data_38U
#
_chem_comp.id 38U
_chem_comp.name "3-methyl-1H-indene-2-carboxylic acid"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C11 H10 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2014-07-09
_chem_comp.pdbx_modified_date 2014-07-18
_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 174.196
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 38U
_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 4QLU
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
#
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
38U C59 C59 C 0 1 N N N N N N 11.405 -139.231 23.743 -0.910 2.289 -0.004 C59 38U 1
38U C58 C58 C 0 1 N N N N N N 11.451 -137.724 23.877 -0.394 0.873 -0.003 C58 38U 2
38U C57 C57 C 0 1 Y N N N N N 11.911 -137.090 24.947 1.027 0.503 -0.002 C57 38U 3
38U C56 C56 C 0 1 Y N N N N N 12.334 -137.508 26.125 2.193 1.280 0.001 C56 38U 4
38U C55 C55 C 0 1 Y N N N N N 12.767 -136.665 27.108 3.427 0.666 0.002 C55 38U 5
38U C54 C54 C 0 1 Y N N N N N 12.740 -135.333 26.847 3.521 -0.715 0.002 C54 38U 6
38U C53 C53 C 0 1 Y N N N N N 12.260 -134.948 25.627 2.374 -1.492 0.001 C53 38U 7
38U C52 C52 C 0 1 Y N N N N N 11.857 -135.808 24.709 1.137 -0.891 -0.002 C52 38U 8
38U C51 C51 C 0 1 N N N N N N 11.346 -135.622 23.441 -0.271 -1.436 -0.004 C51 38U 9
38U C50 C50 C 0 1 N N N N N N 11.091 -136.865 22.955 -1.173 -0.224 0.001 C50 38U 10
38U C2 C2 C 0 1 N N N N N N 10.568 -137.145 21.765 -2.635 -0.240 0.002 C2 38U 11
38U O3 O3 O 0 1 N N N N N N 10.452 -138.285 21.398 -3.255 0.806 0.006 O3 38U 12
38U H4 H4 H 0 1 N N N N N N 11.767 -139.694 24.673 -1.033 2.631 -1.032 H4 38U 13
38U H5 H5 H 0 1 N N N N N N 10.370 -139.551 23.553 -1.871 2.326 0.508 H5 38U 14
38U H6 H6 H 0 1 N N N N N N 12.045 -139.544 22.905 -0.198 2.935 0.511 H6 38U 15
38U H7 H7 H 0 1 N N N N N N 12.338 -138.570 26.321 2.125 2.358 0.000 H7 38U 16
38U H8 H8 H 0 1 N N N N N N 13.118 -137.043 28.057 4.325 1.266 0.004 H8 38U 17
38U H9 H9 H 0 1 N N N N N N 13.083 -134.609 27.572 4.492 -1.189 0.004 H9 38U 18
38U H10 H10 H 0 1 N N N N N N 12.208 -133.893 25.403 2.452 -2.569 0.001 H10 38U 19
38U H11 H11 H 0 1 N N N N N N 12.080 -135.106 22.805 -0.442 -2.034 -0.898 H11 38U 20
38U H12 H12 H 0 1 N N N N N N 10.419 -135.031 23.485 -0.444 -2.036 0.890 H12 38U 21
38U OXT OXT O 0 1 N Y N N N N ? ? ? -3.297 -1.416 -0.002 OXT 38U 22
38U HXT HXT H 0 1 N Y N N N N ? ? ? -4.259 -1.326 -0.001 HXT 38U 23
#
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
38U O3 C2 DOUB N N 1
38U C2 C50 SING N N 2
38U C50 C51 SING N N 3
38U C50 C58 DOUB N N 4
38U C51 C52 SING N N 5
38U C59 C58 SING N N 6
38U C58 C57 SING N N 7
38U C52 C57 DOUB Y N 8
38U C52 C53 SING Y N 9
38U C57 C56 SING Y N 10
38U C53 C54 DOUB Y N 11
38U C56 C55 DOUB Y N 12
38U C54 C55 SING Y N 13
38U C59 H4 SING N N 14
38U C59 H5 SING N N 15
38U C59 H6 SING N N 16
38U C56 H7 SING N N 17
38U C55 H8 SING N N 18
38U C54 H9 SING N N 19
38U C53 H10 SING N N 20
38U C51 H11 SING N N 21
38U C51 H12 SING N N 22
38U C2 OXT SING N N 23
38U OXT HXT SING N N 24
#
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
38U SMILES ACDLabs 12.01 O=C(O)C2=C(c1ccccc1C2)C
38U InChI InChI 1.03 InChI=1S/C11H10O2/c1-7-9-5-3-2-4-8(9)6-10(7)11(12)13/h2-5H,6H2,1H3,(H,12,13)
38U InChIKey InChI 1.03 RONBYWGSEXDEKC-UHFFFAOYSA-N
38U SMILES_CANONICAL CACTVS 3.385 CC1=C(Cc2ccccc12)C(O)=O
38U SMILES CACTVS 3.385 CC1=C(Cc2ccccc12)C(O)=O
38U SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 CC1=C(Cc2c1cccc2)C(=O)O
38U SMILES "OpenEye OEToolkits" 1.7.6 CC1=C(Cc2c1cccc2)C(=O)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
38U "SYSTEMATIC NAME" ACDLabs 12.01 "3-methyl-1H-indene-2-carboxylic acid"
38U "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "3-methyl-1H-indene-2-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
38U 'Create component' 2014-07-09 PDBJ
38U 'Initial release' 2014-07-23 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
38U C59 C 7.483 2.066 1
38U C58 C 7.018 0.641 2
38U C57 C 5.598 0.184 3
38U C56 C 4.299 0.934 4
38U C55 C 3.000 0.184 5
38U C54 C 3.000 -1.316 6
38U C53 C 4.299 -2.066 7
38U C52 C 5.598 -1.316 8
38U C51 C 7.018 -1.774 9
38U C50 C 7.893 -0.566 10
38U C2 C 9.393 -0.566 11
38U O3 O 10.143 -1.865 12
38U OXT O 10.143 0.733 13
#
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
38U O3 C2 DOUBLE NONE 1
38U C2 C50 SINGLE NONE 2
38U C50 C51 SINGLE NONE 3
38U C50 C58 DOUBLE NONE 4
38U C51 C52 SINGLE NONE 5
38U C59 C58 SINGLE NONE 6
38U C58 C57 SINGLE NONE 7
38U C52 C57 DOUBLE NONE 8
38U C52 C53 SINGLE NONE 9
38U C57 C56 SINGLE NONE 10
38U C53 C54 DOUBLE NONE 11
38U C56 C55 DOUBLE NONE 12
38U C54 C55 SINGLE NONE 13
38U C2 OXT SINGLE NONE 14
#
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
38U MurckoScaffold S1 scaffold C1=Cc2ccccc2C1 InChI=1S/C9H8/c1-2-5-9-7-3-6-8(9)4-1/h1-6H,7H2 YBYIRNPNPLQARY-UHFFFAOYSA-N
38U phenyl F1 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
38U C58 S1 1
38U C57 S1 1
38U C56 S1 1
38U C55 S1 1
38U C54 S1 1
38U C53 S1 1
38U C52 S1 1
38U C51 S1 1
38U C50 S1 1
38U C57 F1 1
38U C52 F1 1
38U C53 F1 1
38U C54 F1 1
38U C55 F1 1
38U C56 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 38U
_pdbe_chem_comp_rdkit_properties.exactmw 174.068
_pdbe_chem_comp_rdkit_properties.amw 174.199
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_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 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 13
_pdbe_chem_comp_rdkit_properties.NumAtoms 23
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 2
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.182
_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 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_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 90.653
_pdbe_chem_comp_rdkit_properties.tpsa 37.300
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.991
_pdbe_chem_comp_rdkit_properties.CrippenMR 49.844
_pdbe_chem_comp_rdkit_properties.chi0v 6.316
_pdbe_chem_comp_rdkit_properties.chi1v 3.408
_pdbe_chem_comp_rdkit_properties.chi2v 1.642
_pdbe_chem_comp_rdkit_properties.chi3v 1.642
_pdbe_chem_comp_rdkit_properties.chi4v 1.059
_pdbe_chem_comp_rdkit_properties.chi0n 16.316
_pdbe_chem_comp_rdkit_properties.chi1n 8.316
_pdbe_chem_comp_rdkit_properties.chi2n 1.642
_pdbe_chem_comp_rdkit_properties.chi3n 1.642
_pdbe_chem_comp_rdkit_properties.chi4n 1.059
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.570
_pdbe_chem_comp_rdkit_properties.kappa1 2.471
_pdbe_chem_comp_rdkit_properties.kappa2 2.731
_pdbe_chem_comp_rdkit_properties.kappa3 1.146
_pdbe_chem_comp_rdkit_properties.Phi 0.519
#
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
38U UniChem PDBe 38U
38U UniChem ZINC ZINC000000406928
38U UniChem eMolecules 486706
38U UniChem fdasrs 8CUV9E9RQM
38U UniChem SureChEMBL SCHEMBL714287
38U UniChem ACTor 34225-81-5
38U UniChem 'EPA CompTox Dashboard' DTXSID20187807
38U UniChem ChemicalBook CB2319850
38U UniChem Nikkaji J267.274J
38U UniChem PubChem 118616
38U UniChem Mcule MCULE-3711440126
#
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
38U C59 1.119 1.054 2.002 ETKDGv3 1
38U C58 0.650 0.473 0.700 ETKDGv3 2
38U C57 -0.657 -0.124 0.460 ETKDGv3 3
38U C56 -1.798 -0.302 1.382 ETKDGv3 4
38U C55 -2.914 -0.890 0.918 ETKDGv3 5
38U C54 -2.990 -1.348 -0.496 ETKDGv3 6
38U C53 -1.943 -1.178 -1.321 ETKDGv3 7
38U C52 -0.727 -0.532 -0.796 ETKDGv3 8
38U C51 0.538 -0.246 -1.526 ETKDGv3 9
38U C50 1.351 0.407 -0.442 ETKDGv3 10
38U C2 2.728 0.892 -0.665 ETKDGv3 11
38U O3 3.387 1.436 0.261 ETKDGv3 12
38U H4 1.366 2.128 1.867 ETKDGv3 13
38U H5 0.334 0.975 2.781 ETKDGv3 14
38U H6 2.016 0.506 2.358 ETKDGv3 15
38U H7 -1.747 0.030 2.410 ETKDGv3 16
38U H8 -3.763 -1.032 1.574 ETKDGv3 17
38U H9 -3.894 -1.820 -0.859 ETKDGv3 18
38U H10 -1.991 -1.509 -2.350 ETKDGv3 19
38U H11 1.017 -1.188 -1.870 ETKDGv3 20
38U H12 0.358 0.456 -2.367 ETKDGv3 21
38U OXT 3.309 0.744 -1.921 ETKDGv3 22
38U HXT 4.252 1.068 -2.100 ETKDGv3 23
#