data_DIV
#
_chem_comp.id DIV
_chem_comp.name D-ISOVALINE
_chem_comp.type 'D-PEPTIDE LINKING'
_chem_comp.pdbx_type ATOMP
_chem_comp.formula 'C5 H11 N O2'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_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 117.146
_chem_comp.one_letter_code V
_chem_comp.three_letter_code DIV
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1JOH
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
_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
DIV N N N 0 1 N N N Y Y N -4.148 11.862 7.933 0.419 1.403 -0.780 N DIV 1
DIV CA CA C 0 1 N N R Y N N -5.419 11.605 8.616 0.231 0.232 0.088 CA DIV 2
DIV CB1 CB1 C 0 1 N N N N N N -6.309 10.714 7.757 1.193 -0.879 -0.339 CB1 DIV 3
DIV CG1 CG1 C 0 1 N N N N N N -5.691 9.373 7.401 2.634 -0.380 -0.219 CG1 DIV 4
DIV CB2 CB2 C 0 1 N N N N N N -5.067 10.879 9.967 0.516 0.623 1.539 CB2 DIV 5
DIV C C C 0 1 N N N Y N Y -6.229 12.824 8.969 -1.189 -0.259 -0.031 C DIV 6
DIV O O O 0 1 N N N Y N Y -7.475 12.754 8.957 -1.426 -1.442 0.031 O DIV 7
DIV OXT OXT O 0 1 N Y N Y N Y ? ? ? -2.190 0.618 -0.206 OXT DIV 8
DIV H 1HN H 0 1 N N N Y Y N -4.305 11.921 6.947 1.401 1.632 -0.749 H DIV 9
DIV H2 2HN H 0 1 N Y N Y Y N -3.762 12.724 8.261 0.221 1.100 -1.722 H2 DIV 10
DIV HB11 1HB1 H 0 0 N N N N N N -7.236 10.521 8.317 0.990 -1.157 -1.374 HB11 DIV 11
DIV HB12 2HB1 H 0 0 N N N N N N -6.476 11.249 6.810 1.053 -1.747 0.304 HB12 DIV 12
DIV HG11 1HG1 H 0 0 N N N N N N -5.542 9.315 6.313 2.773 0.488 -0.862 HG11 DIV 13
DIV HG12 2HG1 H 0 0 N N N N N N -4.721 9.270 7.910 2.837 -0.102 0.816 HG12 DIV 14
DIV HG13 3HG1 H 0 0 N N N N N N -6.363 8.563 7.722 3.319 -1.172 -0.523 HG13 DIV 15
DIV HB21 1HB2 H 0 0 N N N N N N -4.985 9.796 9.791 1.543 0.978 1.625 HB21 DIV 16
DIV HB22 2HB2 H 0 0 N N N N N N -4.110 11.262 10.350 -0.169 1.414 1.844 HB22 DIV 17
DIV HB23 3HB2 H 0 0 N N N N N N -5.861 11.071 10.704 0.376 -0.246 2.183 HB23 DIV 18
DIV HXT HXT H 0 1 N Y N Y N Y ? ? ? -3.101 0.303 -0.282 HXT DIV 19
#
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
DIV N CA SING N N 1
DIV N H SING N N 2
DIV N H2 SING N N 3
DIV CA CB1 SING N N 4
DIV CA CB2 SING N N 5
DIV CA C SING N N 6
DIV CB1 CG1 SING N N 7
DIV CB1 HB11 SING N N 8
DIV CB1 HB12 SING N N 9
DIV CG1 HG11 SING N N 10
DIV CG1 HG12 SING N N 11
DIV CG1 HG13 SING N N 12
DIV CB2 HB21 SING N N 13
DIV CB2 HB22 SING N N 14
DIV CB2 HB23 SING N N 15
DIV C O DOUB N N 16
DIV C OXT SING N N 17
DIV OXT HXT SING N N 18
#
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
DIV SMILES ACDLabs 10.04 'O=C(O)C(N)(C)CC'
DIV SMILES_CANONICAL CACTVS 3.341 'CC[C@@](C)(N)C(O)=O'
DIV SMILES CACTVS 3.341 'CC[C](C)(N)C(O)=O'
DIV SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'CC[C@](C)(C(=O)O)N'
DIV SMILES 'OpenEye OEToolkits' 1.5.0 'CCC(C)(C(=O)O)N'
DIV InChI InChI 1.03 'InChI=1S/C5H11NO2/c1-3-5(2,6)4(7)8/h3,6H2,1-2H3,(H,7,8)/t5-/m1/s1'
DIV InChIKey InChI 1.03 GCHPUFAZSONQIV-RXMQYKEDSA-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
DIV 'SYSTEMATIC NAME' ACDLabs 10.04 D-isovaline
DIV 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 '(2R)-2-amino-2-methyl-butanoic 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
DIV 'Create component' 1999-07-08 EBI
DIV 'Modify descriptor' 2011-06-04 RCSB
DIV 'Modify backbone' 2023-11-03 PDBE
DIV 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id DIV
_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 'Any position'
_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 ?
#
_pdbe_chem_comp_drugbank_details.comp_id DIV
_pdbe_chem_comp_drugbank_details.drugbank_id DB04171
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name D-Isovaline
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id DIV
_pdbe_chem_comp_synonyms.name D-Isovaline
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id DIV
_pdbe_chem_comp_drugbank_classification.drugbank_id DB04171
_pdbe_chem_comp_drugbank_classification.parent 'L-alpha-amino acids'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Carboxylic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.superclass 'Organic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as l-alpha-amino acids. These are alpha amino acids which have the L-configuration of the alpha-carbon atom.'
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
DIV N N 3.951 -1.035 1
DIV CA C 5.250 -0.285 2
DIV CB1 C 4.500 1.014 3
DIV CG1 C 3.000 1.014 4
DIV CB2 C 6.000 -1.584 5
DIV C C 6.549 0.465 6
DIV O O 7.848 -0.285 7
DIV OXT O 6.549 1.965 8
#
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
DIV N CA SINGLE NONE 1
DIV CA CB1 SINGLE NONE 2
DIV CA CB2 SINGLE BEGINWEDGE 3
DIV CA C SINGLE NONE 4
DIV CB1 CG1 SINGLE NONE 5
DIV C O DOUBLE NONE 6
DIV C OXT SINGLE NONE 7
#
_pdbe_chem_comp_substructure.comp_id DIV
_pdbe_chem_comp_substructure.substructure_name peptide
_pdbe_chem_comp_substructure.id F1
_pdbe_chem_comp_substructure.substructure_type fragment
_pdbe_chem_comp_substructure.substructure_smiles NCC=O
_pdbe_chem_comp_substructure.substructure_inchis InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2
_pdbe_chem_comp_substructure.substructure_inchikeys LYIIBVSRGJSHAV-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
DIV O F1 1
DIV C F1 1
DIV CA F1 1
DIV N F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id DIV
_pdbe_chem_comp_rdkit_properties.exactmw 117.079
_pdbe_chem_comp_rdkit_properties.amw 117.148
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 5
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 8
_pdbe_chem_comp_rdkit_properties.NumAtoms 19
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.800
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_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 1
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 64.152
_pdbe_chem_comp_rdkit_properties.tpsa 63.320
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.198
_pdbe_chem_comp_rdkit_properties.CrippenMR 30.519
_pdbe_chem_comp_rdkit_properties.chi0v 3.764
_pdbe_chem_comp_rdkit_properties.chi1v 1.632
_pdbe_chem_comp_rdkit_properties.chi2v 0.476
_pdbe_chem_comp_rdkit_properties.chi3v 0.476
_pdbe_chem_comp_rdkit_properties.chi4v 0.051
_pdbe_chem_comp_rdkit_properties.chi0n 14.764
_pdbe_chem_comp_rdkit_properties.chi1n 6.935
_pdbe_chem_comp_rdkit_properties.chi2n 0.476
_pdbe_chem_comp_rdkit_properties.chi3n 0.476
_pdbe_chem_comp_rdkit_properties.chi4n 0.051
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.570
_pdbe_chem_comp_rdkit_properties.kappa1 1.011
_pdbe_chem_comp_rdkit_properties.kappa2 2.132
_pdbe_chem_comp_rdkit_properties.kappa3 1.500
_pdbe_chem_comp_rdkit_properties.Phi 0.269
#
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
DIV UniChem DrugBank DB04171
DIV UniChem ZINC ZINC000000901763
DIV UniChem eMolecules 29541105
DIV UniChem eMolecules 714808
DIV UniChem fdasrs IF7U5GXQ28
DIV UniChem ChemicalBook CB7370496
DIV UniChem 'Probes And Drugs' PD006911
DIV UniChem CCDC CISNUP
DIV UniChem Nikkaji J9.209F
DIV UniChem SureChEMBL SCHEMBL21239581
DIV UniChem SureChEMBL SCHEMBL23349
DIV UniChem 'PubChem TPHARMA' 15970550
DIV UniChem PubChem 2724877
DIV UniChem PubChem 6971277
DIV UniChem Mcule MCULE-4076270773
DIV UniChem ACTor 3059-97-0
#
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
DIV N -0.299 -1.023 1.416 ETKDGv3 1
DIV CA -0.481 -0.247 0.179 ETKDGv3 2
DIV CB1 0.776 -0.357 -0.734 ETKDGv3 3
DIV CG1 2.064 0.175 -0.098 ETKDGv3 4
DIV CB2 -1.695 -0.819 -0.571 ETKDGv3 5
DIV C -0.785 1.201 0.513 ETKDGv3 6
DIV O -1.204 1.519 1.659 ETKDGv3 7
DIV OXT -0.668 2.182 -0.469 ETKDGv3 8
DIV H 0.440 -0.584 2.013 ETKDGv3 9
DIV H2 0.022 -1.991 1.182 ETKDGv3 10
DIV HB11 0.600 0.200 -1.681 ETKDGv3 11
DIV HB12 0.942 -1.420 -1.014 ETKDGv3 12
DIV HG11 1.936 1.221 0.249 ETKDGv3 13
DIV HG12 2.375 -0.464 0.754 ETKDGv3 14
DIV HG13 2.879 0.157 -0.852 ETKDGv3 15
DIV HB21 -2.606 -0.762 0.064 ETKDGv3 16
DIV HB22 -1.524 -1.885 -0.835 ETKDGv3 17
DIV HB23 -1.884 -0.252 -1.509 ETKDGv3 18
DIV HXT -0.889 3.150 -0.266 ETKDGv3 19
#