data_IV6
#
_chem_comp.id IV6
_chem_comp.name "3-[2-chloranyl-6-(methylamino)purin-9-yl]benzoic acid"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C13 H10 Cl N5 O2"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2023-08-03
_chem_comp.pdbx_modified_date 2023-12-01
_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 303.704
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code IV6
_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 8Q2X
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
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
IV6 C10 C1 C 0 1 Y N N N N N -23.286 30.267 -23.379 1.477 0.102 0.568 C10 IV6 1
IV6 C13 C2 C 0 1 N N N N N N -26.752 32.312 -23.324 4.980 0.389 -0.766 C13 IV6 2
IV6 C17 C3 C 0 1 Y N N N N N -23.106 32.165 -21.573 2.791 -1.704 1.456 C17 IV6 3
IV6 C02 C4 C 0 1 Y N N N N N -24.938 26.100 -23.781 -2.676 -1.247 -0.282 C02 IV6 4
IV6 C04 C5 C 0 1 Y N N N N N -22.888 25.706 -25.099 -3.245 0.978 -0.040 C04 IV6 5
IV6 C06 C6 C 0 1 N N N N N N -22.464 23.466 -26.043 -5.603 1.652 -0.308 C06 IV6 6
IV6 C07 C7 C 0 1 Y N N N N N -22.472 27.147 -24.866 -1.895 1.274 0.215 C07 IV6 7
IV6 C08 C8 C 0 1 Y N N N N N -23.272 27.965 -24.140 -0.970 0.216 0.202 C08 IV6 8
IV6 C11 C9 C 0 1 Y N N N N N -24.700 30.694 -23.713 2.581 0.570 -0.127 C11 IV6 9
IV6 C12 C10 C 0 1 Y N N N N N -25.332 31.871 -22.979 3.799 -0.104 -0.029 C12 IV6 10
IV6 C16 C11 C 0 1 Y N N N N N -24.531 32.609 -21.906 3.896 -1.246 0.769 C16 IV6 11
IV6 C18 C12 C 0 1 Y N N N N N -22.484 30.984 -22.309 1.585 -1.035 1.358 C18 IV6 12
IV6 C19 C13 C 0 1 Y N N N N N -21.548 29.099 -24.763 0.056 2.120 0.646 C19 IV6 13
IV6 N03 N1 N 0 1 Y N N N N N -24.104 25.215 -24.542 -3.583 -0.284 -0.280 N03 IV6 14
IV6 N05 N2 N 0 1 N N N N N N -22.043 24.845 -25.870 -4.201 1.979 -0.040 N05 IV6 15
IV6 N09 N3 N 0 1 Y N N N N N -22.708 29.145 -24.077 0.253 0.779 0.477 N09 IV6 16
IV6 N20 N4 N 0 1 Y N N N N N -21.411 27.846 -25.250 -1.204 2.407 0.491 N20 IV6 17
IV6 N21 N5 N 0 1 Y N N N N N -24.541 27.475 -23.563 -1.401 -1.016 -0.048 N21 IV6 18
IV6 O14 O1 O 0 1 N N N N N N -27.256 31.979 -24.431 4.893 1.382 -1.460 O14 IV6 19
IV6 O15 O2 O 0 1 N N N N N N -27.414 33.015 -22.514 6.155 -0.264 -0.670 O15 IV6 20
IV6 CL01 CL1 CL 0 0 N N N N N N -26.471 25.556 -23.069 -3.188 -2.876 -0.596 CL01 IV6 21
IV6 H171 H1 H 0 0 N N N N N N -22.540 32.688 -20.816 2.868 -2.588 2.072 H171 IV6 22
IV6 H062 H2 H 0 0 N N N N N N -21.722 22.929 -26.652 -5.690 1.205 -1.298 H062 IV6 23
IV6 H063 H3 H 0 0 N N N N N N -22.549 22.982 -25.059 -5.961 0.946 0.442 H063 IV6 24
IV6 H061 H4 H 0 0 N N N N N N -23.441 23.442 -26.549 -6.203 2.561 -0.266 H061 IV6 25
IV6 H111 H5 H 0 0 N N N N N N -25.260 30.165 -24.470 2.499 1.454 -0.742 H111 IV6 26
IV6 H161 H6 H 0 0 N N N N N N -24.972 33.445 -21.383 4.837 -1.771 0.848 H161 IV6 27
IV6 H181 H7 H 0 0 N N N N N N -21.481 30.660 -22.071 0.723 -1.398 1.899 H181 IV6 28
IV6 H191 H8 H 0 0 N N N N N N -20.854 29.916 -24.899 0.831 2.837 0.874 H191 IV6 29
IV6 H051 H9 H 0 0 N N N N N N -21.958 25.248 -26.781 -3.942 2.897 0.137 H051 IV6 30
IV6 H1 H10 H 0 1 N N N N N N -28.267 33.208 -22.885 6.899 0.096 -1.171 H1 IV6 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
IV6 CL01 C02 SING N N 1
IV6 C02 N21 DOUB Y N 2
IV6 C02 N03 SING Y N 3
IV6 N03 C04 DOUB Y N 4
IV6 C04 N05 SING N N 5
IV6 C04 C07 SING Y N 6
IV6 N05 C06 SING N N 7
IV6 C07 N20 SING Y N 8
IV6 C07 C08 DOUB Y N 9
IV6 C08 N09 SING Y N 10
IV6 C08 N21 SING Y N 11
IV6 N09 C10 SING N N 12
IV6 N09 C19 SING Y N 13
IV6 C10 C18 DOUB Y N 14
IV6 C10 C11 SING Y N 15
IV6 C11 C12 DOUB Y N 16
IV6 C12 C13 SING N N 17
IV6 C12 C16 SING Y N 18
IV6 C13 O14 DOUB N N 19
IV6 C13 O15 SING N N 20
IV6 C16 C17 DOUB Y N 21
IV6 C17 C18 SING Y N 22
IV6 C19 N20 DOUB Y N 23
IV6 C17 H171 SING N N 24
IV6 C06 H062 SING N N 25
IV6 C06 H063 SING N N 26
IV6 C06 H061 SING N N 27
IV6 C11 H111 SING N N 28
IV6 C16 H161 SING N N 29
IV6 C18 H181 SING N N 30
IV6 C19 H191 SING N N 31
IV6 N05 H051 SING N N 32
IV6 O15 H1 SING N N 33
#
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
IV6 InChI InChI 1.06 "InChI=1S/C13H10ClN5O2/c1-15-10-9-11(18-13(14)17-10)19(6-16-9)8-4-2-3-7(5-8)12(20)21/h2-6H,1H3,(H,20,21)(H,15,17,18)"
IV6 InChIKey InChI 1.06 WLQURJOXOHISNV-UHFFFAOYSA-N
IV6 SMILES_CANONICAL CACTVS 3.385 "CNc1nc(Cl)nc2n(cnc12)c3cccc(c3)C(O)=O"
IV6 SMILES CACTVS 3.385 "CNc1nc(Cl)nc2n(cnc12)c3cccc(c3)C(O)=O"
IV6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CNc1c2c(nc(n1)Cl)n(cn2)c3cccc(c3)C(=O)O"
IV6 SMILES "OpenEye OEToolkits" 2.0.7 "CNc1c2c(nc(n1)Cl)n(cn2)c3cccc(c3)C(=O)O"
#
_pdbx_chem_comp_identifier.comp_id IV6
_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 "3-[2-chloranyl-6-(methylamino)purin-9-yl]benzoic 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
IV6 'Create component' 2023-08-03 PDBE
IV6 'Initial release' 2023-12-06 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.09.6 'Core functionality.'
pdbeccdutils 0.8.6 '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
IV6 C10 C 8.783 1.361 1
IV6 C13 C 12.184 3.405 2
IV6 C17 C 8.247 3.903 3
IV6 C02 C 4.299 -0.522 4
IV6 C04 C 5.598 -2.772 5
IV6 C06 C 4.299 -5.022 6
IV6 C07 C 6.897 -2.022 7
IV6 C08 C 6.897 -0.522 8
IV6 C11 C 10.250 1.670 9
IV6 C12 C 10.716 3.095 10
IV6 C16 C 9.714 4.212 11
IV6 C18 C 7.781 2.477 12
IV6 C19 C 9.192 -1.272 13
IV6 N03 N 4.299 -2.022 14
IV6 N05 N 5.598 -4.272 15
IV6 N09 N 8.316 -0.065 16
IV6 N20 N 8.316 -2.479 17
IV6 N21 N 5.598 0.228 18
IV6 O14 O 12.650 4.831 19
IV6 O15 O 13.186 2.288 20
IV6 CL01 Cl 3.000 0.228 21
#
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
IV6 CL01 C02 SINGLE NONE 1
IV6 C02 N21 DOUBLE NONE 2
IV6 C02 N03 SINGLE NONE 3
IV6 N03 C04 DOUBLE NONE 4
IV6 C04 N05 SINGLE NONE 5
IV6 C04 C07 SINGLE NONE 6
IV6 N05 C06 SINGLE NONE 7
IV6 C07 N20 SINGLE NONE 8
IV6 C07 C08 DOUBLE NONE 9
IV6 C08 N09 SINGLE NONE 10
IV6 C08 N21 SINGLE NONE 11
IV6 N09 C10 SINGLE NONE 12
IV6 N09 C19 SINGLE NONE 13
IV6 C10 C18 DOUBLE NONE 14
IV6 C10 C11 SINGLE NONE 15
IV6 C11 C12 DOUBLE NONE 16
IV6 C12 C13 SINGLE NONE 17
IV6 C12 C16 SINGLE NONE 18
IV6 C13 O14 DOUBLE NONE 19
IV6 C13 O15 SINGLE NONE 20
IV6 C16 C17 DOUBLE NONE 21
IV6 C17 C18 SINGLE NONE 22
IV6 C19 N20 DOUBLE NONE 23
#
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
IV6 MurckoScaffold S1 scaffold c1ccc(-n2cnc3cncnc32)cc1 InChI=1S/C11H8N4/c1-2-4-9(5-3-1)15-8-14-10-6-12-7-13-11(10)15/h1-8H KTXANHBGXLKMJT-UHFFFAOYSA-N
IV6 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
IV6 imidazole F2 fragment 'c1c[nH]cn1' InChI=1S/C3H4N2/c1-2-5-3-4-1/h1-3H,(H,4,5) RAXXELZNTBOGNW-UHFFFAOYSA-N
IV6 phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
IV6 purine F4 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
IV6 pyrimidine F5 fragment c1cncnc1 InChI=1S/C4H4N2/c1-2-5-4-6-3-1/h1-4H CZPWVGJYEJSRLH-UHFFFAOYSA-N
IV6 Z1180109871 F6 fragment O=C(O)c1cccc(-n2ccnc2)c1 InChI=1S/C10H8N2O2/c13-10(14)8-2-1-3-9(6-8)12-5-4-11-7-12/h1-7H,(H,13,14) WXHAKCASYYCJED-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
IV6 C10 S1 1
IV6 C17 S1 1
IV6 C02 S1 1
IV6 C04 S1 1
IV6 C07 S1 1
IV6 C08 S1 1
IV6 C11 S1 1
IV6 C12 S1 1
IV6 C16 S1 1
IV6 C18 S1 1
IV6 C19 S1 1
IV6 N03 S1 1
IV6 N09 S1 1
IV6 N20 S1 1
IV6 N21 S1 1
IV6 N03 F1 1
IV6 C04 F1 1
IV6 C07 F1 1
IV6 C08 F1 1
IV6 N21 F1 1
IV6 C02 F1 1
IV6 N09 F1 1
IV6 C19 F1 1
IV6 N20 F1 1
IV6 N05 F1 1
IV6 C07 F2 1
IV6 C08 F2 1
IV6 N09 F2 1
IV6 C19 F2 1
IV6 N20 F2 1
IV6 C10 F3 1
IV6 C18 F3 1
IV6 C17 F3 1
IV6 C16 F3 1
IV6 C12 F3 1
IV6 C11 F3 1
IV6 N20 F4 1
IV6 C19 F4 1
IV6 N09 F4 1
IV6 C08 F4 1
IV6 C07 F4 1
IV6 C04 F4 1
IV6 N03 F4 1
IV6 C02 F4 1
IV6 N21 F4 1
IV6 C07 F5 1
IV6 C04 F5 1
IV6 N03 F5 1
IV6 C02 F5 1
IV6 N21 F5 1
IV6 C08 F5 1
IV6 O15 F6 1
IV6 C13 F6 1
IV6 O14 F6 1
IV6 C12 F6 1
IV6 C16 F6 1
IV6 C17 F6 1
IV6 C18 F6 1
IV6 C10 F6 1
IV6 C11 F6 1
IV6 N09 F6 1
IV6 C08 F6 1
IV6 C07 F6 1
IV6 N20 F6 1
IV6 C19 F6 1
#
_pdbe_chem_comp_rdkit_properties.comp_id IV6
_pdbe_chem_comp_rdkit_properties.exactmw 303.052
_pdbe_chem_comp_rdkit_properties.amw 303.709
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 7
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 4
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 7
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 21
_pdbe_chem_comp_rdkit_properties.NumAtoms 31
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 8
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.077
_pdbe_chem_comp_rdkit_properties.NumRings 3
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 3
_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 137.981
_pdbe_chem_comp_rdkit_properties.tpsa 92.930
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.155
_pdbe_chem_comp_rdkit_properties.CrippenMR 74.219
_pdbe_chem_comp_rdkit_properties.chi0v 10.686
_pdbe_chem_comp_rdkit_properties.chi1v 5.685
_pdbe_chem_comp_rdkit_properties.chi2v 2.608
_pdbe_chem_comp_rdkit_properties.chi3v 2.608
_pdbe_chem_comp_rdkit_properties.chi4v 1.751
_pdbe_chem_comp_rdkit_properties.chi0n 19.931
_pdbe_chem_comp_rdkit_properties.chi1n 10.162
_pdbe_chem_comp_rdkit_properties.chi2n 2.439
_pdbe_chem_comp_rdkit_properties.chi3n 2.439
_pdbe_chem_comp_rdkit_properties.chi4n 1.591
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.670
_pdbe_chem_comp_rdkit_properties.kappa1 5.984
_pdbe_chem_comp_rdkit_properties.kappa2 5.024
_pdbe_chem_comp_rdkit_properties.kappa3 2.273
_pdbe_chem_comp_rdkit_properties.Phi 1.432
#
_pdbe_chem_comp_external_mappings.comp_id IV6
_pdbe_chem_comp_external_mappings.source UniChem
_pdbe_chem_comp_external_mappings.resource PubChem
_pdbe_chem_comp_external_mappings.resource_id 169449345
#
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
IV6 C10 -1.570 -0.908 0.376 ETKDGv3 1
IV6 C13 -4.296 1.152 -1.363 ETKDGv3 2
IV6 C17 -3.630 -2.222 0.223 ETKDGv3 3
IV6 C02 1.823 1.397 -1.472 ETKDGv3 4
IV6 C04 3.174 0.487 0.299 ETKDGv3 5
IV6 C06 5.667 0.881 0.457 ETKDGv3 6
IV6 C07 1.943 -0.123 0.817 ETKDGv3 7
IV6 C08 0.810 0.076 0.197 ETKDGv3 8
IV6 C11 -2.291 0.197 -0.308 ETKDGv3 9
IV6 C12 -3.576 0.052 -0.686 ETKDGv3 10
IV6 C16 -4.270 -1.230 -0.404 ETKDGv3 11
IV6 C18 -2.222 -2.055 0.633 ETKDGv3 12
IV6 C19 0.537 -1.428 1.796 ETKDGv3 13
IV6 N03 3.087 1.209 -0.789 ETKDGv3 14
IV6 N05 4.431 0.291 0.958 ETKDGv3 15
IV6 N09 -0.195 -0.746 0.765 ETKDGv3 16
IV6 N20 1.792 -1.087 1.855 ETKDGv3 17
IV6 N21 0.732 0.843 -1.010 ETKDGv3 18
IV6 O14 -5.501 1.008 -1.701 ETKDGv3 19
IV6 O15 -3.651 2.357 -1.636 ETKDGv3 20
IV6 CL01 1.760 2.350 -2.938 ETKDGv3 21
IV6 H171 -4.141 -3.154 0.428 ETKDGv3 22
IV6 H062 5.874 0.507 -0.568 ETKDGv3 23
IV6 H063 5.576 1.987 0.439 ETKDGv3 24
IV6 H061 6.514 0.602 1.119 ETKDGv3 25
IV6 H111 -1.778 1.134 -0.478 ETKDGv3 26
IV6 H161 -5.303 -1.371 -0.700 ETKDGv3 27
IV6 H181 -1.724 -2.881 1.122 ETKDGv3 28
IV6 H191 0.099 -2.150 2.471 ETKDGv3 29
IV6 H051 4.469 -0.290 1.825 ETKDGv3 30
IV6 H1 -4.138 3.114 -2.100 ETKDGv3 31
#