data_VFM
#
_chem_comp.id VFM
_chem_comp.name 2-methyl-N-(5-sulfamoyl-1,3,4-thiadiazol-2-yl)propanamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C6 H10 N4 O3 S2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2020-08-10
_chem_comp.pdbx_modified_date 2020-10-30
_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 250.299
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code VFM
_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 7JNW
_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
VFM C13 C1 C 0 1 N N N N N N -6.914 8.436 11.855 5.453 0.980 -0.174 C13 VFM 1
VFM C15 C2 C 0 1 N N N N N N -5.190 7.126 10.709 4.858 -1.250 0.781 C15 VFM 2
VFM C05 C3 C 0 1 Y N N N N N -5.270 3.000 15.712 -1.632 0.102 0.062 C05 VFM 3
VFM C08 C4 C 0 1 Y N N N N N -4.830 4.820 14.395 0.776 -0.282 -0.123 C08 VFM 4
VFM C11 C5 C 0 1 N N N N N N -5.901 6.493 13.063 3.095 0.212 -0.169 C11 VFM 5
VFM C12 C6 C 0 1 N N N N N N -5.680 7.620 12.078 4.528 -0.231 -0.311 C12 VFM 6
VFM N04 N1 N 0 1 N N N N N N -5.422 0.200 16.034 -3.963 0.332 -1.383 N04 VFM 7
VFM N06 N2 N 0 1 Y N N N N N -3.973 3.057 15.532 -0.865 1.139 0.181 N06 VFM 8
VFM N07 N3 N 0 1 Y N N N N N -3.684 4.206 14.655 0.377 0.937 0.084 N07 VFM 9
VFM N10 N4 N 0 1 N N N N N N -4.740 5.921 13.555 2.099 -0.691 -0.255 N10 VFM 10
VFM O02 O1 O 0 1 N N N N N N -5.376 1.863 18.086 -3.769 -1.225 0.521 O02 VFM 11
VFM O03 O2 O 0 1 N N N N N N -7.372 1.832 16.558 -3.760 1.245 0.900 O03 VFM 12
VFM O14 O3 O 0 1 N N N N N N -6.932 6.135 13.298 2.838 1.382 0.024 O14 VFM 13
VFM S01 S1 S 0 1 N N N N N N -5.919 1.661 16.701 -3.391 0.094 0.153 S01 VFM 14
VFM S09 S2 S 0 1 Y N N N N N -6.182 4.107 14.971 -0.598 -1.301 -0.215 S09 VFM 15
VFM H1 H1 H 0 1 N N N N N N -7.290 8.805 12.821 6.490 0.660 -0.277 H1 VFM 16
VFM H2 H2 H 0 1 N N N N N N -6.676 9.290 11.204 5.218 1.707 -0.952 H2 VFM 17
VFM H3 H3 H 0 1 N N N N N N -7.684 7.813 11.376 5.310 1.438 0.805 H3 VFM 18
VFM H4 H4 H 0 1 N N N N N N -4.281 6.521 10.841 4.199 -2.113 0.684 H4 VFM 19
VFM H5 H5 H 0 1 N N N N N N -5.973 6.513 10.239 5.895 -1.571 0.678 H5 VFM 20
VFM H6 H6 H 0 1 N N N N N N -4.965 7.990 10.066 4.715 -0.793 1.760 H6 VFM 21
VFM H7 H7 H 0 1 N N N N N N -4.904 8.281 12.490 4.672 -0.688 -1.290 H7 VFM 22
VFM H8 H8 H 0 1 N N N N N N -5.781 -0.556 16.581 -4.814 -0.049 -1.648 H8 VFM 23
VFM H9 H9 H 0 1 N N N N N N -5.767 0.127 15.098 -3.446 0.853 -2.018 H9 VFM 24
VFM H10 H10 H 0 1 N N N N N N -3.847 6.297 13.308 2.304 -1.626 -0.408 H10 VFM 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
VFM C15 C12 SING N N 1
VFM C13 C12 SING N N 2
VFM C12 C11 SING N N 3
VFM C11 O14 DOUB N N 4
VFM C11 N10 SING N N 5
VFM N10 C08 SING N N 6
VFM C08 N07 DOUB Y N 7
VFM C08 S09 SING Y N 8
VFM N07 N06 SING Y N 9
VFM S09 C05 SING Y N 10
VFM N06 C05 DOUB Y N 11
VFM C05 S01 SING N N 12
VFM N04 S01 SING N N 13
VFM O03 S01 DOUB N N 14
VFM S01 O02 DOUB N N 15
VFM C13 H1 SING N N 16
VFM C13 H2 SING N N 17
VFM C13 H3 SING N N 18
VFM C15 H4 SING N N 19
VFM C15 H5 SING N N 20
VFM C15 H6 SING N N 21
VFM C12 H7 SING N N 22
VFM N04 H8 SING N N 23
VFM N04 H9 SING N N 24
VFM N10 H10 SING N N 25
#
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
VFM SMILES ACDLabs 12.01 CC(C)C(=O)Nc1nnc(S(N)(=O)=O)s1
VFM InChI InChI 1.03 InChI=1S/C6H10N4O3S2/c1-3(2)4(11)8-5-9-10-6(14-5)15(7,12)13/h3H,1-2H3,(H2,7,12,13)(H,8,9,11)
VFM InChIKey InChI 1.03 DVZGQBMHOJKRPI-UHFFFAOYSA-N
VFM SMILES_CANONICAL CACTVS 3.385 CC(C)C(=O)Nc1sc(nn1)[S](N)(=O)=O
VFM SMILES CACTVS 3.385 CC(C)C(=O)Nc1sc(nn1)[S](N)(=O)=O
VFM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 CC(C)C(=O)Nc1nnc(s1)S(=O)(=O)N
VFM SMILES "OpenEye OEToolkits" 2.0.7 CC(C)C(=O)Nc1nnc(s1)S(=O)(=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
VFM "SYSTEMATIC NAME" ACDLabs 12.01 2-methyl-N-(5-sulfamoyl-1,3,4-thiadiazol-2-yl)propanamide
VFM "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 2-methyl-~{N}-(5-sulfamoyl-1,3,4-thiadiazol-2-yl)propanamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VFM 'Create component' 2020-08-10 RCSB
VFM 'Initial release' 2020-11-04 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
VFM C13 C 3.803 1.449 1
VFM C15 C 3.000 -1.022 2
VFM C05 C 10.510 0.059 3
VFM C08 C 8.083 0.059 4
VFM C11 C 5.541 -0.481 5
VFM C12 C 4.115 -0.018 6
VFM N04 N 12.400 -0.904 7
VFM N06 N 10.046 -1.368 8
VFM N07 N 8.546 -1.368 9
VFM N10 N 6.656 0.522 10
VFM O02 O 13.363 0.986 11
VFM O03 O 11.473 1.949 12
VFM O14 O 5.853 -1.949 13
VFM S01 S 11.936 0.522 14
VFM S09 S 9.296 0.940 15
#
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
VFM C15 C12 SINGLE NONE 1
VFM C13 C12 SINGLE NONE 2
VFM C12 C11 SINGLE NONE 3
VFM C11 O14 DOUBLE NONE 4
VFM C11 N10 SINGLE NONE 5
VFM N10 C08 SINGLE NONE 6
VFM C08 N07 DOUBLE NONE 7
VFM C08 S09 SINGLE NONE 8
VFM N07 N06 SINGLE NONE 9
VFM S09 C05 SINGLE NONE 10
VFM N06 C05 DOUBLE NONE 11
VFM C05 S01 SINGLE NONE 12
VFM N04 S01 SINGLE NONE 13
VFM O03 S01 DOUBLE NONE 14
VFM S01 O02 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
VFM MurckoScaffold S1 scaffold c1nncs1 InChI=1S/C2H2N2S/c1-3-4-2-5-1/h1-2H MBIZXFATKUQOOA-UHFFFAOYSA-N
VFM amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
VFM thiadiazole F2 fragment c1nncs1 InChI=1S/C2H2N2S/c1-3-4-2-5-1/h1-2H MBIZXFATKUQOOA-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
VFM C05 S1 1
VFM C08 S1 1
VFM N06 S1 1
VFM N07 S1 1
VFM S09 S1 1
VFM N10 F1 1
VFM C11 F1 1
VFM O14 F1 1
VFM C12 F1 1
VFM C05 F2 1
VFM N06 F2 1
VFM N07 F2 1
VFM C08 F2 1
VFM S09 F2 1
#
_pdbe_chem_comp_rdkit_properties.comp_id VFM
_pdbe_chem_comp_rdkit_properties.exactmw 250.019
_pdbe_chem_comp_rdkit_properties.amw 250.305
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 7
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 15
_pdbe_chem_comp_rdkit_properties.NumAtoms 25
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 9
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 1
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.500
_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 104.975
_pdbe_chem_comp_rdkit_properties.tpsa 115.040
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.709
_pdbe_chem_comp_rdkit_properties.CrippenMR 54.496
_pdbe_chem_comp_rdkit_properties.chi0v 8.463
_pdbe_chem_comp_rdkit_properties.chi1v 5.433
_pdbe_chem_comp_rdkit_properties.chi2v 3.044
_pdbe_chem_comp_rdkit_properties.chi3v 3.044
_pdbe_chem_comp_rdkit_properties.chi4v 1.732
_pdbe_chem_comp_rdkit_properties.chi0n 16.830
_pdbe_chem_comp_rdkit_properties.chi1n 8.018
_pdbe_chem_comp_rdkit_properties.chi2n 1.028
_pdbe_chem_comp_rdkit_properties.chi3n 1.028
_pdbe_chem_comp_rdkit_properties.chi4n 0.495
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.060
_pdbe_chem_comp_rdkit_properties.kappa1 4.073
_pdbe_chem_comp_rdkit_properties.kappa2 4.207
_pdbe_chem_comp_rdkit_properties.kappa3 3.217
_pdbe_chem_comp_rdkit_properties.Phi 1.142
#
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
VFM UniChem ZINC ZINC000064573294
VFM UniChem SureChEMBL SCHEMBL11049891
VFM UniChem 'EPA CompTox Dashboard' DTXSID30607703
VFM UniChem PubChem 20475140
VFM UniChem Nikkaji J10.739E
VFM UniChem BindingDb 50331835
#
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
VFM C13 -3.488 0.758 1.210 ETKDGv3 1
VFM C15 -3.846 -0.683 -0.830 ETKDGv3 2
VFM C05 3.196 -0.595 -0.465 ETKDGv3 3
VFM C08 0.845 -1.131 0.024 ETKDGv3 4
VFM C11 -1.537 -0.238 -0.001 ETKDGv3 5
VFM C12 -2.975 -0.441 0.406 ETKDGv3 6
VFM N04 5.238 1.243 0.283 ETKDGv3 7
VFM N06 3.009 -1.807 -0.053 ETKDGv3 8
VFM N07 1.665 -2.112 0.229 ETKDGv3 9
VFM N10 -0.562 -1.256 0.278 ETKDGv3 10
VFM O02 4.728 0.653 -2.246 ETKDGv3 11
VFM O03 5.785 -1.069 -0.865 ETKDGv3 12
VFM O14 -1.212 0.811 -0.621 ETKDGv3 13
VFM S01 4.776 0.044 -0.873 ETKDGv3 14
VFM S09 1.684 0.342 -0.552 ETKDGv3 15
VFM H1 -2.848 0.918 2.105 ETKDGv3 16
VFM H2 -4.527 0.569 1.556 ETKDGv3 17
VFM H3 -3.481 1.683 0.593 ETKDGv3 18
VFM H4 -4.897 -0.878 -0.525 ETKDGv3 19
VFM H5 -3.477 -1.569 -1.389 ETKDGv3 20
VFM H6 -3.828 0.200 -1.505 ETKDGv3 21
VFM H7 -3.050 -1.339 1.058 ETKDGv3 22
VFM H8 4.502 1.984 0.266 ETKDGv3 23
VFM H9 5.192 0.793 1.225 ETKDGv3 24
VFM H10 -0.894 -2.157 0.691 ETKDGv3 25
#