data_PMB
#
_chem_comp.id PMB
_chem_comp.name "PARA-MERCURY-BENZENESULFONIC ACID"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C6 H5 Hg O3 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 1999-07-08
_chem_comp.pdbx_modified_date 2011-06-04
_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 357.757
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code PMB
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 1XZC
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
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
PMB C1 C1 C 0 1 Y N N N N N -6.407 40.834 26.642 0.000 0.057 2.562 C1 PMB 1
PMB C2 C2 C 0 1 Y N N N N N -5.144 41.395 26.640 -1.197 0.049 1.871 C2 PMB 2
PMB C3 C3 C 0 1 Y N N N N N -4.971 42.745 26.428 -1.197 0.030 0.489 C3 PMB 3
PMB C4 C4 C 0 1 Y N N N N N -6.075 43.537 26.202 0.000 0.019 -0.201 C4 PMB 4
PMB C5 C5 C 0 1 Y N N N N N -7.347 42.990 26.214 1.197 0.028 0.489 C5 PMB 5
PMB C6 C6 C 0 1 Y N N N N N -7.516 41.631 26.429 1.197 0.051 1.871 C6 PMB 6
PMB S1 S1 S 0 1 N N N N N N -6.592 39.084 26.920 0.000 0.081 4.324 S1 PMB 7
PMB O1 O1 O 0 1 N N N N N N -7.044 38.945 28.300 -1.261 0.613 4.703 O1 PMB 8
PMB O2 O2 O 0 1 N N N N N N -5.279 38.486 26.670 1.263 0.610 4.703 O2 PMB 9
PMB O3 O3 O 0 1 N N N N N N -7.586 38.631 25.953 -0.001 -1.364 4.799 O3 PMB 10
PMB HG HG HG 0 0 N N N N N N -5.637 45.305 25.913 0.000 -0.010 -2.301 HG PMB 11
PMB H2 H2 H 0 1 N N N N N N -4.261 40.756 26.810 -2.132 0.057 2.411 H2 PMB 12
PMB H3 H3 H 0 1 N N N N N N -3.960 43.186 26.439 -2.132 0.023 -0.050 H3 PMB 13
PMB H5 H5 H 0 1 N N N N N N -8.225 43.636 26.052 2.132 0.020 -0.050 H5 PMB 14
PMB H6 H6 H 0 1 N N N N N N -8.525 41.187 26.430 2.132 0.058 2.411 H6 PMB 15
PMB HO3 HO3 H 0 1 N N N N N N -7.684 37.697 26.101 -0.001 -1.341 5.766 HO3 PMB 16
#
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
PMB C1 C2 DOUB Y N 1
PMB C1 C6 SING Y N 2
PMB C1 S1 SING N N 3
PMB C2 C3 SING Y N 4
PMB C2 H2 SING N N 5
PMB C3 C4 DOUB Y N 6
PMB C3 H3 SING N N 7
PMB C4 C5 SING Y N 8
PMB C4 HG SING N N 9
PMB C5 C6 DOUB Y N 10
PMB C5 H5 SING N N 11
PMB C6 H6 SING N N 12
PMB S1 O1 DOUB N N 13
PMB S1 O2 DOUB N N 14
PMB S1 O3 SING N N 15
PMB O3 HO3 SING N N 16
#
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
PMB SMILES ACDLabs 10.04 "[Hg]c1ccc(cc1)S(=O)(=O)O"
PMB SMILES_CANONICAL CACTVS 3.341 O[S](=O)(=O)c1ccc([Hg])cc1
PMB SMILES CACTVS 3.341 O[S](=O)(=O)c1ccc([Hg])cc1
PMB SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 c1cc(ccc1S(=O)(=O)O)[Hg]
PMB SMILES "OpenEye OEToolkits" 1.5.0 c1cc(ccc1S(=O)(=O)O)[Hg]
PMB InChI InChI 1.03 InChI=1S/C6H5O3S.Hg/c7-10(8,9)6-4-2-1-3-5-6;/h2-5H,(H,7,8,9);
PMB InChIKey InChI 1.03 KQAOIKIZSJJTII-UHFFFAOYSA-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
PMB "SYSTEMATIC NAME" ACDLabs 10.04 (4-sulfophenyl)mercury
PMB "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 (4-sulfophenyl)mercury
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
PMB 'Create component' 1999-07-08 EBI
PMB 'Modify descriptor' 2011-06-04 RCSB
#
_pdbe_chem_comp_drugbank_details.comp_id PMB
_pdbe_chem_comp_drugbank_details.drugbank_id DB02983
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name 'Para-Mercury-Benzenesulfonic Acid'
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id PMB
_pdbe_chem_comp_synonyms.name 'Para-Mercury-Benzenesulfonic Acid'
_pdbe_chem_comp_synonyms.provenance DrugBank
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id PMB
_pdbe_chem_comp_drugbank_classification.drugbank_id DB02983
_pdbe_chem_comp_drugbank_classification.parent 'Organosulfonic acids'
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Organic sulfonic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.superclass 'Organic acids and derivatives'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as organosulfonic acids. These are compounds containing the sulfonic acid group, which has the general structure RS(=O)2OH (R is not a hydrogen atom).'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
PMB DB02983 'Estrogen receptor beta' Humans Q92731 yes 1
PMB DB02983 Galectin-10 Humans Q05315 unknown 2
#
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
PMB C1 C 4.500 0.517 1
PMB C2 C 3.201 -0.233 2
PMB C3 C 3.201 -1.732 3
PMB C4 C 4.500 -2.482 4
PMB C5 C 5.799 -1.732 5
PMB C6 C 5.799 -0.233 6
PMB S1 S 4.500 2.018 7
PMB O1 O 4.500 3.518 8
PMB O2 O 6.000 2.018 9
PMB O3 O 3.000 2.018 10
PMB HG Hg 4.500 -3.982 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
PMB C1 C2 DOUBLE NONE 1
PMB C1 C6 SINGLE NONE 2
PMB C1 S1 SINGLE NONE 3
PMB C2 C3 SINGLE NONE 4
PMB C3 C4 DOUBLE NONE 5
PMB C4 C5 SINGLE NONE 6
PMB C4 HG SINGLE NONE 7
PMB C5 C6 DOUBLE NONE 8
PMB S1 O1 DOUBLE NONE 9
PMB S1 O2 DOUBLE NONE 10
PMB S1 O3 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
PMB MurckoScaffold S1 scaffold c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
PMB phenyl F1 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-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
PMB C1 S1 1
PMB C2 S1 1
PMB C3 S1 1
PMB C4 S1 1
PMB C5 S1 1
PMB C6 S1 1
PMB C1 F1 1
PMB C2 F1 1
PMB C3 F1 1
PMB C4 F1 1
PMB C5 F1 1
PMB C6 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id PMB
_pdbe_chem_comp_rdkit_properties.exactmw 358.967
_pdbe_chem_comp_rdkit_properties.amw 357.760
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 3
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 2
_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 16
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_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 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 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 88.262
_pdbe_chem_comp_rdkit_properties.tpsa 54.370
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.003
_pdbe_chem_comp_rdkit_properties.CrippenMR 36.461
_pdbe_chem_comp_rdkit_properties.chi0v 11.654
_pdbe_chem_comp_rdkit_properties.chi1v 6.715
_pdbe_chem_comp_rdkit_properties.chi2v 2.982
_pdbe_chem_comp_rdkit_properties.chi3v 2.982
_pdbe_chem_comp_rdkit_properties.chi4v 1.491
_pdbe_chem_comp_rdkit_properties.chi0n 10.340
_pdbe_chem_comp_rdkit_properties.chi1n 4.966
_pdbe_chem_comp_rdkit_properties.chi2n 0.904
_pdbe_chem_comp_rdkit_properties.chi3n 0.904
_pdbe_chem_comp_rdkit_properties.chi4n 0.452
_pdbe_chem_comp_rdkit_properties.hallKierAlpha 0.065
_pdbe_chem_comp_rdkit_properties.kappa1 4.343
_pdbe_chem_comp_rdkit_properties.kappa2 3.205
_pdbe_chem_comp_rdkit_properties.kappa3 2.537
_pdbe_chem_comp_rdkit_properties.Phi 1.265
#
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
PMB UniChem DrugBank DB02983
PMB UniChem ChEBI 49823
PMB UniChem SureChEMBL SCHEMBL3980997
PMB UniChem PubChem 65258
PMB UniChem ACTor 17014-79-8
PMB UniChem BRENDA 54316
PMB UniChem 'Probes And Drugs' PD007480
PMB UniChem 'EPA CompTox Dashboard' DTXSID30168809
#
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
PMB C1 -0.527 -0.103 -0.067 ETKDGv3 1
PMB C2 0.149 0.877 -0.688 ETKDGv3 2
PMB C3 1.628 0.879 -0.679 ETKDGv3 3
PMB C4 2.295 -0.099 -0.057 ETKDGv3 4
PMB C5 1.557 -1.184 0.621 ETKDGv3 5
PMB C6 0.218 -1.188 0.616 ETKDGv3 6
PMB S1 -2.286 -0.116 -0.082 ETKDGv3 7
PMB O1 -2.806 -0.850 1.122 ETKDGv3 8
PMB O2 -2.767 -0.804 -1.328 ETKDGv3 9
PMB O3 -2.873 1.460 -0.053 ETKDGv3 10
PMB HG 4.360 -0.094 -0.047 ETKDGv3 11
PMB H2 -0.377 1.672 -1.201 ETKDGv3 12
PMB H3 2.172 1.670 -1.176 ETKDGv3 13
PMB H5 2.104 -1.974 1.118 ETKDGv3 14
PMB H6 -0.317 -1.989 1.111 ETKDGv3 15
PMB HO3 -2.529 1.845 0.792 ETKDGv3 16
#