4IJ C09 C 6.897 -4.580 8
4IJ C11 C 5.598 -2.329 9
4IJ N06 N 9.616 -4.287 10
4IJ O12 O 8.196 0.670 11
4IJ O1 O 5.598 0.670 12
4IJ C2 C 5.598 2.171 13
4IJ C3 C 6.897 2.921 14
4IJ N1 N 6.897 4.420 15
4IJ C5 C 5.598 5.170 16
4IJ C6 C 4.299 4.420 17
4IJ C7 C 4.299 2.921 18
4IJ CL1 Cl 3.000 5.170 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
4IJ C02 O12 DOUBLE NONE 1
4IJ C02 C03 SINGLE NONE 2
4IJ C08 C04 SINGLE NONE 3
4IJ C08 C07 SINGLE NONE 4
4IJ C03 C04 DOUBLE NONE 5
4IJ C03 C11 SINGLE NONE 6
4IJ C04 C05 SINGLE NONE 7
4IJ C07 N06 SINGLE NONE 8
4IJ C11 C10 DOUBLE NONE 9
4IJ C05 N06 SINGLE NONE 10
4IJ C05 C09 DOUBLE NONE 11
4IJ C10 C09 SINGLE NONE 12
4IJ C02 O1 SINGLE NONE 13
4IJ O1 C2 SINGLE NONE 14
4IJ C2 C3 DOUBLE NONE 15
4IJ C3 N1 SINGLE NONE 16
4IJ N1 C5 DOUBLE NONE 17
4IJ C5 C6 SINGLE NONE 18
4IJ C6 C7 DOUBLE NONE 19
4IJ C7 C2 SINGLE NONE 20
4IJ C6 CL1 SINGLE 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
4IJ MurckoScaffold S1 scaffold O=C(Oc1cccnc1)c1cccc2c1CCN2 InChI=1S/C14H12N2O2/c17-14(18-10-3-2-7-15-9-10)12-4-1-5-13-11(12)6-8-16-13/h1-5,7,9,16H,6,8H2 QTVNCGMFFCWVHQ-UHFFFAOYSA-N
4IJ phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
4IJ pyridine F2 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-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
4IJ C10 S1 1
4IJ C02 S1 1
4IJ C03 S1 1
4IJ C04 S1 1
4IJ C05 S1 1
4IJ C07 S1 1
4IJ C08 S1 1
4IJ C09 S1 1
4IJ C11 S1 1
4IJ N06 S1 1
4IJ O12 S1 1
4IJ O1 S1 1
4IJ C2 S1 1
4IJ C3 S1 1
4IJ N1 S1 1
4IJ C5 S1 1
4IJ C6 S1 1
4IJ C7 S1 1
4IJ C10 F1 1
4IJ C11 F1 1
4IJ C03 F1 1
4IJ C04 F1 1
4IJ C05 F1 1
4IJ C09 F1 1
4IJ O1 F2 1
4IJ H072 F2 1
4IJ C5 F2 1
4IJ N1 F2 1
4IJ C3 F2 1
4IJ C2 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 4IJ
_pdbe_chem_comp_rdkit_properties.exactmw 274.051
_pdbe_chem_comp_rdkit_properties.amw 274.707
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 30
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.143
_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 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_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 130.438
_pdbe_chem_comp_rdkit_properties.tpsa 51.220
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.970
_pdbe_chem_comp_rdkit_properties.CrippenMR 70.875
_pdbe_chem_comp_rdkit_properties.chi0v 9.845
_pdbe_chem_comp_rdkit_properties.chi1v 5.324
_pdbe_chem_comp_rdkit_properties.chi2v 2.316
_pdbe_chem_comp_rdkit_properties.chi3v 2.316
_pdbe_chem_comp_rdkit_properties.chi4v 1.498
_pdbe_chem_comp_rdkit_properties.chi0n 20.089
_pdbe_chem_comp_rdkit_properties.chi1n 10.393
_pdbe_chem_comp_rdkit_properties.chi2n 2.137
_pdbe_chem_comp_rdkit_properties.chi3n 2.137
_pdbe_chem_comp_rdkit_properties.chi4n 1.370
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.070
_pdbe_chem_comp_rdkit_properties.kappa1 4.796
_pdbe_chem_comp_rdkit_properties.kappa2 4.896
_pdbe_chem_comp_rdkit_properties.kappa3 2.394
_pdbe_chem_comp_rdkit_properties.Phi 1.236
#
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
4IJ UniChem ChEMBL CHEMBL4874639
4IJ UniChem PDBe 4IJ
4IJ UniChem BindingDb 496871
#
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
4IJ C10 -2.837 -2.615 -0.853 ETKDGv3 1
4IJ C02 0.596 -1.063 -0.285 ETKDGv3 2
4IJ C03 -0.880 -1.209 -0.298 ETKDGv3 3
4IJ C04 -1.718 -0.248 0.146 ETKDGv3 4
4IJ C05 -3.146 -0.424 0.111 ETKDGv3 5
4IJ C07 -2.825 1.709 1.016 ETKDGv3 6
4IJ C08 -1.427 1.103 0.720 ETKDGv3 7
4IJ C09 -3.720 -1.534 -0.357 ETKDGv3 8
4IJ C11 -1.499 -2.464 -0.827 ETKDGv3 9
4IJ N06 -3.813 0.710 0.618 ETKDGv3 10
4IJ O12 1.315 -2.003 -0.720 ETKDGv3 11
4IJ H101 -3.273 -3.528 -1.238 ETKDGv3 12
4IJ H072 -2.979 2.641 0.430 ETKDGv3 13
4IJ O1 1.190 0.083 0.260 ETKDGv3 14
4IJ C2 2.521 0.478 0.063 ETKDGv3 15
4IJ C3 3.107 1.253 0.986 ETKDGv3 16
4IJ N1 4.470 1.680 0.819 ETKDGv3 17
4IJ C5 5.168 1.347 -0.228 ETKDGv3 18
4IJ C6 4.560 0.519 -1.287 ETKDGv3 19
4IJ C7 3.294 0.107 -1.151 ETKDGv3 20
4IJ CL1 5.484 0.104 -2.719 ETKDGv3 21
4IJ H1 -2.934 1.930 2.100 ETKDGv3 22
4IJ H2 -0.840 1.006 1.659 ETKDGv3 23
4IJ H3 -0.881 1.728 -0.020 ETKDGv3 24
4IJ H4 -4.796 -1.643 -0.375 ETKDGv3 25
4IJ H5 -0.873 -3.267 -1.197 ETKDGv3 26
4IJ H6 -4.848 0.823 0.693 ETKDGv3 27
4IJ H7 2.561 1.553 1.871 ETKDGv3 28
4IJ H8 6.191 1.686 -0.322 ETKDGv3 29
4IJ H9 2.832 -0.464 -1.945 ETKDGv3 30
#