data_JY8
#
_chem_comp.id JY8
_chem_comp.name 9-ethyl-8-methyl-purin-6-amine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C8 H11 N5"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2019-04-11
_chem_comp.pdbx_modified_date 2020-02-14
_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 177.206
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code JY8
_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 6RC1
_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
JY8 C4 C1 C 0 1 Y N N N N N 19.548 11.173 13.095 0.004 -0.582 0.184 C4 JY8 1
JY8 C5 C2 C 0 1 Y N N N N N 19.530 12.450 12.460 -0.775 0.572 -0.002 C5 JY8 2
JY8 C2 C3 C 0 1 Y N N N N N 21.791 11.046 12.886 -1.907 -1.857 0.140 C2 JY8 3
JY8 N1 N1 N 0 1 Y N N N N N 21.934 12.257 12.265 -2.680 -0.802 -0.041 N1 JY8 4
JY8 C6 C4 C 0 1 Y N N N N N 20.778 12.979 12.045 -2.167 0.422 -0.116 C6 JY8 5
JY8 C8 C5 C 0 1 Y N N N N N 17.453 11.984 12.943 1.296 1.205 0.126 C8 JY8 6
JY8 C81 C6 C 0 1 N N N N N N 15.980 12.006 13.110 2.519 2.084 0.148 C81 JY8 7
JY8 C91 C7 C 0 1 N N N N N N 17.708 9.666 14.069 2.488 -0.997 0.442 C91 JY8 8
JY8 C92 C8 C 0 1 N N N N N N 17.280 8.577 13.072 3.025 -1.429 -0.924 C92 JY8 9
JY8 N3 N2 N 0 1 Y N N N N N 20.678 10.420 13.333 -0.598 -1.765 0.246 N3 JY8 10
JY8 N6 N3 N 0 1 N N N N N N 20.915 14.185 11.427 -2.986 1.522 -0.300 N6 JY8 11
JY8 N7 N4 N 0 1 Y N N N N N 18.212 12.944 12.373 0.075 1.628 -0.029 N7 JY8 12
JY8 N9 N5 N 0 1 Y N N N N N 18.223 10.876 13.402 1.305 -0.152 0.257 N9 JY8 13
JY8 H1 H1 H 0 1 N N N N N N 22.712 10.505 13.044 -2.365 -2.834 0.194 H1 JY8 14
JY8 H2 H2 H 0 1 N N N N N N 15.577 12.941 12.693 2.903 2.199 -0.865 H2 JY8 15
JY8 H3 H3 H 0 1 N N N N N N 15.538 11.148 12.581 2.256 3.063 0.550 H3 JY8 16
JY8 H4 H4 H 0 1 N N N N N N 15.731 11.945 14.180 3.284 1.627 0.777 H4 JY8 17
JY8 H5 H5 H 0 1 N N N N N N 16.838 9.945 14.681 2.217 -1.879 1.022 H5 JY8 18
JY8 H6 H6 H 0 1 N N N N N N 18.497 9.259 14.718 3.256 -0.435 0.973 H6 JY8 19
JY8 H7 H7 H 0 1 N N N N N N 16.906 7.701 13.623 2.257 -1.992 -1.454 H7 JY8 20
JY8 H8 H8 H 0 1 N N N N N N 16.484 8.968 12.421 3.296 -0.547 -1.504 H8 JY8 21
JY8 H9 H9 H 0 1 N N N N N N 18.144 8.282 12.458 3.905 -2.058 -0.785 H9 JY8 22
JY8 H10 H10 H 0 1 N N N N N N 21.881 14.350 11.228 -3.946 1.405 -0.377 H10 JY8 23
JY8 H11 H11 H 0 1 N N N N N N 20.394 14.183 10.573 -2.600 2.410 -0.353 H11 JY8 24
#
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
JY8 N6 C6 SING N N 1
JY8 C6 N1 DOUB Y N 2
JY8 C6 C5 SING Y N 3
JY8 N1 C2 SING Y N 4
JY8 N7 C5 SING Y N 5
JY8 N7 C8 DOUB Y N 6
JY8 C5 C4 DOUB Y N 7
JY8 C2 N3 DOUB Y N 8
JY8 C8 C81 SING N N 9
JY8 C8 N9 SING Y N 10
JY8 C92 C91 SING N N 11
JY8 C4 N3 SING Y N 12
JY8 C4 N9 SING Y N 13
JY8 N9 C91 SING N N 14
JY8 C2 H1 SING N N 15
JY8 C81 H2 SING N N 16
JY8 C81 H3 SING N N 17
JY8 C81 H4 SING N N 18
JY8 C91 H5 SING N N 19
JY8 C91 H6 SING N N 20
JY8 C92 H7 SING N N 21
JY8 C92 H8 SING N N 22
JY8 C92 H9 SING N N 23
JY8 N6 H10 SING N N 24
JY8 N6 H11 SING N N 25
#
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
JY8 InChI InChI 1.03 InChI=1S/C8H11N5/c1-3-13-5(2)12-6-7(9)10-4-11-8(6)13/h4H,3H2,1-2H3,(H2,9,10,11)
JY8 InChIKey InChI 1.03 XTIWXGMLCTZPOO-UHFFFAOYSA-N
JY8 SMILES_CANONICAL CACTVS 3.385 CCn1c(C)nc2c(N)ncnc12
JY8 SMILES CACTVS 3.385 CCn1c(C)nc2c(N)ncnc12
JY8 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 CCn1c(nc2c1ncnc2N)C
JY8 SMILES "OpenEye OEToolkits" 2.0.7 CCn1c(nc2c1ncnc2N)C
#
_pdbx_chem_comp_identifier.comp_id JY8
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier 9-ethyl-8-methyl-purin-6-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
JY8 'Create component' 2019-04-11 RCSB
JY8 'Initial release' 2020-02-19 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
JY8 C4 C 5.598 -1.011 1
JY8 C5 C 5.598 0.488 2
JY8 C2 C 3.000 -1.011 3
JY8 N1 N 3.000 0.488 4
JY8 C6 C 4.299 1.239 5
JY8 C8 C 7.893 -0.262 6
JY8 C81 C 9.393 -0.262 7
JY8 C91 C 7.483 -2.894 8
JY8 C92 C 8.951 -3.204 9
JY8 N3 N 4.299 -1.761 10
JY8 N6 N 4.299 2.739 11
JY8 N7 N 7.018 0.946 12
JY8 N9 N 7.018 -1.468 13
#
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
JY8 N6 C6 SINGLE NONE 1
JY8 C6 N1 SINGLE NONE 2
JY8 C6 C5 DOUBLE NONE 3
JY8 N1 C2 DOUBLE NONE 4
JY8 N7 C5 SINGLE NONE 5
JY8 N7 C8 DOUBLE NONE 6
JY8 C5 C4 SINGLE NONE 7
JY8 C2 N3 SINGLE NONE 8
JY8 C8 C81 SINGLE NONE 9
JY8 C8 N9 SINGLE NONE 10
JY8 C92 C91 SINGLE NONE 11
JY8 C4 N3 DOUBLE NONE 12
JY8 C4 N9 SINGLE NONE 13
JY8 N9 C91 SINGLE NONE 14
#
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
JY8 MurckoScaffold S1 scaffold 'c1ncc2nc[nH]c2n1' InChI=1S/C5H4N4/c1-4-5(8-2-6-1)9-3-7-4/h1-3H,(H,6,7,8,9) KDCGOANMDULRCW-UHFFFAOYSA-N
JY8 adenine F1 fragment 'Nc1ncnc2nc[nH]c12' InChI=1S/C5H5N5/c6-4-3-5(9-1-7-3)10-2-8-4/h1-2H,(H3,6,7,8,9,10) GFFGJBXGBJISGV-UHFFFAOYSA-N
JY8 imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
JY8 purine F3 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
JY8 pyrimidine F4 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
JY8 C4 S1 1
JY8 C5 S1 1
JY8 C2 S1 1
JY8 N1 S1 1
JY8 C6 S1 1
JY8 C8 S1 1
JY8 N3 S1 1
JY8 N7 S1 1
JY8 N9 S1 1
JY8 N1 F1 1
JY8 C6 F1 1
JY8 C5 F1 1
JY8 C4 F1 1
JY8 N3 F1 1
JY8 C2 F1 1
JY8 N9 F1 1
JY8 C8 F1 1
JY8 N7 F1 1
JY8 N6 F1 1
JY8 C4 F2 1
JY8 C5 F2 1
JY8 N7 F2 1
JY8 C8 F2 1
JY8 N9 F2 1
JY8 N7 F3 1
JY8 C8 F3 1
JY8 N9 F3 1
JY8 C4 F3 1
JY8 C5 F3 1
JY8 C6 F3 1
JY8 N1 F3 1
JY8 C2 F3 1
JY8 N3 F3 1
JY8 C5 F4 1
JY8 C6 F4 1
JY8 N1 F4 1
JY8 C2 F4 1
JY8 N3 F4 1
JY8 C4 F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id JY8
_pdbe_chem_comp_rdkit_properties.exactmw 177.101
_pdbe_chem_comp_rdkit_properties.amw 177.211
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 5
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 13
_pdbe_chem_comp_rdkit_properties.NumAtoms 24
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.375
_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 91.197
_pdbe_chem_comp_rdkit_properties.tpsa 69.620
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.127
_pdbe_chem_comp_rdkit_properties.CrippenMR 46.850
_pdbe_chem_comp_rdkit_properties.chi0v 6.236
_pdbe_chem_comp_rdkit_properties.chi1v 3.236
_pdbe_chem_comp_rdkit_properties.chi2v 1.489
_pdbe_chem_comp_rdkit_properties.chi3v 1.489
_pdbe_chem_comp_rdkit_properties.chi4v 0.944
_pdbe_chem_comp_rdkit_properties.chi0n 17.236
_pdbe_chem_comp_rdkit_properties.chi1n 8.630
_pdbe_chem_comp_rdkit_properties.chi2n 1.489
_pdbe_chem_comp_rdkit_properties.chi3n 1.489
_pdbe_chem_comp_rdkit_properties.chi4n 0.944
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.650
_pdbe_chem_comp_rdkit_properties.kappa1 2.230
_pdbe_chem_comp_rdkit_properties.kappa2 2.687
_pdbe_chem_comp_rdkit_properties.kappa3 1.039
_pdbe_chem_comp_rdkit_properties.Phi 0.461
#
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
JY8 UniChem PDBe JY8
JY8 UniChem PubChem 91665976
#
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
JY8 C4 -0.560 -0.697 -0.415 ETKDGv3 1
JY8 C5 -1.416 0.361 -0.023 ETKDGv3 2
JY8 C2 -2.229 -2.251 0.141 ETKDGv3 3
JY8 N1 -3.044 -1.286 0.501 ETKDGv3 4
JY8 C6 -2.636 0.101 0.446 ETKDGv3 5
JY8 C8 0.504 1.259 -0.485 ETKDGv3 6
JY8 C81 1.590 2.275 -0.629 ETKDGv3 7
JY8 C91 1.975 -0.873 -0.760 ETKDGv3 8
JY8 C92 2.468 -1.133 0.659 ETKDGv3 9
JY8 N3 -0.892 -1.948 -0.321 ETKDGv3 10
JY8 N6 -3.504 1.135 0.908 ETKDGv3 11
JY8 N7 -0.696 1.584 -0.076 ETKDGv3 12
JY8 N9 0.704 -0.152 -0.740 ETKDGv3 13
JY8 H1 -2.557 -3.280 0.199 ETKDGv3 14
JY8 H2 2.328 2.150 0.190 ETKDGv3 15
JY8 H3 2.098 2.144 -1.606 ETKDGv3 16
JY8 H4 1.169 3.302 -0.582 ETKDGv3 17
JY8 H5 2.734 -0.281 -1.315 ETKDGv3 18
JY8 H6 1.843 -1.841 -1.288 ETKDGv3 19
JY8 H7 1.731 -1.752 1.213 ETKDGv3 20
JY8 H8 2.616 -0.174 1.198 ETKDGv3 21
JY8 H9 3.436 -1.676 0.624 ETKDGv3 22
JY8 H10 -4.449 0.895 1.281 ETKDGv3 23
JY8 H11 -3.215 2.139 0.878 ETKDGv3 24
#