data_JXN
#
_chem_comp.id JXN
_chem_comp.name 8-bromanyl-9-ethyl-purin-6-amine
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C7 H8 Br 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 242.076
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code JXN
_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 6RBR
_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
JXN C2 C1 C 0 1 Y N N N N N 22.012 11.240 12.808 3.474 1.135 0.180 C2 JXN 1
JXN C4 C2 C 0 1 Y N N N N N 19.703 11.340 13.026 1.204 0.775 0.176 C4 JXN 2
JXN C5 C3 C 0 1 Y N N N N N 19.704 12.565 12.366 1.432 -0.595 -0.029 C5 JXN 3
JXN C6 C4 C 0 1 Y N N N N N 20.918 13.094 11.945 2.762 -1.041 -0.110 C6 JXN 4
JXN C8 C5 C 0 1 Y N N N N N 17.681 12.073 12.860 -0.716 -0.305 0.059 C8 JXN 5
JXN CAA C6 C 0 1 N N N N N N 18.806 9.344 15.084 -1.166 2.833 -0.932 CAA JXN 6
JXN CAE C7 C 0 1 N N N N N N 17.867 9.893 14.004 -0.883 2.187 0.426 CAE JXN 7
JXN N1 N1 N 0 1 Y N N N N N 22.046 12.406 12.180 3.738 -0.145 -0.007 N1 JXN 8
JXN N3 N2 N 0 1 Y N N N N N 20.873 10.708 13.222 2.244 1.597 0.273 N3 JXN 9
JXN N6 N3 N 0 1 N N N N N N 20.967 14.265 11.314 3.049 -2.381 -0.306 N6 JXN 10
JXN N7 N4 N 0 1 Y N N N N N 18.445 12.996 12.283 0.220 -1.198 -0.090 N7 JXN 11
JXN N9 N5 N 0 1 Y N N N N N 18.427 11.070 13.304 -0.160 0.929 0.227 N9 JXN 12
JXN BR8 BR1 BR 0 0 N N N N N N 15.796 12.165 13.027 -2.572 -0.665 0.046 BR8 JXN 13
JXN H1 H1 H 0 1 N N N N N N 22.936 10.711 12.986 4.297 1.829 0.263 H1 JXN 14
JXN H2 H2 H 0 1 N N N N N N 18.339 8.474 15.569 -0.224 3.032 -1.443 H2 JXN 15
JXN H3 H3 H 0 1 N N N N N N 19.757 9.040 14.623 -1.771 2.157 -1.537 H3 JXN 16
JXN H4 H4 H 0 1 N N N N N N 18.996 10.124 15.836 -1.704 3.769 -0.785 H4 JXN 17
JXN H5 H5 H 0 1 N N N N N N 16.918 10.184 14.478 -0.279 2.863 1.030 H5 JXN 18
JXN H6 H6 H 0 1 N N N N N N 17.680 9.100 13.265 -1.826 1.987 0.936 H6 JXN 19
JXN H7 H7 H 0 1 N N N N N N 21.916 14.482 11.087 3.971 -2.675 -0.369 H7 JXN 20
JXN H8 H8 H 0 1 N N N N N N 20.427 14.214 10.474 2.328 -3.026 -0.380 H8 JXN 21
#
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
JXN N6 C6 SING N N 1
JXN C6 N1 DOUB Y N 2
JXN C6 C5 SING Y N 3
JXN N1 C2 SING Y N 4
JXN N7 C5 SING Y N 5
JXN N7 C8 DOUB Y N 6
JXN C5 C4 DOUB Y N 7
JXN C2 N3 DOUB Y N 8
JXN C8 BR8 SING N N 9
JXN C8 N9 SING Y N 10
JXN C4 N3 SING Y N 11
JXN C4 N9 SING Y N 12
JXN N9 CAE SING N N 13
JXN CAE CAA SING N N 14
JXN C2 H1 SING N N 15
JXN CAA H2 SING N N 16
JXN CAA H3 SING N N 17
JXN CAA H4 SING N N 18
JXN CAE H5 SING N N 19
JXN CAE H6 SING N N 20
JXN N6 H7 SING N N 21
JXN N6 H8 SING N N 22
#
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
JXN InChI InChI 1.03 InChI=1S/C7H8BrN5/c1-2-13-6-4(12-7(13)8)5(9)10-3-11-6/h3H,2H2,1H3,(H2,9,10,11)
JXN InChIKey InChI 1.03 GACDSQLJMZANKT-UHFFFAOYSA-N
JXN SMILES_CANONICAL CACTVS 3.385 CCn1c(Br)nc2c(N)ncnc12
JXN SMILES CACTVS 3.385 CCn1c(Br)nc2c(N)ncnc12
JXN SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 CCn1c2c(c(ncn2)N)nc1Br
JXN SMILES "OpenEye OEToolkits" 2.0.7 CCn1c2c(c(ncn2)N)nc1Br
#
_pdbx_chem_comp_identifier.comp_id JXN
_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 8-bromanyl-9-ethyl-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
JXN 'Create component' 2019-04-11 RCSB
JXN '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
JXN C2 C 3.000 -1.011 1
JXN C4 C 5.598 -1.011 2
JXN C5 C 5.598 0.488 3
JXN C6 C 4.299 1.239 4
JXN C8 C 7.893 -0.262 5
JXN CAA C 8.951 -3.204 6
JXN CAE C 7.483 -2.894 7
JXN N1 N 3.000 0.488 8
JXN N3 N 4.299 -1.761 9
JXN N6 N 4.299 2.739 10
JXN N7 N 7.018 0.946 11
JXN N9 N 7.018 -1.468 12
JXN BR8 Br 9.393 -0.262 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
JXN N6 C6 SINGLE NONE 1
JXN C6 N1 SINGLE NONE 2
JXN C6 C5 DOUBLE NONE 3
JXN N1 C2 DOUBLE NONE 4
JXN N7 C5 SINGLE NONE 5
JXN N7 C8 DOUBLE NONE 6
JXN C5 C4 SINGLE NONE 7
JXN C2 N3 SINGLE NONE 8
JXN C8 BR8 SINGLE NONE 9
JXN C8 N9 SINGLE NONE 10
JXN C4 N3 DOUBLE NONE 11
JXN C4 N9 SINGLE NONE 12
JXN N9 CAE SINGLE NONE 13
JXN CAE CAA 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
JXN 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
JXN 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
JXN imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
JXN 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
JXN 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
JXN C2 S1 1
JXN C4 S1 1
JXN C5 S1 1
JXN C6 S1 1
JXN C8 S1 1
JXN N1 S1 1
JXN N3 S1 1
JXN N7 S1 1
JXN N9 S1 1
JXN N1 F1 1
JXN C6 F1 1
JXN C5 F1 1
JXN C4 F1 1
JXN N3 F1 1
JXN C2 F1 1
JXN N9 F1 1
JXN C8 F1 1
JXN N7 F1 1
JXN N6 F1 1
JXN C4 F2 1
JXN C5 F2 1
JXN N7 F2 1
JXN C8 F2 1
JXN N9 F2 1
JXN N7 F3 1
JXN C8 F3 1
JXN N9 F3 1
JXN C4 F3 1
JXN C5 F3 1
JXN C6 F3 1
JXN N1 F3 1
JXN C2 F3 1
JXN N3 F3 1
JXN C5 F4 1
JXN C6 F4 1
JXN N1 F4 1
JXN C2 F4 1
JXN N3 F4 1
JXN C4 F4 1
#
_pdbe_chem_comp_rdkit_properties.comp_id JXN
_pdbe_chem_comp_rdkit_properties.exactmw 240.996
_pdbe_chem_comp_rdkit_properties.amw 242.080
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 3
_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 21
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 6
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.286
_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 94.484
_pdbe_chem_comp_rdkit_properties.tpsa 69.620
_pdbe_chem_comp_rdkit_properties.CrippenClogP 0.382
_pdbe_chem_comp_rdkit_properties.CrippenMR 50.079
_pdbe_chem_comp_rdkit_properties.chi0v 7.700
_pdbe_chem_comp_rdkit_properties.chi1v 3.968
_pdbe_chem_comp_rdkit_properties.chi2v 1.980
_pdbe_chem_comp_rdkit_properties.chi3v 1.980
_pdbe_chem_comp_rdkit_properties.chi4v 1.344
_pdbe_chem_comp_rdkit_properties.chi0n 14.114
_pdbe_chem_comp_rdkit_properties.chi1n 7.069
_pdbe_chem_comp_rdkit_properties.chi2n 1.448
_pdbe_chem_comp_rdkit_properties.chi3n 1.448
_pdbe_chem_comp_rdkit_properties.chi4n 0.910
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -1.170
_pdbe_chem_comp_rdkit_properties.kappa1 3.198
_pdbe_chem_comp_rdkit_properties.kappa2 2.951
_pdbe_chem_comp_rdkit_properties.kappa3 1.173
_pdbe_chem_comp_rdkit_properties.Phi 0.726
#
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
JXN UniChem ChEMBL CHEMBL468633
JXN UniChem PDBe JXN
JXN UniChem SureChEMBL SCHEMBL1755068
JXN UniChem 'PubChem TPHARMA' 16885959
JXN UniChem PubChem 5248753
JXN UniChem BindingDb 50256890
JXN UniChem Nikkaji J1.106.575I
#
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
JXN C2 -1.517 -2.295 -0.167 ETKDGv3 1
JXN C4 -0.260 -0.348 -0.540 ETKDGv3 2
JXN C5 -1.298 0.429 0.033 ETKDGv3 3
JXN C6 -2.399 -0.158 0.498 ETKDGv3 4
JXN C8 0.351 1.784 -0.349 ETKDGv3 5
JXN CAA 2.873 -0.186 0.348 ETKDGv3 6
JXN CAE 2.223 0.102 -1.000 ETKDGv3 7
JXN N1 -2.495 -1.595 0.359 ETKDGv3 8
JXN N3 -0.308 -1.642 -0.624 ETKDGv3 9
JXN N6 -3.439 0.584 1.136 ETKDGv3 10
JXN N7 -0.862 1.777 0.138 ETKDGv3 11
JXN N9 0.830 0.505 -0.824 ETKDGv3 12
JXN BR8 1.402 3.378 -0.397 ETKDGv3 13
JXN H1 -1.610 -3.369 -0.252 ETKDGv3 14
JXN H2 2.334 -1.007 0.866 ETKDGv3 15
JXN H3 3.929 -0.492 0.196 ETKDGv3 16
JXN H4 2.852 0.724 0.986 ETKDGv3 17
JXN H5 2.268 -0.810 -1.634 ETKDGv3 18
JXN H6 2.783 0.908 -1.519 ETKDGv3 19
JXN H7 -3.374 1.621 1.246 ETKDGv3 20
JXN H8 -4.283 0.090 1.500 ETKDGv3 21
#