data_78C
#
_chem_comp.id 78C
_chem_comp.name "CYCLOPENTYL 2-OXO-4-PHENYLAZETIDINE-1-CARBOXYLATE"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C15 H17 N O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2013-02-11
_chem_comp.pdbx_modified_date 2014-09-05
_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 259.300
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 78C
_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 3ZMH
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
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
78C O1 O1 O 0 1 N N N N N N -3.931 6.651 -44.370 -0.392 -2.810 -1.059 O1 78C 1
78C C2 C2 C 0 1 N N N N N N -3.002 6.338 -43.697 0.393 -2.197 -0.367 C2 78C 2
78C C3 C3 C 0 1 N N N N N N -2.598 6.359 -42.203 1.809 -2.415 0.107 C3 78C 3
78C C4 C4 C 0 1 N N S N N N -1.223 5.724 -42.606 1.736 -1.080 0.855 C4 78C 4
78C C11 C11 C 0 1 Y N N N N N -0.919 4.425 -41.959 2.659 -0.019 0.313 C11 78C 5
78C C12 C12 C 0 1 Y N N N N N -1.584 3.267 -42.384 3.863 0.237 0.942 C12 78C 6
78C C13 C13 C 0 1 Y N N N N N -1.317 2.048 -41.786 4.710 1.210 0.446 C13 78C 7
78C C14 C14 C 0 1 Y N N N N N -0.383 1.962 -40.760 4.353 1.927 -0.681 C14 78C 8
78C C15 C15 C 0 1 Y N N N N N 0.284 3.109 -40.335 3.149 1.671 -1.311 C15 78C 9
78C C16 C16 C 0 1 Y N N N N N 0.019 4.331 -40.932 2.305 0.695 -0.816 C16 78C 10
78C N1 N1 N 0 1 N N N N N N -1.758 5.745 -44.020 0.377 -1.024 0.303 N1 78C 11
78C C5 C5 C 0 1 N N N N N N -1.146 5.327 -45.206 -0.588 -0.092 0.426 C5 78C 12
78C O2 O2 O 0 1 N N N N N N -1.545 5.724 -46.292 -0.387 0.906 1.089 O2 78C 13
78C O3 O3 O 0 1 N N N N N N 0.053 4.707 -44.995 -1.774 -0.266 -0.185 O3 78C 14
78C C6 C6 C 0 1 N N N N N N 0.785 4.264 -46.118 -2.766 0.779 -0.008 C6 78C 15
78C C7 C7 C 0 1 N N N N N N 2.291 4.285 -45.784 -3.677 0.856 -1.246 C7 78C 16
78C C8 C8 C 0 1 N N N N N N 2.559 2.907 -45.135 -5.111 0.566 -0.757 C8 78C 17
78C C9 C9 C 0 1 N N N N N N 1.261 2.090 -45.247 -5.081 0.932 0.747 C9 78C 18
78C C10 C10 C 0 1 N N N N N N 0.454 2.795 -46.328 -3.679 0.444 1.190 C10 78C 19
78C H31C H31C H 0 0 N N N N N N -2.523 7.366 -41.766 1.914 -3.274 0.769 H31C 78C 20
78C H32C H32C H 0 0 N N N N N N -3.220 5.724 -41.555 2.539 -2.415 -0.702 H32C 78C 21
78C H4 H4 H 0 1 N N N N N N -0.407 6.449 -42.474 1.779 -1.174 1.940 H4 78C 22
78C H12 H12 H 0 1 N N N N N N -2.309 3.326 -43.183 4.142 -0.324 1.822 H12 78C 23
78C H16 H16 H 0 1 N N N N N N 0.542 5.216 -40.600 1.366 0.492 -1.310 H16 78C 24
78C H13 H13 H 0 1 N N N N N N -1.836 1.161 -42.117 5.650 1.410 0.938 H13 78C 25
78C H14 H14 H 0 1 N N N N N N -0.175 1.010 -40.294 5.014 2.688 -1.069 H14 78C 26
78C H15 H15 H 0 1 N N N N N N 1.010 3.045 -39.538 2.870 2.232 -2.190 H15 78C 27
78C H6 H6 H 0 1 N N N N N N 0.576 4.852 -47.024 -2.274 1.738 0.154 H6 78C 28
78C H71C H71C H 0 0 N N N N N N 2.891 4.408 -46.698 -3.627 1.853 -1.685 H71C 78C 29
78C H72C H72C H 0 0 N N N N N N 2.523 5.098 -45.081 -3.374 0.109 -1.980 H72C 78C 30
78C H101 H101 H 0 0 N N N N N N -0.623 2.612 -46.197 -3.689 -0.630 1.373 H101 78C 31
78C H102 H102 H 0 0 N N N N N N 0.763 2.462 -47.330 -3.352 0.981 2.080 H102 78C 32
78C H81C H81C H 0 0 N N N N N N 3.374 2.393 -45.665 -5.829 1.191 -1.288 H81C 78C 33
78C H82C H82C H 0 0 N N N N N N 2.833 3.036 -44.077 -5.352 -0.489 -0.889 H82C 78C 34
78C H91C H91C H 0 0 N N N N N N 1.480 1.053 -45.540 -5.177 2.009 0.885 H91C 78C 35
78C H92C H92C H 0 0 N N N N N N 0.716 2.094 -44.291 -5.864 0.401 1.289 H92C 78C 36
#
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
78C O1 C2 DOUB N N 1
78C C2 C3 SING N N 2
78C C2 N1 SING N N 3
78C C3 C4 SING N N 4
78C C4 C11 SING N N 5
78C C4 N1 SING N N 6
78C C11 C12 SING Y N 7
78C C11 C16 DOUB Y N 8
78C C12 C13 DOUB Y N 9
78C C13 C14 SING Y N 10
78C C14 C15 DOUB Y N 11
78C C15 C16 SING Y N 12
78C N1 C5 SING N N 13
78C C5 O2 DOUB N N 14
78C C5 O3 SING N N 15
78C O3 C6 SING N N 16
78C C6 C7 SING N N 17
78C C6 C10 SING N N 18
78C C7 C8 SING N N 19
78C C8 C9 SING N N 20
78C C9 C10 SING N N 21
78C C3 H31C SING N N 22
78C C3 H32C SING N N 23
78C C4 H4 SING N N 24
78C C12 H12 SING N N 25
78C C16 H16 SING N N 26
78C C13 H13 SING N N 27
78C C14 H14 SING N N 28
78C C15 H15 SING N N 29
78C C6 H6 SING N N 30
78C C7 H71C SING N N 31
78C C7 H72C SING N N 32
78C C10 H101 SING N N 33
78C C10 H102 SING N N 34
78C C8 H81C SING N N 35
78C C8 H82C SING N N 36
78C C9 H91C SING N N 37
78C C9 H92C SING N N 38
#
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
78C SMILES ACDLabs 12.01 O=C(OC1CCCC1)N3C(=O)CC3c2ccccc2
78C InChI InChI 1.03 InChI=1S/C15H17NO3/c17-14-10-13(11-6-2-1-3-7-11)16(14)15(18)19-12-8-4-5-9-12/h1-3,6-7,12-13H,4-5,8-10H2/t13-/m0/s1
78C InChIKey InChI 1.03 HXGULOODWVYRBT-ZDUSSCGKSA-N
78C SMILES_CANONICAL CACTVS 3.385 O=C1C[C@H](N1C(=O)OC2CCCC2)c3ccccc3
78C SMILES CACTVS 3.385 O=C1C[CH](N1C(=O)OC2CCCC2)c3ccccc3
78C SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 c1ccc(cc1)[C@@H]2CC(=O)N2C(=O)OC3CCCC3
78C SMILES "OpenEye OEToolkits" 1.9.2 c1ccc(cc1)C2CC(=O)N2C(=O)OC3CCCC3
#
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
78C "SYSTEMATIC NAME" ACDLabs 12.01 "cyclopentyl (4S)-2-oxo-4-phenylazetidine-1-carboxylate"
78C "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "cyclopentyl (4S)-2-oxidanylidene-4-phenyl-azetidine-1-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
78C 'Create component' 2013-02-11 EBI
78C 'Initial release' 2013-05-22 RCSB
78C 'Modify descriptor' 2014-09-05 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
78C O1 O 10.119 4.061 1
78C C2 C 10.119 2.561 2
78C C3 C 11.180 1.500 3
78C C4 C 10.119 0.439 4
78C C11 C 10.119 -1.061 5
78C C12 C 8.820 -1.811 6
78C C13 C 8.820 -3.311 7
78C C14 C 10.119 -4.061 8
78C C15 C 11.418 -3.311 9
78C C16 C 11.418 -1.811 10
78C N1 N 9.058 1.500 11
78C C5 C 7.558 1.500 12
78C O2 O 6.808 0.201 13
78C O3 O 6.808 2.799 14
78C C6 C 5.308 2.799 15
78C C7 C 4.427 4.013 16
78C C8 C 3.000 3.549 17
78C C9 C 3.000 2.049 18
78C C10 C 4.427 1.585 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
78C O1 C2 DOUBLE NONE 1
78C C2 C3 SINGLE NONE 2
78C C2 N1 SINGLE NONE 3
78C C3 C4 SINGLE NONE 4
78C C4 C11 SINGLE BEGINWEDGE 5
78C C4 N1 SINGLE NONE 6
78C C11 C12 DOUBLE NONE 7
78C C11 C16 SINGLE NONE 8
78C C12 C13 SINGLE NONE 9
78C C13 C14 DOUBLE NONE 10
78C C14 C15 SINGLE NONE 11
78C C15 C16 DOUBLE NONE 12
78C N1 C5 SINGLE NONE 13
78C C5 O2 DOUBLE NONE 14
78C C5 O3 SINGLE NONE 15
78C O3 C6 SINGLE NONE 16
78C C6 C7 SINGLE NONE 17
78C C6 C10 SINGLE NONE 18
78C C7 C8 SINGLE NONE 19
78C C8 C9 SINGLE NONE 20
78C C9 C10 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
78C MurckoScaffold S1 scaffold 'O=C1C[C@@H](c2ccccc2)N1C(=O)OC1CCCC1' InChI=1S/C15H17NO3/c17-14-10-13(11-6-2-1-3-7-11)16(14)15(18)19-12-8-4-5-9-12/h1-3,6-7,12-13H,4-5,8-10H2/t13-/m0/s1 HXGULOODWVYRBT-ZDUSSCGKSA-N
78C amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
78C cyclopentane F2 fragment C1CCCC1 InChI=1S/C5H10/c1-2-4-5-3-1/h1-5H2 RGSFGYAAUTVSQA-UHFFFAOYSA-N
78C phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
78C Z31478129 F4 fragment CCOC(=O)NCc1ccccc1 InChI=1S/C10H13NO2/c1-2-13-10(12)11-8-9-6-4-3-5-7-9/h3-7H,2,8H2,1H3,(H,11,12) XSXLCQLOFRENHC-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
78C O1 S1 1
78C C2 S1 1
78C C3 S1 1
78C C4 S1 1
78C C11 S1 1
78C C12 S1 1
78C C13 S1 1
78C C14 S1 1
78C C15 S1 1
78C C16 S1 1
78C N1 S1 1
78C C5 S1 1
78C O2 S1 1
78C O3 S1 1
78C C6 S1 1
78C C7 S1 1
78C C8 S1 1
78C C9 S1 1
78C C10 S1 1
78C N1 F1 1
78C C2 F1 1
78C O1 F1 1
78C C3 F1 1
78C C6 F2 1
78C C7 F2 1
78C C8 F2 1
78C C9 F2 1
78C C10 F2 1
78C C11 F3 1
78C C12 F3 1
78C C13 F3 1
78C C14 F3 1
78C C15 F3 1
78C C16 F3 1
78C C7 F4 1
78C C6 F4 1
78C O3 F4 1
78C C5 F4 1
78C O2 F4 1
78C N1 F4 1
78C C4 F4 1
78C C11 F4 1
78C C12 F4 1
78C C13 F4 1
78C C14 F4 1
78C C15 F4 1
78C C16 F4 1
78C C10 F4 2
78C C6 F4 2
78C O3 F4 2
78C C5 F4 2
78C O2 F4 2
78C N1 F4 2
78C C4 F4 2
78C C11 F4 2
78C C12 F4 2
78C C13 F4 2
78C C14 F4 2
78C C15 F4 2
78C C16 F4 2
#
_pdbe_chem_comp_rdkit_properties.comp_id 78C
_pdbe_chem_comp_rdkit_properties.exactmw 259.121
_pdbe_chem_comp_rdkit_properties.amw 259.305
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 0
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_pdbe_chem_comp_rdkit_properties.NumHBD 0
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 19
_pdbe_chem_comp_rdkit_properties.NumAtoms 36
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 2
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.467
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 2
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 2
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 1
_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 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 135.785
_pdbe_chem_comp_rdkit_properties.tpsa 46.610
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.984
_pdbe_chem_comp_rdkit_properties.CrippenMR 69.117
_pdbe_chem_comp_rdkit_properties.chi0v 9.172
_pdbe_chem_comp_rdkit_properties.chi1v 4.987
_pdbe_chem_comp_rdkit_properties.chi2v 2.175
_pdbe_chem_comp_rdkit_properties.chi3v 2.175
_pdbe_chem_comp_rdkit_properties.chi4v 1.370
_pdbe_chem_comp_rdkit_properties.chi0n 26.172
_pdbe_chem_comp_rdkit_properties.chi1n 13.487
_pdbe_chem_comp_rdkit_properties.chi2n 2.175
_pdbe_chem_comp_rdkit_properties.chi3n 2.175
_pdbe_chem_comp_rdkit_properties.chi4n 1.370
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.840
_pdbe_chem_comp_rdkit_properties.kappa1 3.427
_pdbe_chem_comp_rdkit_properties.kappa2 5.035
_pdbe_chem_comp_rdkit_properties.kappa3 2.346
_pdbe_chem_comp_rdkit_properties.Phi 0.908
#
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
78C UniChem PDBe 78C
78C UniChem ZINC ZINC000095920827
78C UniChem PubChem 71447315
#
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
78C O1 0.350 -1.853 -2.924 ETKDGv3 1
78C C2 -0.592 -1.164 -2.454 ETKDGv3 2
78C C3 -2.079 -1.143 -2.624 ETKDGv3 3
78C C4 -2.127 -0.036 -1.699 ETKDGv3 4
78C C11 -2.884 -0.334 -0.420 ETKDGv3 5
78C C12 -4.068 0.261 -0.187 ETKDGv3 6
78C C13 -4.824 -0.036 1.048 ETKDGv3 7
78C C14 -4.340 -0.909 1.939 ETKDGv3 8
78C C15 -3.050 -1.581 1.688 ETKDGv3 9
78C C16 -2.360 -1.314 0.572 ETKDGv3 10
78C N1 -0.692 -0.039 -1.497 ETKDGv3 11
78C C5 0.235 0.718 -0.723 ETKDGv3 12
78C O2 -0.180 1.661 0.002 ETKDGv3 13
78C O3 1.596 0.401 -0.776 ETKDGv3 14
78C C6 2.583 1.068 0.009 ETKDGv3 15
78C C7 2.480 0.688 1.482 ETKDGv3 16
78C C8 3.904 0.723 2.029 ETKDGv3 17
78C C9 4.842 0.814 0.827 ETKDGv3 18
78C C10 3.976 0.634 -0.410 ETKDGv3 19
78C H31C -2.544 -2.087 -2.264 ETKDGv3 20
78C H32C -2.366 -0.860 -3.660 ETKDGv3 21
78C H4 -2.445 0.915 -2.186 ETKDGv3 22
78C H12 -4.484 0.964 -0.898 ETKDGv3 23
78C H16 -1.418 -1.818 0.397 ETKDGv3 24
78C H13 -5.772 0.455 1.229 ETKDGv3 25
78C H14 -4.894 -1.127 2.843 ETKDGv3 26
78C H15 -2.665 -2.292 2.407 ETKDGv3 27
78C H6 2.493 2.172 -0.110 ETKDGv3 28
78C H71C 2.069 -0.341 1.582 ETKDGv3 29
78C H72C 1.821 1.396 2.030 ETKDGv3 30
78C H101 4.351 1.243 -1.261 ETKDGv3 31
78C H102 3.969 -0.440 -0.702 ETKDGv3 32
78C H81C 4.113 -0.197 2.618 ETKDGv3 33
78C H82C 4.043 1.608 2.689 ETKDGv3 34
78C H91C 5.634 0.035 0.873 ETKDGv3 35
78C H92C 5.324 1.816 0.801 ETKDGv3 36
#