data_HH5
#
_chem_comp.id HH5
_chem_comp.name 6-iodanyl-7~{H}-purin-2-amine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C5 H4 I N5"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2018-12-06
_chem_comp.pdbx_modified_date 2019-03-15
_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 261.023
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code HH5
_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 6Q4E
_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
HH5 C4 C1 C 0 1 Y N N N N N -1.095 -2.368 -26.048 2.130 2.684 -0.001 C4 HH5 1
HH5 C5 C2 C 0 1 Y N N N N N 0.362 -3.417 -27.280 2.429 0.536 0.001 C5 HH5 2
HH5 N1 N1 N 0 1 N N N N N N 2.485 -5.507 -29.035 2.488 -3.026 -0.002 N1 HH5 3
HH5 N2 N2 N 0 1 Y N N N N N 1.037 -6.019 -27.287 0.690 -1.534 -0.002 N2 HH5 4
HH5 C3 C3 C 0 1 Y N N N N N -0.247 -4.298 -26.371 1.041 0.773 0.002 C3 HH5 5
HH5 N3 N3 N 0 1 Y N N N N N -1.178 -3.610 -25.601 0.889 2.146 -0.004 N3 HH5 6
HH5 C1 C4 C 0 1 Y N N N N N 1.596 -5.083 -28.118 2.003 -1.728 -0.000 C1 HH5 7
HH5 C2 C5 C 0 1 Y N N N N N 0.127 -5.613 -26.405 0.178 -0.313 0.000 C2 HH5 8
HH5 I1 I1 I 0 1 N N N N N N -0.613 -6.978 -25.009 -1.897 -0.026 0.000 I1 HH5 9
HH5 N4 N4 N 0 1 Y N N N N N -0.161 -2.183 -27.037 3.030 1.741 0.002 N4 HH5 10
HH5 N5 N5 N 0 1 Y N N N N N 1.333 -3.755 -28.157 2.864 -0.725 0.002 N5 HH5 11
HH5 H1 H1 H 0 1 N N N N N N -1.710 -1.566 -25.667 2.344 3.743 -0.004 H1 HH5 12
HH5 H2 H2 H 0 1 N N N N N N 2.790 -4.731 -29.588 1.870 -3.775 -0.004 H2 HH5 13
HH5 H3 H3 H 0 1 N N N N N N 3.271 -5.917 -28.572 3.444 -3.187 -0.001 H3 HH5 14
HH5 H4 H4 H 0 1 N N N N N N -1.770 -3.969 -24.880 0.050 2.632 -0.010 H4 HH5 15
#
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
HH5 N1 C1 SING N N 1
HH5 N5 C1 DOUB Y N 2
HH5 N5 C5 SING Y N 3
HH5 C1 N2 SING Y N 4
HH5 N2 C2 DOUB Y N 5
HH5 C5 N4 SING Y N 6
HH5 C5 C3 DOUB Y N 7
HH5 N4 C4 DOUB Y N 8
HH5 C2 C3 SING Y N 9
HH5 C2 I1 SING N N 10
HH5 C3 N3 SING Y N 11
HH5 C4 N3 SING Y N 12
HH5 C4 H1 SING N N 13
HH5 N1 H2 SING N N 14
HH5 N1 H3 SING N N 15
HH5 N3 H4 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
HH5 InChI InChI 1.03 InChI=1S/C5H4IN5/c6-3-2-4(9-1-8-2)11-5(7)10-3/h1H,(H3,7,8,9,10,11)
HH5 InChIKey InChI 1.03 CQYPNVKLVHHOSJ-UHFFFAOYSA-N
HH5 SMILES_CANONICAL CACTVS 3.385 Nc1nc(I)c2[nH]cnc2n1
HH5 SMILES CACTVS 3.385 Nc1nc(I)c2[nH]cnc2n1
HH5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 c1[nH]c2c(n1)nc(nc2I)N
HH5 SMILES "OpenEye OEToolkits" 2.0.6 c1[nH]c2c(n1)nc(nc2I)N
#
_pdbx_chem_comp_identifier.comp_id HH5
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.6
_pdbx_chem_comp_identifier.identifier 6-iodanyl-7~{H}-purin-2-amine
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
HH5 'Create component' 2018-12-06 EBI
HH5 'Initial release' 2019-03-20 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
HH5 C4 C 9.997 -0.285 1
HH5 C5 C 7.702 -1.035 2
HH5 N1 N 3.805 -1.785 3
HH5 N2 N 5.104 0.465 4
HH5 C3 C 7.702 0.465 5
HH5 N3 N 9.122 0.922 6
HH5 C1 C 5.104 -1.035 7
HH5 C2 C 6.404 1.215 8
HH5 I1 I 6.404 2.715 9
HH5 N4 N 9.122 -1.492 10
HH5 N5 N 6.404 -1.785 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
HH5 N1 C1 SINGLE NONE 1
HH5 N5 C1 SINGLE NONE 2
HH5 N5 C5 DOUBLE NONE 3
HH5 C1 N2 DOUBLE NONE 4
HH5 N2 C2 SINGLE NONE 5
HH5 C5 N4 SINGLE NONE 6
HH5 C5 C3 SINGLE NONE 7
HH5 N4 C4 DOUBLE NONE 8
HH5 C2 C3 DOUBLE NONE 9
HH5 C2 I1 SINGLE NONE 10
HH5 C3 N3 SINGLE NONE 11
HH5 C4 N3 SINGLE NONE 12
#
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
HH5 MurckoScaffold S1 scaffold 'c1ncc2[nH]cnc2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
HH5 imidazole F1 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
HH5 purine F2 fragment 'c1ncc2[nH]cnc2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
HH5 pyrimidine F3 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-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
HH5 C4 S1 1
HH5 C5 S1 1
HH5 N2 S1 1
HH5 C3 S1 1
HH5 N3 S1 1
HH5 C1 S1 1
HH5 C2 S1 1
HH5 N4 S1 1
HH5 N5 S1 1
HH5 C5 F1 1
HH5 C3 F1 1
HH5 N3 F1 1
HH5 C4 F1 1
HH5 N4 F1 1
HH5 N3 F2 1
HH5 C4 F2 1
HH5 N4 F2 1
HH5 C5 F2 1
HH5 C3 F2 1
HH5 C2 F2 1
HH5 N2 F2 1
HH5 C1 F2 1
HH5 N5 F2 1
HH5 C3 F3 1
HH5 C5 F3 1
HH5 N5 F3 1
HH5 C1 F3 1
HH5 N2 F3 1
HH5 C2 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id HH5
_pdbe_chem_comp_rdkit_properties.exactmw 260.951
_pdbe_chem_comp_rdkit_properties.amw 261.026
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 3
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 1
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 11
_pdbe_chem_comp_rdkit_properties.NumAtoms 15
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 2
_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 81.377
_pdbe_chem_comp_rdkit_properties.tpsa 80.480
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.269
_pdbe_chem_comp_rdkit_properties.CrippenMR 45.783
_pdbe_chem_comp_rdkit_properties.chi0v 7.272
_pdbe_chem_comp_rdkit_properties.chi1v 3.780
_pdbe_chem_comp_rdkit_properties.chi2v 1.881
_pdbe_chem_comp_rdkit_properties.chi3v 1.881
_pdbe_chem_comp_rdkit_properties.chi4v 1.280
_pdbe_chem_comp_rdkit_properties.chi0n 9.114
_pdbe_chem_comp_rdkit_properties.chi1n 4.543
_pdbe_chem_comp_rdkit_properties.chi2n 1.129
_pdbe_chem_comp_rdkit_properties.chi3n 1.129
_pdbe_chem_comp_rdkit_properties.chi4n 0.702
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.920
_pdbe_chem_comp_rdkit_properties.kappa1 3.655
_pdbe_chem_comp_rdkit_properties.kappa2 2.293
_pdbe_chem_comp_rdkit_properties.kappa3 1.024
_pdbe_chem_comp_rdkit_properties.Phi 0.762
#
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
HH5 UniChem ChEMBL CHEMBL4449374
HH5 UniChem PDBe HH5
HH5 UniChem ZINC ZINC000006886310
HH5 UniChem eMolecules 17118601
HH5 UniChem eMolecules 2726958
HH5 UniChem eMolecules 28204956
HH5 UniChem SureChEMBL SCHEMBL135689
HH5 UniChem 'PubChem TPHARMA' 14823760
HH5 UniChem ACTor 19690-23-4
HH5 UniChem Nikkaji J641.942I
HH5 UniChem BindingDb 50523416
HH5 UniChem 'EPA CompTox Dashboard' DTXSID20422008
HH5 UniChem ChemicalBook CB9430750
HH5 UniChem PubChem 6101575
#
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
HH5 C4 -2.411 -1.230 -0.514 ETKDGv3 1
HH5 C5 -0.285 -0.895 -0.340 ETKDGv3 2
HH5 N1 3.240 -0.045 0.058 ETKDGv3 3
HH5 N2 1.255 1.187 0.471 ETKDGv3 4
HH5 C3 -0.906 0.301 0.091 ETKDGv3 5
HH5 N3 -2.302 0.116 -0.010 ETKDGv3 6
HH5 C1 1.819 0.070 0.068 ETKDGv3 7
HH5 C2 -0.183 1.340 0.495 ETKDGv3 8
HH5 I1 -1.059 3.143 1.147 ETKDGv3 9
HH5 N4 -1.272 -1.842 -0.716 ETKDGv3 10
HH5 N5 1.003 -1.046 -0.366 ETKDGv3 11
HH5 H1 -3.363 -1.704 -0.713 ETKDGv3 12
HH5 H2 3.693 -0.930 -0.261 ETKDGv3 13
HH5 H3 3.840 0.752 0.369 ETKDGv3 14
HH5 H4 -3.070 0.784 0.221 ETKDGv3 15
#