data_IIV
#
_chem_comp.id IIV
_chem_comp.name (2~{S})-2-acetamido-~{N}-(3-bromanylprop-2-ynyl)butanediamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C9 H12 Br N3 O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-03-22
_chem_comp.pdbx_modified_date 2022-11-18
_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 290.114
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code IIV
_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 7Z9H
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
IIV C4 C1 C 0 1 N N N N N N -26.167 43.844 10.694 -2.502 1.153 0.559 C4 IIV 1
IIV C5 C2 C 0 1 N N N N N N -24.783 43.885 11.287 -3.442 2.228 0.075 C5 IIV 2
IIV C6 C3 C 0 1 N N N N N N -27.426 45.684 9.924 -1.197 -0.839 -0.131 C6 IIV 3
IIV C7 C4 C 0 1 N N N N N N -26.527 47.971 10.358 1.114 -1.487 0.285 C7 IIV 4
IIV C8 C5 C 0 1 N N N N N N -27.754 48.782 10.408 2.456 -0.892 0.173 C8 IIV 5
IIV C9 C6 C 0 1 N N N N N N -28.838 49.226 10.718 3.526 -0.418 0.084 C9 IIV 6
IIV N1 N1 N 0 1 N N N N N N -28.091 44.508 12.071 -3.471 -0.534 -0.923 N1 IIV 7
IIV N2 N2 N 0 1 N N N N N N -24.463 42.883 12.083 -3.825 3.214 0.910 N2 IIV 8
IIV C3 C7 C 0 1 N N S N N N -27.005 45.001 11.226 -2.230 0.164 -0.576 C3 IIV 9
IIV N3 N3 N 0 1 N N N N N N -26.754 46.780 9.543 0.110 -0.512 -0.148 N3 IIV 10
IIV C1 C8 C 0 1 N N N N N N -28.808 46.608 13.031 -5.388 -1.989 -0.352 C1 IIV 11
IIV C2 C9 C 0 1 N N N N N N -28.551 45.140 13.154 -4.112 -1.271 0.005 C2 IIV 12
IIV O1 O1 O 0 1 N N N N N N -28.743 44.537 14.206 -3.661 -1.357 1.128 O1 IIV 13
IIV O2 O2 O 0 1 N N N N N N -24.016 44.805 11.016 -3.853 2.204 -1.065 O2 IIV 14
IIV O3 O3 O 0 1 N N N N N N -28.325 45.190 9.239 -1.543 -1.940 0.242 O3 IIV 15
IIV BR1 BR1 BR 0 0 N N N N N N -30.711 49.771 10.518 5.258 0.351 -0.059 BR1 IIV 16
IIV H1 H1 H 0 1 N N N N N N -26.649 42.893 10.963 -1.564 1.608 0.878 H1 IIV 17
IIV H2 H2 H 0 1 N N N N N N -26.095 43.921 9.599 -2.955 0.627 1.400 H2 IIV 18
IIV H3 H3 H 0 1 N N N N N N -26.248 47.668 11.378 1.056 -2.373 -0.348 H3 IIV 19
IIV H4 H4 H 0 1 N N N N N N -25.714 48.566 9.917 0.926 -1.768 1.321 H4 IIV 20
IIV H5 H5 H 0 1 N N N N N N -28.518 43.639 11.821 -3.831 -0.465 -1.821 H5 IIV 21
IIV H6 H6 H 0 1 N N N N N N -23.555 42.846 12.501 -3.496 3.233 1.822 H6 IIV 22
IIV H7 H7 H 0 1 N N N N N N -25.128 42.160 12.269 -4.429 3.906 0.598 H7 IIV 23
IIV H8 H8 H 0 1 N N N N N N -26.359 45.683 11.799 -1.861 0.704 -1.447 H8 IIV 24
IIV H9 H9 H 0 1 N N N N N N -26.374 46.782 8.618 0.386 0.368 -0.446 H9 IIV 25
IIV H10 H10 H 0 1 N N N N N N -29.172 46.999 13.993 -5.152 -2.988 -0.719 H10 IIV 26
IIV H11 H11 H 0 1 N N N N N N -27.875 47.122 12.756 -6.021 -2.067 0.532 H11 IIV 27
IIV H12 H12 H 0 1 N N N N N N -29.566 46.784 12.254 -5.913 -1.431 -1.127 H12 IIV 28
#
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
IIV O3 C6 DOUB N N 1
IIV N3 C6 SING N N 2
IIV N3 C7 SING N N 3
IIV C6 C3 SING N N 4
IIV C7 C8 SING N N 5
IIV C8 C9 TRIP N N 6
IIV BR1 C9 SING N N 7
IIV C4 C3 SING N N 8
IIV C4 C5 SING N N 9
IIV O2 C5 DOUB N N 10
IIV C3 N1 SING N N 11
IIV C5 N2 SING N N 12
IIV N1 C2 SING N N 13
IIV C1 C2 SING N N 14
IIV C2 O1 DOUB N N 15
IIV C4 H1 SING N N 16
IIV C4 H2 SING N N 17
IIV C7 H3 SING N N 18
IIV C7 H4 SING N N 19
IIV N1 H5 SING N N 20
IIV N2 H6 SING N N 21
IIV N2 H7 SING N N 22
IIV C3 H8 SING N N 23
IIV N3 H9 SING N N 24
IIV C1 H10 SING N N 25
IIV C1 H11 SING N N 26
IIV C1 H12 SING N N 27
#
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
IIV InChI InChI 1.06 InChI=1S/C9H12BrN3O3/c1-6(14)13-7(5-8(11)15)9(16)12-4-2-3-10/h7H,4-5H2,1H3,(H2,11,15)(H,12,16)(H,13,14)/t7-/m0/s1
IIV InChIKey InChI 1.06 JMTFRQZEUVQLRL-ZETCQYMHSA-N
IIV SMILES_CANONICAL CACTVS 3.385 "CC(=O)N[C@@H](CC(N)=O)C(=O)NCC#CBr"
IIV SMILES CACTVS 3.385 "CC(=O)N[CH](CC(N)=O)C(=O)NCC#CBr"
IIV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)N[C@@H](CC(=O)N)C(=O)NCC#CBr"
IIV SMILES "OpenEye OEToolkits" 2.0.7 "CC(=O)NC(CC(=O)N)C(=O)NCC#CBr"
#
_pdbx_chem_comp_identifier.comp_id IIV
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier (2~{S})-2-acetamido-~{N}-(3-bromanylprop-2-ynyl)butanediamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
IIV 'Create component' 2022-03-22 PDBE
IIV 'Modify descriptor' 2022-08-22 RCSB
IIV 'Initial release' 2022-11-23 RCSB
#
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
IIV C4 C 4.299 1.357 1
IIV C5 C 4.299 2.857 2
IIV C6 C 6.897 1.357 3
IIV C7 C 9.495 1.357 4
IIV C8 C 10.794 0.608 5
IIV C9 C 12.093 -0.142 6
IIV N1 N 5.598 -0.892 7
IIV N2 N 3.000 3.607 8
IIV C3 C 5.598 0.608 9
IIV N3 N 8.196 0.608 10
IIV C1 C 3.000 -0.892 11
IIV C2 C 4.299 -1.643 12
IIV O1 O 4.299 -3.143 13
IIV O2 O 5.598 3.607 14
IIV O3 O 6.897 2.857 15
IIV BR1 Br 13.392 -0.892 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
IIV O3 C6 DOUBLE NONE 1
IIV N3 C6 SINGLE NONE 2
IIV N3 C7 SINGLE NONE 3
IIV C6 C3 SINGLE NONE 4
IIV C7 C8 SINGLE NONE 5
IIV C8 C9 TRIPLE NONE 6
IIV BR1 C9 SINGLE NONE 7
IIV C3 C4 SINGLE BEGINWEDGE 8
IIV C4 C5 SINGLE NONE 9
IIV O2 C5 DOUBLE NONE 10
IIV C3 N1 SINGLE NONE 11
IIV C5 N2 SINGLE NONE 12
IIV N1 C2 SINGLE NONE 13
IIV C1 C2 SINGLE NONE 14
IIV C2 O1 DOUBLE NONE 15
#
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
IIV amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
IIV peptide F2 fragment NCC=O InChI=1S/C2H5NO/c3-1-2-4/h2H,1,3H2 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
IIV N1 F1 1
IIV C2 F1 1
IIV O1 F1 1
IIV C1 F1 1
IIV N2 F1 2
IIV C5 F1 2
IIV O2 F1 2
IIV C4 F1 2
IIV N3 F1 3
IIV C6 F1 3
IIV O3 F1 3
IIV C3 F1 3
IIV O3 F2 1
IIV C6 F2 1
IIV C3 F2 1
IIV N1 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id IIV
_pdbe_chem_comp_rdkit_properties.exactmw 289.006
_pdbe_chem_comp_rdkit_properties.amw 290.117
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 6
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 16
_pdbe_chem_comp_rdkit_properties.NumAtoms 28
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 7
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 3
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.444
_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 118.542
_pdbe_chem_comp_rdkit_properties.tpsa 101.290
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.161
_pdbe_chem_comp_rdkit_properties.CrippenMR 61.129
_pdbe_chem_comp_rdkit_properties.chi0v 9.030
_pdbe_chem_comp_rdkit_properties.chi1v 4.212
_pdbe_chem_comp_rdkit_properties.chi2v 1.100
_pdbe_chem_comp_rdkit_properties.chi3v 1.100
_pdbe_chem_comp_rdkit_properties.chi4v 0.574
_pdbe_chem_comp_rdkit_properties.chi0n 19.444
_pdbe_chem_comp_rdkit_properties.chi1n 9.208
_pdbe_chem_comp_rdkit_properties.chi2n 0.902
_pdbe_chem_comp_rdkit_properties.chi3n 0.902
_pdbe_chem_comp_rdkit_properties.chi4n 0.485
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.550
_pdbe_chem_comp_rdkit_properties.kappa1 4.036
_pdbe_chem_comp_rdkit_properties.kappa2 7.704
_pdbe_chem_comp_rdkit_properties.kappa3 6.838
_pdbe_chem_comp_rdkit_properties.Phi 1.943
#
_pdbe_chem_comp_external_mappings.comp_id IIV
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PubChem
_pdbe_chem_comp_external_mappings.resource_id 165430634
#
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
IIV C4 -0.099 1.976 0.098 ETKDGv3 1
IIV C5 -1.185 2.719 -0.625 ETKDGv3 2
IIV C6 0.946 -0.245 0.513 ETKDGv3 3
IIV C7 3.196 -1.362 0.265 ETKDGv3 4
IIV C8 4.166 -1.705 -0.781 ETKDGv3 5
IIV C9 4.962 -1.988 -1.640 ETKDGv3 6
IIV N1 -1.478 -0.045 0.493 ETKDGv3 7
IIV N2 -2.345 3.173 0.074 ETKDGv3 8
IIV C3 -0.235 0.456 -0.104 ETKDGv3 9
IIV N3 2.037 -0.680 -0.309 ETKDGv3 10
IIV C1 -3.290 -1.791 0.792 ETKDGv3 11
IIV C2 -2.046 -1.308 0.121 ETKDGv3 12
IIV O1 -1.487 -2.028 -0.750 ETKDGv3 13
IIV O2 -1.086 2.919 -1.865 ETKDGv3 14
IIV O3 0.988 -0.414 1.763 ETKDGv3 15
IIV BR1 6.206 -2.428 -2.984 ETKDGv3 16
IIV H1 0.884 2.316 -0.297 ETKDGv3 17
IIV H2 -0.127 2.223 1.182 ETKDGv3 18
IIV H3 2.868 -2.295 0.771 ETKDGv3 19
IIV H4 3.689 -0.699 1.008 ETKDGv3 20
IIV H5 -1.936 0.498 1.260 ETKDGv3 21
IIV H6 -2.448 3.012 1.100 ETKDGv3 22
IIV H7 -3.104 3.674 -0.438 ETKDGv3 23
IIV H8 -0.251 0.254 -1.199 ETKDGv3 24
IIV H9 1.993 -0.500 -1.339 ETKDGv3 25
IIV H10 -4.053 -0.984 0.791 ETKDGv3 26
IIV H11 -3.703 -2.674 0.260 ETKDGv3 27
IIV H12 -3.059 -2.074 1.840 ETKDGv3 28
#