data_VXK
#
_chem_comp.id VXK
_chem_comp.name 5-bromo-N-propylthiophene-3-carboxamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H10 Br N O S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-09-02
_chem_comp.pdbx_modified_date 2022-10-28
_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 248.140
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code VXK
_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 7FN5
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site RCSB
#
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
VXK C7 C1 C 0 1 Y N N N N N -2.511 12.698 -34.399 -0.412 -1.415 -0.003 C7 VXK 1
VXK C1 C2 C 0 1 N N N N N N -4.001 17.670 -32.371 -5.426 -0.547 0.000 C1 VXK 2
VXK C5 C3 C 0 1 Y N N N N N -1.207 14.482 -35.116 0.680 0.655 -0.002 C5 VXK 3
VXK C6 C4 C 0 1 Y N N N N N -0.435 13.337 -35.242 1.740 -0.146 -0.001 C6 VXK 4
VXK C4 C5 C 0 1 Y N N N N N -2.451 14.080 -34.597 -0.573 -0.064 -0.002 C4 VXK 5
VXK C3 C6 C 0 1 N N N N N N -3.440 15.048 -34.187 -1.888 0.596 -0.001 C3 VXK 6
VXK C2 C7 C 0 1 N N N N N N -4.076 17.429 -33.890 -4.323 0.513 0.001 C2 VXK 7
VXK BR BR1 BR 0 0 N N N N N N 1.233 13.483 -35.955 3.536 0.445 0.000 BR VXK 8
VXK S S1 S 0 1 Y N N N N N -1.093 11.851 -34.794 1.241 -1.829 0.002 S VXK 9
VXK O O1 O 0 1 N N N N N N -4.470 14.690 -33.729 -1.959 1.811 0.001 O VXK 10
VXK N N1 N 0 1 N N N N N N -3.125 16.384 -34.306 -3.014 -0.144 -0.001 N VXK 11
VXK C C8 C 0 1 N N N N N N -4.915 18.808 -31.925 -6.794 0.140 0.001 C VXK 12
VXK H1 H1 H 0 1 N N N N N N -3.395 12.205 -34.022 -1.223 -2.128 -0.003 H1 VXK 13
VXK H2 H2 H 0 1 N N N N N N -4.301 16.749 -31.850 -5.333 -1.168 -0.890 H2 VXK 14
VXK H3 H3 H 0 1 N N N N N N -2.964 17.921 -32.102 -5.332 -1.170 0.890 H3 VXK 15
VXK H4 H4 H 0 1 N N N N N N -0.910 15.489 -35.368 0.748 1.733 0.000 H4 VXK 16
VXK H5 H5 H 0 1 N N N N N N -3.834 18.365 -34.415 -4.418 1.136 -0.889 H5 VXK 17
VXK H6 H6 H 0 1 N N N N N N -5.096 17.113 -34.154 -4.417 1.135 0.891 H6 VXK 18
VXK H7 H7 H 0 1 N N N N N N -2.236 16.648 -34.681 -2.958 -1.113 -0.002 H7 VXK 19
VXK H8 H8 H 0 1 N N N N N N -4.829 18.943 -30.837 -7.580 -0.615 0.001 H8 VXK 20
VXK H9 H9 H 0 1 N N N N N N -4.619 19.737 -32.435 -6.887 0.762 0.892 H9 VXK 21
VXK H10 H10 H 0 1 N N N N N N -5.956 18.564 -32.182 -6.888 0.763 -0.888 H10 VXK 22
#
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
VXK BR C6 SING N N 1
VXK C6 C5 DOUB Y N 2
VXK C6 S SING Y N 3
VXK C5 C4 SING Y N 4
VXK S C7 SING Y N 5
VXK C4 C7 DOUB Y N 6
VXK C4 C3 SING N N 7
VXK N C3 SING N N 8
VXK N C2 SING N N 9
VXK C3 O DOUB N N 10
VXK C2 C1 SING N N 11
VXK C1 C SING N N 12
VXK C7 H1 SING N N 13
VXK C1 H2 SING N N 14
VXK C1 H3 SING N N 15
VXK C5 H4 SING N N 16
VXK C2 H5 SING N N 17
VXK C2 H6 SING N N 18
VXK N H7 SING N N 19
VXK C H8 SING N N 20
VXK C H9 SING N N 21
VXK C H10 SING N N 22
#
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
VXK SMILES ACDLabs 12.01 O=C(NCCC)c1csc(Br)c1
VXK InChI InChI 1.06 InChI=1S/C8H10BrNOS/c1-2-3-10-8(11)6-4-7(9)12-5-6/h4-5H,2-3H2,1H3,(H,10,11)
VXK InChIKey InChI 1.06 WVFORFDVRAXIRI-UHFFFAOYSA-N
VXK SMILES_CANONICAL CACTVS 3.385 CCCNC(=O)c1csc(Br)c1
VXK SMILES CACTVS 3.385 CCCNC(=O)c1csc(Br)c1
VXK SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 CCCNC(=O)c1cc(sc1)Br
VXK SMILES "OpenEye OEToolkits" 2.0.7 CCCNC(=O)c1cc(sc1)Br
#
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
VXK "SYSTEMATIC NAME" ACDLabs 12.01 5-bromo-N-propylthiophene-3-carboxamide
VXK "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 5-bromanyl-~{N}-propyl-thiophene-3-carboxamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VXK 'Create component' 2022-09-02 RCSB
VXK 'Initial release' 2022-11-02 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
VXK C7 C 5.845 -2.121 1
VXK C1 C 7.230 3.261 2
VXK C5 C 3.418 -2.121 3
VXK C6 C 3.882 -3.547 4
VXK C4 C 4.632 -1.239 5
VXK C3 C 4.632 0.261 6
VXK C2 C 5.931 2.511 7
VXK BR Br 3.000 -4.761 8
VXK S S 5.382 -3.547 9
VXK O O 3.333 1.011 10
VXK N N 5.931 1.011 11
VXK C C 7.230 4.761 12
#
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
VXK BR C6 SINGLE NONE 1
VXK C6 C5 DOUBLE NONE 2
VXK C6 S SINGLE NONE 3
VXK C5 C4 SINGLE NONE 4
VXK S C7 SINGLE NONE 5
VXK C4 C7 DOUBLE NONE 6
VXK C4 C3 SINGLE NONE 7
VXK N C3 SINGLE NONE 8
VXK N C2 SINGLE NONE 9
VXK C3 O DOUBLE NONE 10
VXK C2 C1 SINGLE NONE 11
VXK C1 C SINGLE NONE 12
#
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
VXK MurckoScaffold S1 scaffold c1ccsc1 InChI=1S/C4H4S/c1-2-4-5-3-1/h1-4H YTPLMLYBLZKORZ-UHFFFAOYSA-N
VXK amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
VXK thiophen F2 fragment c1ccsc1 InChI=1S/C4H4S/c1-2-4-5-3-1/h1-4H YTPLMLYBLZKORZ-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
VXK C7 S1 1
VXK C5 S1 1
VXK C6 S1 1
VXK C4 S1 1
VXK S S1 1
VXK N F1 1
VXK C3 F1 1
VXK O F1 1
VXK C4 F1 1
VXK C7 F2 1
VXK C4 F2 1
VXK C5 F2 1
VXK C6 F2 1
VXK S F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id VXK
_pdbe_chem_comp_rdkit_properties.exactmw 246.967
_pdbe_chem_comp_rdkit_properties.amw 248.145
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 2
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 2
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 12
_pdbe_chem_comp_rdkit_properties.NumAtoms 22
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.375
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 1
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 1
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 1
_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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 98.218
_pdbe_chem_comp_rdkit_properties.tpsa 29.100
_pdbe_chem_comp_rdkit_properties.CrippenClogP 2.596
_pdbe_chem_comp_rdkit_properties.CrippenMR 54.377
_pdbe_chem_comp_rdkit_properties.chi0v 8.044
_pdbe_chem_comp_rdkit_properties.chi1v 4.358
_pdbe_chem_comp_rdkit_properties.chi2v 2.165
_pdbe_chem_comp_rdkit_properties.chi3v 2.165
_pdbe_chem_comp_rdkit_properties.chi4v 1.401
_pdbe_chem_comp_rdkit_properties.chi0n 15.642
_pdbe_chem_comp_rdkit_properties.chi1n 7.696
_pdbe_chem_comp_rdkit_properties.chi2n 0.893
_pdbe_chem_comp_rdkit_properties.chi3n 0.893
_pdbe_chem_comp_rdkit_properties.chi4n 0.477
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.350
_pdbe_chem_comp_rdkit_properties.kappa1 2.819
_pdbe_chem_comp_rdkit_properties.kappa2 4.621
_pdbe_chem_comp_rdkit_properties.kappa3 2.605
_pdbe_chem_comp_rdkit_properties.Phi 1.086
#
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
VXK UniChem PDBe VXK
VXK UniChem PubChem 40012378
VXK UniChem Mcule MCULE-2985966304
#
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
VXK C7 2.448 -0.086 1.432 ETKDGv3 1
VXK C1 -2.370 0.233 0.099 ETKDGv3 2
VXK C5 3.207 0.744 -0.649 ETKDGv3 3
VXK C6 4.337 0.929 0.024 ETKDGv3 4
VXK C4 2.110 0.151 0.159 ETKDGv3 5
VXK C3 0.769 -0.111 -0.408 ETKDGv3 6
VXK C2 -1.579 -1.050 -0.171 ETKDGv3 7
VXK BR 5.939 1.664 -0.703 ETKDGv3 8
VXK S 4.139 0.396 1.704 ETKDGv3 9
VXK O 0.481 0.368 -1.539 ETKDGv3 10
VXK N -0.200 -0.908 0.294 ETKDGv3 11
VXK C -3.822 0.090 -0.347 ETKDGv3 12
VXK H1 1.797 -0.483 2.198 ETKDGv3 13
VXK H2 -1.909 1.084 -0.447 ETKDGv3 14
VXK H3 -2.345 0.460 1.187 ETKDGv3 15
VXK H4 3.105 1.002 -1.695 ETKDGv3 16
VXK H5 -2.058 -1.895 0.370 ETKDGv3 17
VXK H6 -1.586 -1.292 -1.257 ETKDGv3 18
VXK H7 0.093 -1.478 1.118 ETKDGv3 19
VXK H8 -3.871 -0.117 -1.437 ETKDGv3 20
VXK H9 -4.369 1.034 -0.140 ETKDGv3 21
VXK H10 -4.317 -0.736 0.207 ETKDGv3 22
#