data_VCX
#
_chem_comp.id VCX
_chem_comp.name "methyl 4-bromo-5-methyl-1H-pyrazole-3-carboxylate"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C6 H7 Br N2 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2022-08-29
_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 219.036
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code VCX
_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 7FLH
_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
VCX N1 N1 N 0 1 Y N N N N N -2.432 11.905 -35.027 0.491 2.596 -0.000 N1 VCX 1
VCX O1 O1 O 0 1 N N N N N N -3.016 16.109 -34.544 -3.116 0.460 0.000 O1 VCX 2
VCX C1 C1 C 0 1 Y N N N N N -1.165 11.922 -35.557 1.378 1.570 0.000 C1 VCX 3
VCX C5 C2 C 0 1 N N N N N N -4.076 15.439 -33.938 -4.228 -0.474 -0.000 C5 VCX 4
VCX C4 C3 C 0 1 N N N N N N -1.994 15.418 -35.109 -1.875 -0.065 0.000 C4 VCX 5
VCX C3 C4 C 0 1 Y N N N N N -1.916 13.966 -35.142 -0.698 0.824 0.000 C3 VCX 6
VCX C2 C5 C 0 1 Y N N N N N -0.824 13.235 -35.628 0.660 0.422 0.000 C2 VCX 7
VCX BR BR1 BR 0 0 N N N N N N 0.765 13.908 -36.243 1.330 -1.347 0.000 BR VCX 8
VCX O O2 O 0 1 N N N N N N -1.152 16.106 -35.587 -1.727 -1.271 -0.000 O VCX 9
VCX N N2 N 0 1 Y N N N N N -2.900 13.128 -34.766 -0.711 2.142 0.000 N VCX 10
VCX C C6 C 0 1 N N N N N N -0.405 10.752 -35.952 2.880 1.686 -0.001 C VCX 11
VCX H1 H1 H 0 1 N N N N N N -2.949 11.066 -34.855 0.729 3.536 0.003 H1 VCX 12
VCX H2 H2 H 0 1 N N N N N N -4.796 16.171 -33.544 -5.167 0.079 -0.000 H2 VCX 13
VCX H3 H3 H 0 1 N N N N N N -4.575 14.797 -34.679 -4.175 -1.101 -0.890 H3 VCX 14
VCX H4 H4 H 0 1 N N N N N N -3.694 14.819 -33.113 -4.175 -1.101 0.890 H4 VCX 15
VCX H5 H5 H 0 1 N N N N N N 0.192 10.397 -35.099 3.243 1.714 1.027 H5 VCX 16
VCX H6 H6 H 0 1 N N N N N N -1.095 9.958 -36.272 3.311 0.826 -0.515 H6 VCX 17
VCX H7 H7 H 0 1 N N N N N N 0.265 11.014 -36.784 3.174 2.601 -0.514 H7 VCX 18
#
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
VCX BR C2 SING N N 1
VCX C C1 SING N N 2
VCX C2 C1 DOUB Y N 3
VCX C2 C3 SING Y N 4
VCX O C4 DOUB N N 5
VCX C1 N1 SING Y N 6
VCX C3 C4 SING N N 7
VCX C3 N DOUB Y N 8
VCX C4 O1 SING N N 9
VCX N1 N SING Y N 10
VCX O1 C5 SING N N 11
VCX N1 H1 SING N N 12
VCX C5 H2 SING N N 13
VCX C5 H3 SING N N 14
VCX C5 H4 SING N N 15
VCX C H5 SING N N 16
VCX C H6 SING N N 17
VCX C H7 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
VCX SMILES ACDLabs 12.01 Brc1c(C)[NH]nc1C(=O)OC
VCX InChI InChI 1.06 InChI=1S/C6H7BrN2O2/c1-3-4(7)5(9-8-3)6(10)11-2/h1-2H3,(H,8,9)
VCX InChIKey InChI 1.06 QOTBTHHHTJJTRR-UHFFFAOYSA-N
VCX SMILES_CANONICAL CACTVS 3.385 COC(=O)c1n[nH]c(C)c1Br
VCX SMILES CACTVS 3.385 COC(=O)c1n[nH]c(C)c1Br
VCX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 Cc1c(c(n[nH]1)C(=O)OC)Br
VCX SMILES "OpenEye OEToolkits" 2.0.7 Cc1c(c(n[nH]1)C(=O)OC)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
VCX "SYSTEMATIC NAME" ACDLabs 12.01 "methyl 4-bromo-5-methyl-1H-pyrazole-3-carboxylate"
VCX "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "methyl 4-bromanyl-5-methyl-1~{H}-pyrazole-3-carboxylate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VCX 'Create component' 2022-08-29 RCSB
VCX '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
VCX N1 N 5.640 -1.981 1
VCX O1 O 8.764 1.384 2
VCX C1 C 4.427 -1.099 3
VCX C5 C 9.645 2.597 4
VCX C4 C 7.272 1.541 5
VCX C3 C 6.390 0.327 6
VCX C2 C 4.890 0.327 7
VCX BR Br 4.008 1.541 8
VCX O O 6.662 2.911 9
VCX N N 6.854 -1.099 10
VCX C C 3.000 -1.563 11
#
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
VCX BR C2 SINGLE NONE 1
VCX C C1 SINGLE NONE 2
VCX C2 C1 DOUBLE NONE 3
VCX C2 C3 SINGLE NONE 4
VCX O C4 DOUBLE NONE 5
VCX C1 N1 SINGLE NONE 6
VCX C3 C4 SINGLE NONE 7
VCX C3 N DOUBLE NONE 8
VCX C4 O1 SINGLE NONE 9
VCX N1 N SINGLE NONE 10
VCX O1 C5 SINGLE NONE 11
#
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
VCX MurckoScaffold S1 scaffold 'c1cn[nH]c1' InChI=1S/C3H4N2/c1-2-4-5-3-1/h1-3H,(H,4,5) WTKZEGDFNFYCGP-UHFFFAOYSA-N
VCX pyrazole F1 fragment 'c1cn[nH]c1' InChI=1S/C3H4N2/c1-2-4-5-3-1/h1-3H,(H,4,5) WTKZEGDFNFYCGP-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
VCX N1 S1 1
VCX C1 S1 1
VCX C3 S1 1
VCX C2 S1 1
VCX N S1 1
VCX C1 F1 1
VCX C2 F1 1
VCX C3 F1 1
VCX N F1 1
VCX N1 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id VCX
_pdbe_chem_comp_rdkit_properties.exactmw 217.969
_pdbe_chem_comp_rdkit_properties.amw 219.038
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 11
_pdbe_chem_comp_rdkit_properties.NumAtoms 18
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.333
_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 81.959
_pdbe_chem_comp_rdkit_properties.tpsa 54.980
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.158
_pdbe_chem_comp_rdkit_properties.CrippenMR 41.832
_pdbe_chem_comp_rdkit_properties.chi0v 6.675
_pdbe_chem_comp_rdkit_properties.chi1v 3.242
_pdbe_chem_comp_rdkit_properties.chi2v 1.703
_pdbe_chem_comp_rdkit_properties.chi3v 1.703
_pdbe_chem_comp_rdkit_properties.chi4v 0.799
_pdbe_chem_comp_rdkit_properties.chi0n 12.089
_pdbe_chem_comp_rdkit_properties.chi1n 5.896
_pdbe_chem_comp_rdkit_properties.chi2n 0.952
_pdbe_chem_comp_rdkit_properties.chi3n 0.952
_pdbe_chem_comp_rdkit_properties.chi4n 0.479
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.840
_pdbe_chem_comp_rdkit_properties.kappa1 2.895
_pdbe_chem_comp_rdkit_properties.kappa2 3.042
_pdbe_chem_comp_rdkit_properties.kappa3 1.424
_pdbe_chem_comp_rdkit_properties.Phi 0.801
#
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
VCX UniChem PDBe VCX
VCX UniChem ZINC ZINC000008730180
VCX UniChem ChemicalBook CB72526840
VCX UniChem 'EPA CompTox Dashboard' DTXSID90594721
VCX UniChem eMolecules 30133862
VCX UniChem eMolecules 4853003
VCX UniChem SureChEMBL SCHEMBL14857837
VCX UniChem PubChem 18526038
VCX UniChem Mcule MCULE-2153145437
#
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
VCX N1 -1.793 -1.636 -0.188 ETKDGv3 1
VCX O1 2.246 0.656 -0.063 ETKDGv3 2
VCX C1 -1.976 -0.230 -0.147 ETKDGv3 3
VCX C5 3.656 0.843 -0.038 ETKDGv3 4
VCX C4 1.654 -0.609 -0.109 ETKDGv3 5
VCX C3 0.190 -0.736 -0.133 ETKDGv3 6
VCX C2 -0.789 0.360 -0.108 ETKDGv3 7
VCX BR -0.457 2.243 -0.012 ETKDGv3 8
VCX O 2.370 -1.648 -0.131 ETKDGv3 9
VCX N -0.417 -1.879 -0.178 ETKDGv3 10
VCX C -3.306 0.450 -0.106 ETKDGv3 11
VCX H1 -2.531 -2.373 -0.212 ETKDGv3 12
VCX H2 4.088 0.357 0.863 ETKDGv3 13
VCX H3 3.879 1.929 -0.002 ETKDGv3 14
VCX H4 4.113 0.412 -0.953 ETKDGv3 15
VCX H5 -3.443 0.946 0.877 ETKDGv3 16
VCX H6 -3.367 1.209 -0.914 ETKDGv3 17
VCX H7 -4.118 -0.294 -0.252 ETKDGv3 18
#