data_2PN
#
_chem_comp.id 2PN
_chem_comp.name "IMIDODIPHOSPHORIC ACID"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "H5 N O6 P2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2006-06-15
_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 176.990
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 2PN
_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 2HAW
_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
2PN P1 P1 P 0 1 N N N N N N -10.801 -7.714 125.317 1.350 -0.065 -0.057 P1 2PN 1
2PN O1 O1 O 0 1 N N N N N N -10.307 -8.343 124.026 1.330 -1.004 1.087 O1 2PN 2
2PN O2 O2 O 0 1 N N N N N N -10.005 -8.603 126.419 1.328 1.449 0.490 O2 2PN 3
2PN O3 O3 O 0 1 N N N N N N -10.499 -6.179 125.469 2.687 -0.304 -0.923 O3 2PN 4
2PN N1 N1 N 0 1 N N N N N N -12.609 -7.904 125.537 0.000 -0.332 -1.026 N1 2PN 5
2PN P2 P2 P 0 1 N N N N N N -13.865 -7.138 125.622 -1.350 -0.065 -0.057 P2 2PN 6
2PN O4 O4 O 0 1 N N N N N N -14.767 -7.883 124.554 -1.330 -1.004 1.087 O4 2PN 7
2PN O5 O5 O 0 1 N N N N N N -14.423 -7.099 126.946 -1.328 1.449 0.490 O5 2PN 8
2PN O6 O6 O 0 1 N N N N N N -13.452 -5.658 125.226 -2.687 -0.304 -0.923 O6 2PN 9
2PN HO2 HO2 H 0 1 N N N N N N -9.850 -9.474 126.072 1.342 2.026 -0.286 HO2 2PN 10
2PN HO3 HO3 H 0 1 N N N N N N -10.438 -5.958 126.391 3.435 -0.141 -0.332 HO3 2PN 11
2PN HN1 HN1 H 0 1 N N N N N N -12.815 -8.474 124.742 0.000 0.392 -1.729 HN1 2PN 12
2PN HO5 HO5 H 0 1 N N N N N N -13.721 -7.090 127.586 -1.342 2.026 -0.286 HO5 2PN 13
2PN HO6 HO6 H 0 1 N N N N N N -13.369 -5.131 126.012 -3.435 -0.141 -0.332 HO6 2PN 14
#
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
2PN P1 O1 DOUB N N 1
2PN P1 O2 SING N N 2
2PN P1 O3 SING N N 3
2PN P1 N1 SING N N 4
2PN O2 HO2 SING N N 5
2PN O3 HO3 SING N N 6
2PN N1 P2 SING N N 7
2PN N1 HN1 SING N N 8
2PN P2 O4 DOUB N N 9
2PN P2 O5 SING N N 10
2PN P2 O6 SING N N 11
2PN O5 HO5 SING N N 12
2PN O6 HO6 SING N N 13
#
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
2PN SMILES ACDLabs 10.04 O=P(O)(O)NP(=O)(O)O
2PN SMILES_CANONICAL CACTVS 3.341 O[P](O)(=O)N[P](O)(O)=O
2PN SMILES CACTVS 3.341 O[P](O)(=O)N[P](O)(O)=O
2PN SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 N(P(=O)(O)O)P(=O)(O)O
2PN SMILES "OpenEye OEToolkits" 1.5.0 N(P(=O)(O)O)P(=O)(O)O
2PN InChI InChI 1.03 InChI=1S/H5NO6P2/c2-8(3,4)1-9(5,6)7/h(H5,1,2,3,4,5,6,7)
2PN InChIKey InChI 1.03 GNGSOPFGGKKDQP-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
2PN "SYSTEMATIC NAME" ACDLabs 10.04 "imidodiphosphoric acid"
2PN "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(phosphonoamino)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
2PN 'Create component' 2006-06-15 RCSB
2PN 'Modify descriptor' 2011-06-04 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
2PN P1 P 5.104 -0.191 1
2PN O1 O 3.805 -0.941 2
2PN O2 O 4.354 1.109 3
2PN O3 O 5.854 -1.490 4
2PN N1 N 6.404 0.559 5
2PN P2 P 7.702 -0.191 6
2PN O4 O 9.002 -0.941 7
2PN O5 O 8.453 1.109 8
2PN O6 O 6.952 -1.490 9
#
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
2PN P1 O1 DOUBLE NONE 1
2PN P1 O2 SINGLE NONE 2
2PN P1 O3 SINGLE NONE 3
2PN P1 N1 SINGLE NONE 4
2PN N1 P2 SINGLE NONE 5
2PN P2 O4 DOUBLE NONE 6
2PN P2 O5 SINGLE NONE 7
2PN P2 O6 SINGLE NONE 8
#
#
#
_pdbe_chem_comp_rdkit_properties.comp_id 2PN
_pdbe_chem_comp_rdkit_properties.exactmw 176.959
_pdbe_chem_comp_rdkit_properties.amw 176.989
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 7
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 5
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 5
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 9
_pdbe_chem_comp_rdkit_properties.NumAtoms 14
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 9
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_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 57.569
_pdbe_chem_comp_rdkit_properties.tpsa 127.090
_pdbe_chem_comp_rdkit_properties.CrippenClogP -1.239
_pdbe_chem_comp_rdkit_properties.CrippenMR 27.224
_pdbe_chem_comp_rdkit_properties.chi0v 5.580
_pdbe_chem_comp_rdkit_properties.chi1v 4.486
_pdbe_chem_comp_rdkit_properties.chi2v 1.972
_pdbe_chem_comp_rdkit_properties.chi3v 1.972
_pdbe_chem_comp_rdkit_properties.chi4v 1.207
_pdbe_chem_comp_rdkit_properties.chi0n 8.791
_pdbe_chem_comp_rdkit_properties.chi1n 3.576
_pdbe_chem_comp_rdkit_properties.chi2n 0.219
_pdbe_chem_comp_rdkit_properties.chi3n 0.219
_pdbe_chem_comp_rdkit_properties.chi4n 0.134
_pdbe_chem_comp_rdkit_properties.hallKierAlpha 0.260
_pdbe_chem_comp_rdkit_properties.kappa1 3.593
_pdbe_chem_comp_rdkit_properties.kappa2 2.476
_pdbe_chem_comp_rdkit_properties.kappa3 8.260
_pdbe_chem_comp_rdkit_properties.Phi 0.989
#
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
2PN UniChem ZINC ZINC000263621374
2PN UniChem SureChEMBL SCHEMBL125276
2PN UniChem PubChem 122874
2PN UniChem BindingDb 50478336
2PN UniChem 'EPA CompTox Dashboard' DTXSID00181989
2PN UniChem BRENDA 103891
2PN UniChem BRENDA 108645
2PN UniChem BRENDA 18687
2PN UniChem BRENDA 4256
2PN UniChem BRENDA 50779
2PN UniChem BRENDA 93684
2PN UniChem Nikkaji J856.206G
2PN UniChem ACTor 27590-04-1
#
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
2PN P1 -1.435 0.628 0.287 ETKDGv3 1
2PN O1 -2.305 1.603 1.046 ETKDGv3 2
2PN O2 -1.879 0.650 -1.347 ETKDGv3 3
2PN O3 -1.663 -0.923 0.929 ETKDGv3 4
2PN N1 0.245 1.117 0.456 ETKDGv3 5
2PN P2 1.271 -0.038 -0.383 ETKDGv3 6
2PN O4 0.885 -0.111 -1.843 ETKDGv3 7
2PN O5 1.123 -1.570 0.322 ETKDGv3 8
2PN O6 2.880 0.471 -0.266 ETKDGv3 9
2PN HO2 -2.818 0.334 -1.358 ETKDGv3 10
2PN HO3 -1.637 -1.531 0.148 ETKDGv3 11
2PN HN1 0.482 1.051 1.472 ETKDGv3 12
2PN HO5 1.772 -2.137 -0.166 ETKDGv3 13
2PN HO6 3.079 0.457 0.704 ETKDGv3 14
#