data_CEV
#
_chem_comp.id CEV
_chem_comp.name 'ethyl (4R)-4-amino-5-[(3S)-2-oxopyrrolidin-3-yl]pentanoate'
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula 'C11 H20 N2 O3'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2012-04-05
_chem_comp.pdbx_modified_date 2024-09-27
_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 228.288
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code CEV
_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 3SZN
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
_chem_comp.pdbx_pcm Y
#
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
CEV O1 O1 O 0 1 N N N N N N -17.657 -3.660 -25.476 4.311 -0.374 -0.183 O1 CEV 1
CEV C3 C3 C 0 1 N N N N N N -18.252 -3.229 -26.699 5.526 0.272 0.281 C3 CEV 2
CEV C5 C5 C 0 1 N N N N N N -18.069 -1.729 -26.851 6.732 -0.604 -0.063 C5 CEV 3
CEV N49 N49 N 0 1 N N N Y Y N -15.345 -1.458 -22.700 -0.868 -1.275 0.250 N49 CEV 4
CEV C57 C57 C 0 1 N N R N N N -14.546 -1.864 -23.856 -0.625 -0.030 -0.493 C57 CEV 5
CEV C59 C59 C 0 1 N N N N N N -13.238 -1.056 -23.863 -1.767 0.952 -0.228 C59 CEV 6
CEV C61 C61 C 0 1 N N S N N N -13.522 0.358 -24.339 -3.069 0.387 -0.800 C61 CEV 7
CEV C63 C63 C 0 1 N N N N N N -14.285 -3.357 -23.667 0.697 0.588 -0.033 C63 CEV 8
CEV C65 C65 C 0 1 N N N N N N -12.276 1.178 -24.465 -3.508 -0.830 -0.015 C65 CEV 9
CEV O66 O66 O 0 1 N N N N N N -11.382 1.214 -23.637 -3.028 -1.938 -0.126 O66 CEV 10
CEV N69 N69 N 0 1 N N N N N N -12.328 1.887 -25.595 -4.507 -0.504 0.823 N69 CEV 11
CEV C71 C71 C 0 1 N N N N N N -13.485 1.650 -26.448 -4.846 0.920 0.720 C71 CEV 12
CEV C73 C73 C 0 1 N N N N N N -14.041 0.390 -25.777 -4.225 1.398 -0.616 C73 CEV 13
CEV C82 C82 C 0 1 N N N N N N -15.544 -4.164 -24.061 1.853 -0.340 -0.410 C82 CEV 14
CEV C84 C84 C 0 1 N N N N N N -16.206 -3.771 -25.385 3.155 0.269 0.043 C84 CEV 15
CEV O88 O88 O 0 1 N N N N N N -15.575 -3.539 -26.408 3.157 1.336 0.609 O88 CEV 16
CEV H3 H3 H 0 1 N N N N N N -17.770 -3.744 -27.543 5.630 1.241 -0.206 H3 CEV 17
CEV H3A H3A H 0 1 N N N N N N -19.326 -3.468 -26.688 5.474 0.411 1.361 H3A CEV 18
CEV H5 H5 H 0 1 N N N N N N -18.528 -1.397 -27.794 6.628 -1.574 0.424 H5 CEV 19
CEV H5A H5A H 0 1 N N N N N N -18.551 -1.214 -26.007 6.784 -0.743 -1.143 H5A CEV 20
CEV H5B H5B H 0 1 N N N N N N -16.995 -1.490 -26.862 7.644 -0.119 0.285 H5B CEV 21
CEV HN49 HN49 H 0 0 N N N Y Y N -16.199 -1.978 -22.685 -0.161 -1.964 0.042 HN49 CEV 22
CEV HN4A HN4A H 0 0 N N N Y Y N -14.832 -1.637 -21.861 -0.921 -1.099 1.242 HN4A CEV 23
CEV H57 H57 H 0 1 N N N N N N -15.048 -1.680 -24.817 -0.573 -0.248 -1.559 H57 CEV 24
CEV H59 H59 H 0 1 N N N N N N -12.820 -1.024 -22.846 -1.877 1.102 0.846 H59 CEV 25
CEV H59A H59A H 0 0 N N N N N N -12.515 -1.533 -24.541 -1.544 1.906 -0.707 H59A CEV 26
CEV H61 H61 H 0 1 N N N N N N -14.235 0.738 -23.593 -2.945 0.138 -1.854 H61 CEV 27
CEV H63 H63 H 0 1 N N N N N N -13.442 -3.663 -24.304 0.834 1.554 -0.518 H63 CEV 28
CEV H63A H63A H 0 0 N N N N N N -14.041 -3.554 -22.613 0.678 0.724 1.048 H63A CEV 29
CEV HN69 HN69 H 0 0 N N N N N N -11.614 2.543 -25.842 -4.947 -1.129 1.419 HN69 CEV 30
CEV H71 H71 H 0 1 N N N N N N -14.198 2.487 -26.445 -5.929 1.049 0.699 H71 CEV 31
CEV H71A H71A H 0 0 N N N N N N -13.215 1.490 -27.502 -4.416 1.472 1.555 H71A CEV 32
CEV H73 H73 H 0 1 N N N N N N -13.704 -0.506 -26.319 -3.844 2.415 -0.527 H73 CEV 33
CEV H73A H73A H 0 0 N N N N N N -15.141 0.416 -25.780 -4.945 1.322 -1.430 H73A CEV 34
CEV H82 H82 H 0 1 N N N N N N -15.245 -5.219 -24.144 1.715 -1.307 0.075 H82 CEV 35
CEV H82A H82A H 0 0 N N N N N N -16.289 -4.018 -23.265 1.872 -0.476 -1.491 H82A CEV 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
CEV C3 O1 SING N N 1
CEV O1 C84 SING N N 2
CEV C5 C3 SING N N 3
CEV C3 H3 SING N N 4
CEV C3 H3A SING N N 5
CEV C5 H5 SING N N 6
CEV C5 H5A SING N N 7
CEV C5 H5B SING N N 8
CEV C57 N49 SING N N 9
CEV N49 HN49 SING N N 10
CEV N49 HN4A SING N N 11
CEV C59 C57 SING N N 12
CEV C57 C63 SING N N 13
CEV C57 H57 SING N N 14
CEV C61 C59 SING N N 15
CEV C59 H59 SING N N 16
CEV C59 H59A SING N N 17
CEV C73 C61 SING N N 18
CEV C65 C61 SING N N 19
CEV C61 H61 SING N N 20
CEV C82 C63 SING N N 21
CEV C63 H63 SING N N 22
CEV C63 H63A SING N N 23
CEV N69 C65 SING N N 24
CEV C65 O66 DOUB N N 25
CEV C71 N69 SING N N 26
CEV N69 HN69 SING N N 27
CEV C71 C73 SING N N 28
CEV C71 H71 SING N N 29
CEV C71 H71A SING N N 30
CEV C73 H73 SING N N 31
CEV C73 H73A SING N N 32
CEV C84 C82 SING N N 33
CEV C82 H82 SING N N 34
CEV C82 H82A SING N N 35
CEV O88 C84 DOUB N N 36
#
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
CEV SMILES ACDLabs 12.01 'O=C1NCCC1CC(N)CCC(=O)OCC'
CEV InChI InChI 1.03 'InChI=1S/C11H20N2O3/c1-2-16-10(14)4-3-9(12)7-8-5-6-13-11(8)15/h8-9H,2-7,12H2,1H3,(H,13,15)/t8-,9+/m0/s1'
CEV InChIKey InChI 1.03 BLWBKGMLORNBPP-DTWKUNHWSA-N
CEV SMILES_CANONICAL CACTVS 3.370 'CCOC(=O)CC[C@@H](N)C[C@@H]1CCNC1=O'
CEV SMILES CACTVS 3.370 'CCOC(=O)CC[CH](N)C[CH]1CCNC1=O'
CEV SMILES_CANONICAL 'OpenEye OEToolkits' 1.7.2 'CCOC(=O)CC[C@H](C[C@@H]1CCNC1=O)N'
CEV SMILES 'OpenEye OEToolkits' 1.7.2 'CCOC(=O)CCC(CC1CCNC1=O)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
CEV 'SYSTEMATIC NAME' ACDLabs 12.01 'ethyl (4R)-4-amino-5-[(3S)-2-oxopyrrolidin-3-yl]pentanoate'
CEV 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.7.2 'ethyl (4R)-4-azanyl-5-[(3S)-2-oxidanylidenepyrrolidin-3-yl]pentanoate'
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
CEV 'Create component' 2012-04-05 RCSB
CEV 'Modify backbone' 2023-11-03 PDBE
CEV 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id CEV
_pdbx_chem_comp_pcm.modified_residue_id ?
_pdbx_chem_comp_pcm.type None
_pdbx_chem_comp_pcm.category 'Non-standard residue'
_pdbx_chem_comp_pcm.position 'Amino-acid side chain and backbone'
_pdbx_chem_comp_pcm.polypeptide_position C-terminal
_pdbx_chem_comp_pcm.comp_id_linking_atom ?
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom ?
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ?
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ?
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.09.6 'Core functionality.'
pdbeccdutils 0.8.6 '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
CEV O1 O 5.102 3.675 1
CEV C3 C 3.610 3.832 2
CEV C5 C 3.000 5.202 3
CEV N49 N 10.187 1.834 4
CEV C57 C 9.306 0.620 5
CEV C59 C 9.916 -0.750 6
CEV C61 C 9.034 -1.964 7
CEV C63 C 7.814 0.777 8
CEV C65 C 9.498 -3.390 9
CEV O66 O 10.924 -3.853 10
CEV N69 N 8.284 -4.272 11
CEV C71 C 7.071 -3.390 12
CEV C73 C 7.534 -1.964 13
CEV C82 C 7.204 2.147 14
CEV C84 C 5.712 2.304 15
CEV O88 O 4.830 1.091 16
#
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
CEV C3 O1 SINGLE NONE 1
CEV O1 C84 SINGLE NONE 2
CEV C5 C3 SINGLE NONE 3
CEV C57 N49 SINGLE BEGINWEDGE 4
CEV C59 C57 SINGLE NONE 5
CEV C57 C63 SINGLE NONE 6
CEV C61 C59 SINGLE BEGINWEDGE 7
CEV C73 C61 SINGLE NONE 8
CEV C65 C61 SINGLE NONE 9
CEV C82 C63 SINGLE NONE 10
CEV N69 C65 SINGLE NONE 11
CEV C65 O66 DOUBLE NONE 12
CEV C71 N69 SINGLE NONE 13
CEV C71 C73 SINGLE NONE 14
CEV C84 C82 SINGLE NONE 15
CEV O88 C84 DOUBLE NONE 16
#
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
CEV MurckoScaffold S1 scaffold O=C1CCCN1 InChI=1S/C4H7NO/c6-4-2-1-3-5-4/h1-3H2,(H,5,6) HNJBEVLQSNELDL-UHFFFAOYSA-N
CEV amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-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
CEV C61 S1 1
CEV C65 S1 1
CEV O66 S1 1
CEV N69 S1 1
CEV C71 S1 1
CEV C73 S1 1
CEV N69 F1 1
CEV C65 F1 1
CEV O66 F1 1
CEV C61 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id CEV
_pdbe_chem_comp_rdkit_properties.exactmw 228.147
_pdbe_chem_comp_rdkit_properties.amw 228.292
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 8
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 36
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.818
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_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 2
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 123.983
_pdbe_chem_comp_rdkit_properties.tpsa 81.420
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.183
_pdbe_chem_comp_rdkit_properties.CrippenMR 59.576
_pdbe_chem_comp_rdkit_properties.chi0v 7.619
_pdbe_chem_comp_rdkit_properties.chi1v 3.737
_pdbe_chem_comp_rdkit_properties.chi2v 1.222
_pdbe_chem_comp_rdkit_properties.chi3v 1.222
_pdbe_chem_comp_rdkit_properties.chi4v 0.660
_pdbe_chem_comp_rdkit_properties.chi0n 27.619
_pdbe_chem_comp_rdkit_properties.chi1n 13.579
_pdbe_chem_comp_rdkit_properties.chi2n 1.222
_pdbe_chem_comp_rdkit_properties.chi3n 1.222
_pdbe_chem_comp_rdkit_properties.chi4n 0.660
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.100
_pdbe_chem_comp_rdkit_properties.kappa1 2.364
_pdbe_chem_comp_rdkit_properties.kappa2 6.475
_pdbe_chem_comp_rdkit_properties.kappa3 4.182
_pdbe_chem_comp_rdkit_properties.Phi 0.957
#
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
CEV UniChem ZINC ZINC000098208738
CEV UniChem PubChem 137349085
#
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
CEV O1 3.456 -0.419 0.683 ETKDGv3 1
CEV C3 4.459 0.277 1.420 ETKDGv3 2
CEV C5 5.792 0.241 0.681 ETKDGv3 3
CEV N49 -0.732 1.066 -1.455 ETKDGv3 4
CEV C57 -0.235 0.530 -0.184 ETKDGv3 5
CEV C59 -1.375 0.443 0.859 ETKDGv3 6
CEV C61 -2.557 -0.480 0.473 ETKDGv3 7
CEV C63 0.500 -0.825 -0.367 ETKDGv3 8
CEV C65 -3.440 -0.732 1.639 ETKDGv3 9
CEV O66 -3.048 -1.233 2.727 ETKDGv3 10
CEV N69 -4.791 -0.418 1.395 ETKDGv3 11
CEV C71 -4.953 0.038 0.031 ETKDGv3 12
CEV C73 -3.531 0.154 -0.551 ETKDGv3 13
CEV C82 1.804 -0.712 -1.173 ETKDGv3 14
CEV C84 2.834 0.105 -0.456 ETKDGv3 15
CEV O88 3.109 1.266 -0.866 ETKDGv3 16
CEV H3 4.584 -0.220 2.404 ETKDGv3 17
CEV H3A 4.147 1.329 1.602 ETKDGv3 18
CEV H5 6.095 -0.811 0.498 ETKDGv3 19
CEV H5A 5.712 0.772 -0.290 ETKDGv3 20
CEV H5B 6.572 0.738 1.295 ETKDGv3 21
CEV HN49 -1.107 0.291 -2.048 ETKDGv3 22
CEV HN4A 0.065 1.497 -1.977 ETKDGv3 23
CEV H57 0.493 1.260 0.237 ETKDGv3 24
CEV H59 -1.755 1.468 1.066 ETKDGv3 25
CEV H59A -0.928 0.082 1.812 ETKDGv3 26
CEV H61 -2.199 -1.462 0.103 ETKDGv3 27
CEV H63 -0.160 -1.547 -0.892 ETKDGv3 28
CEV H63A 0.735 -1.260 0.630 ETKDGv3 29
CEV HN69 -5.574 -0.586 2.065 ETKDGv3 30
CEV H71 -5.472 1.020 0.019 ETKDGv3 31
CEV H71A -5.548 -0.707 -0.539 ETKDGv3 32
CEV H73 -3.303 1.229 -0.723 ETKDGv3 33
CEV H73A -3.470 -0.377 -1.525 ETKDGv3 34
CEV H82 2.216 -1.732 -1.326 ETKDGv3 35
CEV H82A 1.604 -0.287 -2.179 ETKDGv3 36
#