data_HRX
#
_chem_comp.id HRX
_chem_comp.name "[1-hydroxy-3-(pyridin-3-yl)propane-1,1-diyl]bis(phosphonic acid)"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H13 N O7 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2014-12-10
_chem_comp.pdbx_modified_date 2015-04-10
_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 297.139
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code HRX
_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 4RXC
_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
HRX O17 O17 O 0 1 N N N N N N 32.391 -1.012 14.070 -1.856 -2.826 0.068 O17 HRX 1
HRX P14 P14 P 0 1 N N N N N N 33.673 -0.446 13.490 -2.202 -1.306 -0.334 P14 HRX 2
HRX O16 O16 O 0 1 N N N N N N 34.790 -1.468 13.562 -2.095 -1.148 -1.802 O16 HRX 3
HRX O15 O15 O 0 1 N N N N N N 34.005 0.934 13.980 -3.701 -0.954 0.136 O15 HRX 4
HRX C8 C8 C 0 1 N N N N N N 33.279 -0.187 11.721 -1.027 -0.178 0.486 C8 HRX 5
HRX P9 P9 P 0 1 N N N N N N 34.791 0.199 10.787 -1.418 1.543 0.030 P9 HRX 6
HRX O11 O11 O 0 1 N N N N N N 35.437 1.271 11.629 -1.303 1.715 -1.567 O11 HRX 7
HRX O12 O12 O 0 1 N N N N N N 34.286 0.656 9.413 -2.796 1.867 0.462 O12 HRX 8
HRX O10 O10 O 0 1 N N N N N N 35.550 -1.093 10.725 -0.381 2.539 0.754 O10 HRX 9
HRX O13 O13 O 0 1 N N N N N N 32.673 -1.379 11.230 -1.130 -0.331 1.903 O13 HRX 10
HRX C7 C7 C 0 1 N N N N N N 32.306 0.957 11.433 0.397 -0.513 0.039 C7 HRX 11
HRX C9 C9 C 0 1 N N N N N N 31.001 0.901 12.209 1.383 0.433 0.727 C9 HRX 12
HRX C6 C6 C 0 1 Y N N N N N 29.810 1.554 11.528 2.786 0.104 0.287 C6 HRX 13
HRX C5 C5 C 0 1 Y N N N N N 29.060 2.506 12.228 3.335 0.720 -0.827 C5 HRX 14
HRX C2 C2 C 0 1 Y N N N N N 27.949 3.084 11.631 4.630 0.386 -1.195 C2 HRX 15
HRX C3 C3 C 0 1 Y N N N N N 27.623 2.707 10.330 5.325 -0.543 -0.444 C3 HRX 16
HRX N4 N4 N 0 1 Y N N N N N 28.357 1.790 9.667 4.771 -1.110 0.610 N4 HRX 17
HRX C1 C1 C 0 1 Y N N N N N 29.426 1.196 10.235 3.544 -0.812 0.992 C1 HRX 18
HRX H1 H1 H 0 1 N N N N N N 32.543 -1.902 14.366 -2.443 -3.482 -0.333 H1 HRX 19
HRX H2 H2 H 0 1 N N N N N N 34.908 0.957 14.275 -3.844 -1.036 1.089 H2 HRX 20
HRX H3 H3 H 0 1 N N N N N N 35.429 2.094 11.155 -0.424 1.519 -1.921 H3 HRX 21
HRX H4 H4 H 0 1 N N N N N N 35.581 -1.400 9.826 -0.530 3.474 0.556 H4 HRX 22
HRX H5 H5 H 0 1 N N N N N N 31.886 -1.564 11.729 -0.935 -1.224 2.217 H5 HRX 23
HRX H6 H6 H 0 1 N N N N N N 32.809 1.903 11.680 0.631 -1.542 0.311 H6 HRX 24
HRX H7 H7 H 0 1 N N N N N N 32.066 0.939 10.360 0.476 -0.396 -1.042 H7 HRX 25
HRX H8 H8 H 0 1 N N N N N N 30.755 -0.157 12.383 1.149 1.463 0.454 H8 HRX 26
HRX H9 H9 H 0 1 N N N N N N 31.158 1.404 13.174 1.305 0.317 1.808 H9 HRX 27
HRX H10 H10 H 0 1 N N N N N N 29.345 2.790 13.230 2.768 1.442 -1.395 H10 HRX 28
HRX H11 H11 H 0 1 N N N N N N 27.351 3.809 12.162 5.089 0.846 -2.057 H11 HRX 29
HRX H12 H12 H 0 1 N N N N N N 26.769 3.156 9.845 6.334 -0.808 -0.724 H12 HRX 30
HRX H13 H13 H 0 1 N N N N N N 29.982 0.447 9.692 3.123 -1.297 1.860 H13 HRX 31
#
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
HRX O12 P9 DOUB N N 1
HRX N4 C1 DOUB Y N 2
HRX N4 C3 SING Y N 3
HRX C1 C6 SING Y N 4
HRX C3 C2 DOUB Y N 5
HRX O10 P9 SING N N 6
HRX P9 O11 SING N N 7
HRX P9 C8 SING N N 8
HRX O13 C8 SING N N 9
HRX C7 C8 SING N N 10
HRX C7 C9 SING N N 11
HRX C6 C9 SING N N 12
HRX C6 C5 DOUB Y N 13
HRX C2 C5 SING Y N 14
HRX C8 P14 SING N N 15
HRX P14 O16 DOUB N N 16
HRX P14 O15 SING N N 17
HRX P14 O17 SING N N 18
HRX O17 H1 SING N N 19
HRX O15 H2 SING N N 20
HRX O11 H3 SING N N 21
HRX O10 H4 SING N N 22
HRX O13 H5 SING N N 23
HRX C7 H6 SING N N 24
HRX C7 H7 SING N N 25
HRX C9 H8 SING N N 26
HRX C9 H9 SING N N 27
HRX C5 H10 SING N N 28
HRX C2 H11 SING N N 29
HRX C3 H12 SING N N 30
HRX C1 H13 SING N N 31
#
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
HRX SMILES ACDLabs 12.01 O=P(O)(O)C(O)(CCc1cccnc1)P(=O)(O)O
HRX InChI InChI 1.03 InChI=1S/C8H13NO7P2/c10-8(17(11,12)13,18(14,15)16)4-3-7-2-1-5-9-6-7/h1-2,5-6,10H,3-4H2,(H2,11,12,13)(H2,14,15,16)
HRX InChIKey InChI 1.03 ILROXFQHACCDLA-UHFFFAOYSA-N
HRX SMILES_CANONICAL CACTVS 3.385 OC(CCc1cccnc1)([P](O)(O)=O)[P](O)(O)=O
HRX SMILES CACTVS 3.385 OC(CCc1cccnc1)([P](O)(O)=O)[P](O)(O)=O
HRX SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 c1cc(cnc1)CCC(O)(P(=O)(O)O)P(=O)(O)O
HRX SMILES "OpenEye OEToolkits" 1.7.6 c1cc(cnc1)CCC(O)(P(=O)(O)O)P(=O)(O)O
#
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
HRX "SYSTEMATIC NAME" ACDLabs 12.01 "[1-hydroxy-3-(pyridin-3-yl)propane-1,1-diyl]bis(phosphonic acid)"
HRX "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(1-oxidanyl-1-phosphono-3-pyridin-3-yl-propyl)phosphonic acid"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
HRX 'Create component' 2014-12-10 RCSB
HRX 'Initial release' 2015-04-15 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
HRX O17 O 6.747 4.107 1
HRX P14 P 5.598 3.143 2
HRX O16 O 5.598 4.643 3
HRX O15 O 4.098 3.143 4
HRX C8 C 5.598 1.643 5
HRX P9 P 7.098 1.643 6
HRX O11 O 8.062 2.792 7
HRX O12 O 8.598 1.643 8
HRX O10 O 7.098 0.142 9
HRX O13 O 4.098 1.643 10
HRX C7 C 5.598 0.142 11
HRX C9 C 4.299 -0.608 12
HRX C6 C 4.299 -2.107 13
HRX C5 C 5.598 -2.857 14
HRX C2 C 5.598 -4.357 15
HRX C3 C 4.299 -5.107 16
HRX N4 N 3.000 -4.357 17
HRX C1 C 3.000 -2.857 18
#
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
HRX O12 P9 DOUBLE NONE 1
HRX N4 C1 SINGLE NONE 2
HRX N4 C3 DOUBLE NONE 3
HRX C1 C6 DOUBLE NONE 4
HRX C3 C2 SINGLE NONE 5
HRX O10 P9 SINGLE NONE 6
HRX P9 O11 SINGLE NONE 7
HRX P9 C8 SINGLE NONE 8
HRX O13 C8 SINGLE NONE 9
HRX C7 C8 SINGLE NONE 10
HRX C7 C9 SINGLE NONE 11
HRX C6 C9 SINGLE NONE 12
HRX C6 C5 SINGLE NONE 13
HRX C2 C5 DOUBLE NONE 14
HRX C8 P14 SINGLE NONE 15
HRX P14 O16 DOUBLE NONE 16
HRX P14 O15 SINGLE NONE 17
HRX P14 O17 SINGLE NONE 18
#
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
HRX MurckoScaffold S1 scaffold c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-UHFFFAOYSA-N
HRX pyridine F1 fragment c1ccncc1 InChI=1S/C5H5N/c1-2-4-6-5-3-1/h1-5H JUJWROOIHBZHMG-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
HRX C6 S1 1
HRX C5 S1 1
HRX C2 S1 1
HRX C3 S1 1
HRX N4 S1 1
HRX C1 S1 1
HRX C3 F1 1
HRX C2 F1 1
HRX C5 F1 1
HRX C6 F1 1
HRX C1 F1 1
HRX N4 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id HRX
_pdbe_chem_comp_rdkit_properties.exactmw 297.017
_pdbe_chem_comp_rdkit_properties.amw 297.140
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 8
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 5
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 10
_pdbe_chem_comp_rdkit_properties.NumHBD 5
_pdbe_chem_comp_rdkit_properties.NumHBA 8
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 18
_pdbe_chem_comp_rdkit_properties.NumAtoms 31
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 10
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_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 121.341
_pdbe_chem_comp_rdkit_properties.tpsa 148.180
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.039
_pdbe_chem_comp_rdkit_properties.CrippenMR 61.330
_pdbe_chem_comp_rdkit_properties.chi0v 9.988
_pdbe_chem_comp_rdkit_properties.chi1v 7.029
_pdbe_chem_comp_rdkit_properties.chi2v 4.738
_pdbe_chem_comp_rdkit_properties.chi3v 4.738
_pdbe_chem_comp_rdkit_properties.chi4v 2.306
_pdbe_chem_comp_rdkit_properties.chi0n 21.199
_pdbe_chem_comp_rdkit_properties.chi1n 9.985
_pdbe_chem_comp_rdkit_properties.chi2n 1.560
_pdbe_chem_comp_rdkit_properties.chi3n 1.560
_pdbe_chem_comp_rdkit_properties.chi4n 0.720
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.590
_pdbe_chem_comp_rdkit_properties.kappa1 5.070
_pdbe_chem_comp_rdkit_properties.kappa2 5.187
_pdbe_chem_comp_rdkit_properties.kappa3 3.243
_pdbe_chem_comp_rdkit_properties.Phi 1.461
#
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
HRX UniChem ChEMBL CHEMBL293522
HRX UniChem PDBe HRX
HRX UniChem SureChEMBL SCHEMBL8710665
HRX UniChem 'PubChem TPHARMA' 14898217
HRX UniChem PubChem 128523
HRX UniChem ACTor 104261-69-0
HRX UniChem Nikkaji J635.456D
HRX UniChem BindingDb 50098382
HRX UniChem 'EPA CompTox Dashboard' DTXSID70146363
HRX UniChem BRENDA 113640
#
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
HRX O17 -2.968 -1.735 -0.934 ETKDGv3 1
HRX P14 -2.012 -1.494 0.443 ETKDGv3 2
HRX O16 -2.889 -1.540 1.675 ETKDGv3 3
HRX O15 -0.877 -2.743 0.551 ETKDGv3 4
HRX C8 -1.145 0.130 0.340 ETKDGv3 5
HRX P9 -2.334 1.480 0.718 ETKDGv3 6
HRX O11 -2.973 1.264 2.270 ETKDGv3 7
HRX O12 -3.462 1.479 -0.290 ETKDGv3 8
HRX O10 -1.532 2.972 0.667 ETKDGv3 9
HRX O13 -0.100 0.173 1.278 ETKDGv3 10
HRX C7 -0.575 0.367 -1.082 ETKDGv3 11
HRX C9 0.527 -0.609 -1.543 ETKDGv3 12
HRX C6 1.825 -0.421 -0.797 ETKDGv3 13
HRX C5 2.618 0.818 -0.986 ETKDGv3 14
HRX C2 3.763 0.987 -0.318 ETKDGv3 15
HRX C3 4.228 -0.070 0.599 ETKDGv3 16
HRX N4 3.526 -1.156 0.750 ETKDGv3 17
HRX C1 2.291 -1.362 0.043 ETKDGv3 18
HRX H1 -3.760 -1.155 -0.804 ETKDGv3 19
HRX H2 -1.409 -3.576 0.481 ETKDGv3 20
HRX H3 -3.545 2.058 2.420 ETKDGv3 21
HRX H4 -1.545 3.241 -0.286 ETKDGv3 22
HRX H5 -0.492 0.005 2.174 ETKDGv3 23
HRX H6 -0.172 1.401 -1.150 ETKDGv3 24
HRX H7 -1.407 0.311 -1.817 ETKDGv3 25
HRX H8 0.727 -0.417 -2.619 ETKDGv3 26
HRX H9 0.172 -1.657 -1.486 ETKDGv3 27
HRX H10 2.275 1.587 -1.666 ETKDGv3 28
HRX H11 4.347 1.889 -0.450 ETKDGv3 29
HRX H12 5.152 0.055 1.146 ETKDGv3 30
HRX H13 1.745 -2.282 0.202 ETKDGv3 31
#