data_BIL
#
_chem_comp.id BIL
_chem_comp.name '(3R,4S)-3-amino-4-methylhexanoic acid'
_chem_comp.type 'L-peptide linking'
_chem_comp.pdbx_type ATOMP
_chem_comp.formula 'C7 H15 N O2'
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms '(R,S)-beta-3-homoisoleucine'
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2008-02-05
_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 145.200
_chem_comp.one_letter_code X
_chem_comp.three_letter_code BIL
_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 3C3F
_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
BIL C C C 0 1 N N N Y N Y 3.617 4.110 20.622 2.349 0.106 -0.049 C BIL 1
BIL O O O 0 1 N N N Y N Y 3.581 3.955 21.828 2.408 -0.881 -0.744 O BIL 2
BIL CA CA C 0 1 N N N Y N N 4.206 3.027 19.735 1.011 0.622 0.415 CA BIL 3
BIL CB CB C 0 1 N N R Y N N 3.439 1.706 19.802 -0.100 -0.278 -0.130 CB BIL 4
BIL N N N 0 1 N N N Y Y N 2.262 1.835 18.968 0.024 -1.619 0.457 N BIL 5
BIL CG CG C 0 1 N N S N N N 4.265 0.535 19.231 -1.462 0.315 0.235 CG BIL 6
BIL CD2 CD2 C 0 1 N N N N N N 5.646 0.415 19.873 -1.591 1.711 -0.376 CD2 BIL 7
BIL CD1 CD1 C 0 1 N N N N N N 3.545 -0.814 19.272 -2.573 -0.585 -0.310 CD1 BIL 8
BIL CE1 CE1 C 0 1 N N N N N N 2.787 -1.090 20.548 -3.931 -0.061 0.161 CE1 BIL 9
BIL HA HA H 0 1 N N N Y N N 4.184 3.385 18.695 0.979 0.619 1.504 HA BIL 10
BIL HAA HAA H 0 1 N N N Y N N 5.228 2.831 20.092 0.867 1.638 0.049 HAA BIL 11
BIL HB HB H 0 1 N N N Y N N 3.200 1.500 20.856 -0.012 -0.347 -1.214 HB BIL 12
BIL H HN H 0 1 N N N Y Y N 2.323 2.678 18.434 -0.053 -1.582 1.462 HN BIL 13
BIL HG HG H 0 1 N N N N N N 4.398 0.796 18.171 -1.549 0.383 1.320 HG BIL 14
BIL H3D2 H3D2 H 0 0 N N N N N N 5.823 1.282 20.527 -1.504 1.643 -1.460 H3D2 BIL 15
BIL H2D2 H2D2 H 0 0 N N N N N N 5.695 -0.509 20.467 -2.561 2.134 -0.115 H2D2 BIL 16
BIL H1D2 H1D2 H 0 0 N N N N N N 6.415 0.386 19.087 -0.799 2.352 0.013 H1D2 BIL 17
BIL H1D1 H1D1 H 0 0 N N N N N N 2.823 -0.833 18.443 -2.540 -0.583 -1.399 H1D1 BIL 18
BIL H2D1 H2D1 H 0 0 N N N N N N 4.325 -1.586 19.199 -2.429 -1.602 0.056 H2D1 BIL 19
BIL H3E1 H3E1 H 0 0 N N N N N N 2.073 -0.274 20.734 -3.963 -0.063 1.251 H3E1 BIL 20
BIL H2E1 H2E1 H 0 0 N N N N N N 3.494 -1.157 21.388 -4.075 0.956 -0.204 H2E1 BIL 21
BIL H1E1 H1E1 H 0 0 N N N N N N 2.241 -2.040 20.452 -4.722 -0.702 -0.227 H1E1 BIL 22
BIL OXT OXT O 0 1 N Y N Y N Y 3.106 5.312 20.039 3.475 0.738 0.315 OXT BIL 23
BIL H2 HNA H 0 1 N Y N Y Y N 1.446 1.865 19.545 -0.658 -2.250 0.064 HNA BIL 24
BIL HXT HXT H 0 1 N Y N Y N Y 2.777 5.882 20.724 4.310 0.368 -0.004 HXT BIL 25
#
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
BIL C O DOUB N N 1
BIL C OXT SING N N 2
BIL CA C SING N N 3
BIL CA CB SING N N 4
BIL CA HA SING N N 5
BIL CB HB SING N N 6
BIL N CB SING N N 7
BIL N H2 SING N N 8
BIL CG CB SING N N 9
BIL CG CD1 SING N N 10
BIL CG CD2 SING N N 11
BIL CD2 H1D2 SING N N 12
BIL CD2 H3D2 SING N N 13
BIL CD1 CE1 SING N N 14
BIL CE1 H2E1 SING N N 15
BIL CE1 H3E1 SING N N 16
BIL HAA CA SING N N 17
BIL H N SING N N 18
BIL HG CG SING N N 19
BIL H2D2 CD2 SING N N 20
BIL H1D1 CD1 SING N N 21
BIL H2D1 CD1 SING N N 22
BIL H1E1 CE1 SING N N 23
BIL 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
BIL SMILES ACDLabs 10.04 'O=C(O)CC(N)C(CC)C'
BIL SMILES_CANONICAL CACTVS 3.341 'CC[C@H](C)[C@H](N)CC(O)=O'
BIL SMILES CACTVS 3.341 'CC[CH](C)[CH](N)CC(O)=O'
BIL SMILES_CANONICAL 'OpenEye OEToolkits' 1.5.0 'CC[C@H](C)[C@@H](CC(=O)O)N'
BIL SMILES 'OpenEye OEToolkits' 1.5.0 'CCC(C)C(CC(=O)O)N'
BIL InChI InChI 1.03 'InChI=1S/C7H15NO2/c1-3-5(2)6(8)4-7(9)10/h5-6H,3-4,8H2,1-2H3,(H,9,10)/t5-,6+/m0/s1'
BIL InChIKey InChI 1.03 JHEDYGILOIBOTL-NTSWFWBYSA-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
BIL 'SYSTEMATIC NAME' ACDLabs 10.04 '(3R,4S)-3-amino-4-methylhexanoic acid'
BIL 'SYSTEMATIC NAME' 'OpenEye OEToolkits' 1.5.0 '(3R,4S)-3-amino-4-methyl-hexanoic 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
BIL 'Create component' 2008-02-05 RCSB
BIL 'Modify descriptor' 2011-06-04 RCSB
BIL 'Modify synonyms' 2020-06-05 PDBE
BIL 'Modify backbone' 2023-11-03 PDBE
BIL 'Modify PCM' 2024-09-27 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id BIL
_pdbx_chem_comp_synonyms.name '(R,S)-beta-3-homoisoleucine'
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbx_chem_comp_pcm.pcm_id 1
_pdbx_chem_comp_pcm.comp_id BIL
_pdbx_chem_comp_pcm.modified_residue_id ILE
_pdbx_chem_comp_pcm.type 'Beta-amino acid'
_pdbx_chem_comp_pcm.category 'Named protein modification'
_pdbx_chem_comp_pcm.position 'Amino-acid 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_synonyms.comp_id BIL
_pdbe_chem_comp_synonyms.name (R,S)-beta-3-homoisoleucine
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
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
BIL C C 5.104 -0.142 1
BIL O O 3.805 0.608 2
BIL CA C 6.404 0.608 3
BIL CB C 7.702 -0.142 4
BIL N N 7.702 -1.643 5
BIL CG C 9.002 0.608 6
BIL CD2 C 9.002 2.107 7
BIL CD1 C 10.301 -0.142 8
BIL CE1 C 11.600 0.608 9
BIL OXT O 5.104 -1.643 10
#
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
BIL C O DOUBLE NONE 1
BIL C OXT SINGLE NONE 2
BIL CA C SINGLE NONE 3
BIL CA CB SINGLE NONE 4
BIL CB N SINGLE BEGINDASH 5
BIL CG CB SINGLE NONE 6
BIL CG CD1 SINGLE NONE 7
BIL CG CD2 SINGLE BEGINWEDGE 8
BIL CD1 CE1 SINGLE NONE 9
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id BIL
_pdbe_chem_comp_rdkit_properties.exactmw 145.110
_pdbe_chem_comp_rdkit_properties.amw 145.202
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 7
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 10
_pdbe_chem_comp_rdkit_properties.NumAtoms 25
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 3
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.857
_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 2
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 82.502
_pdbe_chem_comp_rdkit_properties.tpsa 63.320
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.834
_pdbe_chem_comp_rdkit_properties.CrippenMR 39.683
_pdbe_chem_comp_rdkit_properties.chi0v 4.764
_pdbe_chem_comp_rdkit_properties.chi1v 2.132
_pdbe_chem_comp_rdkit_properties.chi2v 0.582
_pdbe_chem_comp_rdkit_properties.chi3v 0.582
_pdbe_chem_comp_rdkit_properties.chi4v 0.218
_pdbe_chem_comp_rdkit_properties.chi0n 19.764
_pdbe_chem_comp_rdkit_properties.chi1n 9.435
_pdbe_chem_comp_rdkit_properties.chi2n 0.582
_pdbe_chem_comp_rdkit_properties.chi3n 0.582
_pdbe_chem_comp_rdkit_properties.chi4n 0.218
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.570
_pdbe_chem_comp_rdkit_properties.kappa1 1.221
_pdbe_chem_comp_rdkit_properties.kappa2 4.278
_pdbe_chem_comp_rdkit_properties.kappa3 3.455
_pdbe_chem_comp_rdkit_properties.Phi 0.522
#
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
BIL UniChem ZINC ZINC000000170368
BIL UniChem SureChEMBL SCHEMBL4738603
BIL UniChem ChemicalBook CB43133774
BIL UniChem PubChem 40475756
BIL UniChem PubChem 16211048
#
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
BIL C -2.106 1.062 -0.100 ETKDGv3 1
BIL O -2.112 1.905 -1.037 ETKDGv3 2
BIL CA -1.884 -0.388 -0.397 ETKDGv3 3
BIL CB -0.683 -0.994 0.376 ETKDGv3 4
BIL N -0.736 -2.457 0.266 ETKDGv3 5
BIL CG 0.721 -0.487 -0.093 ETKDGv3 6
BIL CD2 0.953 -0.700 -1.601 ETKDGv3 7
BIL CD1 0.995 0.980 0.321 ETKDGv3 8
BIL CE1 2.487 1.317 0.339 ETKDGv3 9
BIL HA -1.770 -0.548 -1.490 ETKDGv3 10
BIL HAA -2.813 -0.920 -0.099 ETKDGv3 11
BIL HB -0.802 -0.738 1.454 ETKDGv3 12
BIL H -1.637 -2.793 0.678 ETKDGv3 13
BIL HG 1.472 -1.115 0.438 ETKDGv3 14
BIL H3D2 2.029 -0.588 -1.845 ETKDGv3 15
BIL H2D2 0.648 -1.724 -1.904 ETKDGv3 16
BIL H1D2 0.381 0.039 -2.201 ETKDGv3 17
BIL H1D1 0.489 1.683 -0.372 ETKDGv3 18
BIL H2D1 0.599 1.162 1.344 ETKDGv3 19
BIL H3E1 2.626 2.357 0.705 ETKDGv3 20
BIL H2E1 2.919 1.251 -0.681 ETKDGv3 21
BIL H1E1 3.035 0.630 1.018 ETKDGv3 22
BIL OXT -2.335 1.478 1.209 ETKDGv3 23
BIL H2 0.014 -2.867 0.868 ETKDGv3 24
BIL HXT -2.491 2.455 1.424 ETKDGv3 25
#