data_KY5 # _chem_comp.id KY5 _chem_comp.name "(2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-azanylpropyl-[3-(pyridin-2-ylamino)propyl]amino]methyl]oxolane-3,4-diol" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H31 N9 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2019-07-04 _chem_comp.pdbx_modified_date 2020-02-28 _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 457.529 _chem_comp.one_letter_code ? _chem_comp.three_letter_code KY5 _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 6S7A _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.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 KY5 C02 C1 C 0 1 N N S 11.902 12.823 -27.877 1.925 3.281 -0.309 C02 KY5 1 KY5 C03 C2 C 0 1 N N R 11.387 12.118 -26.721 3.024 2.210 -0.135 C03 KY5 2 KY5 C05 C3 C 0 1 N N R 12.488 11.151 -26.480 2.263 0.974 0.396 C05 KY5 3 KY5 C07 C4 C 0 1 Y N N 12.893 9.440 -24.682 3.902 -0.953 0.303 C07 KY5 4 KY5 C09 C5 C 0 1 Y N N 13.041 7.122 -24.688 5.702 -1.676 1.537 C09 KY5 5 KY5 C11 C6 C 0 1 Y N N 13.353 8.269 -22.643 5.117 -2.946 -0.299 C11 KY5 6 KY5 C13 C7 C 0 1 Y N N 13.158 9.498 -23.332 4.067 -2.049 -0.560 C13 KY5 7 KY5 C15 C8 C 0 1 Y N N 12.906 11.556 -24.062 2.367 -0.910 -1.279 C15 KY5 8 KY5 C17 C9 C 0 1 N N R 13.155 12.610 -28.011 0.630 2.566 0.137 C17 KY5 9 KY5 C18 C10 C 0 1 N N N 14.086 13.708 -27.860 -0.547 3.001 -0.739 C18 KY5 10 KY5 C20 C11 C 0 1 N N N 14.871 16.012 -28.541 -2.962 3.161 -0.687 C20 KY5 11 KY5 C21 C12 C 0 1 N N N 14.120 16.798 -27.462 -3.024 4.513 0.026 C21 KY5 12 KY5 C22 C13 C 0 1 N N N 14.583 18.280 -27.461 -4.314 5.237 -0.365 C22 KY5 13 KY5 C24 C14 C 0 1 N N N 14.450 14.384 -30.348 -1.890 0.993 -0.580 C24 KY5 14 KY5 C25 C15 C 0 1 N N N 15.998 14.077 -30.484 -3.041 0.350 0.197 C25 KY5 15 KY5 C26 C16 C 0 1 N N N 16.290 13.329 -31.827 -3.146 -1.129 -0.179 C26 KY5 16 KY5 C28 C17 C 0 1 Y N N 16.474 15.270 -33.292 -4.539 -3.092 0.387 C28 KY5 17 KY5 C29 C18 C 0 1 Y N N 17.909 15.579 -32.832 -3.780 -3.851 -0.498 C29 KY5 18 KY5 C30 C19 C 0 1 Y N N 18.646 16.752 -33.392 -4.081 -5.190 -0.665 C30 KY5 19 KY5 C31 C20 C 0 1 Y N N 17.975 17.619 -34.418 -5.135 -5.729 0.061 C31 KY5 20 KY5 C32 C21 C 0 1 Y N N 16.554 17.302 -34.849 -5.846 -4.918 0.922 C32 KY5 21 KY5 N06 N1 N 0 1 Y N N 12.726 10.743 -25.128 2.823 -0.253 -0.175 N06 KY5 22 KY5 N08 N2 N 0 1 Y N N 12.828 8.255 -25.360 4.735 -0.807 1.329 N08 KY5 23 KY5 N10 N3 N 0 1 Y N N 13.298 7.123 -23.362 5.896 -2.721 0.753 N10 KY5 24 KY5 N12 N4 N 0 1 N N N 13.574 8.228 -21.210 5.328 -4.044 -1.115 N12 KY5 25 KY5 N14 N5 N 0 1 Y N N 13.120 10.818 -22.942 3.098 -1.964 -1.503 N14 KY5 26 KY5 N19 N6 N 0 1 N N N 14.074 14.805 -28.924 -1.788 2.413 -0.218 N19 KY5 27 KY5 N23 N7 N 0 1 N N N 15.855 18.309 -26.771 -4.374 6.535 0.321 N23 KY5 28 KY5 N27 N8 N 0 1 N N N 15.787 14.274 -32.866 -4.248 -1.745 0.564 N27 KY5 29 KY5 N33 N9 N 0 1 Y N N 15.817 16.143 -34.317 -5.540 -3.641 1.058 N33 KY5 30 KY5 O01 O1 O 0 1 N N N 11.255 12.348 -29.119 2.190 4.411 0.526 O01 KY5 31 KY5 O04 O2 O 0 1 N N N 10.196 11.535 -26.852 4.000 2.643 0.816 O04 KY5 32 KY5 O16 O3 O 0 1 N N N 13.543 11.725 -26.877 0.902 1.160 -0.049 O16 KY5 33 KY5 H1 H1 H 0 1 N N N 11.687 13.896 -27.762 1.852 3.588 -1.352 H1 KY5 34 KY5 H2 H2 H 0 1 N N N 11.367 12.819 -25.874 3.495 1.986 -1.092 H2 KY5 35 KY5 H3 H3 H 0 1 N N N 12.281 10.253 -27.081 2.308 0.940 1.485 H3 KY5 36 KY5 H4 H4 H 0 1 N N N 13.007 6.181 -25.217 6.358 -1.531 2.382 H4 KY5 37 KY5 H5 H5 H 0 1 N N N 12.883 12.635 -24.096 1.524 -0.603 -1.879 H5 KY5 38 KY5 H6 H6 H 0 1 N N N 13.376 12.083 -28.951 0.421 2.779 1.185 H6 KY5 39 KY5 H7 H7 H 0 1 N N N 15.099 13.279 -27.843 -0.627 4.088 -0.726 H7 KY5 40 KY5 H8 H8 H 0 1 N N N 13.874 14.187 -26.893 -0.384 2.661 -1.761 H8 KY5 41 KY5 H9 H9 H 0 1 N N N 15.850 15.696 -28.150 -3.866 2.593 -0.468 H9 KY5 42 KY5 H10 H10 H 0 1 N N N 15.017 16.650 -29.425 -2.885 3.321 -1.763 H10 KY5 43 KY5 H11 H11 H 0 1 N N N 13.040 16.755 -27.666 -3.009 4.356 1.105 H11 KY5 44 KY5 H12 H12 H 0 1 N N N 14.326 16.352 -26.478 -2.166 5.117 -0.265 H12 KY5 45 KY5 H13 H13 H 0 1 N N N 14.701 18.643 -28.493 -4.330 5.394 -1.443 H13 KY5 46 KY5 H14 H14 H 0 1 N N N 13.849 18.908 -26.934 -5.173 4.632 -0.073 H14 KY5 47 KY5 H15 H15 H 0 1 N N N 14.187 15.197 -31.040 -0.957 0.487 -0.331 H15 KY5 48 KY5 H16 H16 H 0 1 N N N 13.883 13.479 -30.613 -2.078 0.903 -1.649 H16 KY5 49 KY5 H17 H17 H 0 1 N N N 16.318 13.447 -29.641 -2.852 0.440 1.267 H17 KY5 50 KY5 H18 H18 H 0 1 N N N 16.558 15.024 -30.467 -3.974 0.856 -0.052 H18 KY5 51 KY5 H19 H19 H 0 1 N N N 15.749 12.372 -31.870 -3.335 -1.219 -1.249 H19 KY5 52 KY5 H20 H20 H 0 1 N N N 17.368 13.147 -31.950 -2.213 -1.635 0.069 H20 KY5 53 KY5 H21 H21 H 0 1 N N N 18.387 14.944 -32.100 -2.967 -3.400 -1.048 H21 KY5 54 KY5 H22 H22 H 0 1 N N N 19.650 16.974 -33.062 -3.509 -5.804 -1.346 H22 KY5 55 KY5 H23 H23 H 0 1 N N N 18.499 18.461 -34.846 -5.395 -6.771 -0.047 H23 KY5 56 KY5 H24 H24 H 0 1 N N N 16.069 17.946 -35.568 -6.667 -5.332 1.489 H24 KY5 57 KY5 H25 H25 H 0 1 N N N 13.665 7.277 -20.913 4.748 -4.202 -1.876 H25 KY5 58 KY5 H26 H26 H 0 1 N N N 14.411 8.728 -20.987 6.056 -4.657 -0.924 H26 KY5 59 KY5 H28 H28 H 0 1 N N N 16.198 19.248 -26.743 -5.218 7.033 0.079 H28 KY5 60 KY5 H29 H29 H 0 1 N N N 15.736 17.970 -25.838 -4.296 6.420 1.320 H29 KY5 61 KY5 H31 H31 H 0 1 N N N 14.939 14.659 -32.502 -4.775 -1.212 1.180 H31 KY5 62 KY5 H32 H32 H 0 1 N N N 10.317 12.488 -29.062 3.022 4.860 0.326 H32 KY5 63 KY5 H33 H33 H 0 1 N N N 9.961 11.106 -26.037 4.466 3.451 0.560 H33 KY5 64 # # 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 KY5 C32 C31 DOUB Y N 1 KY5 C32 N33 SING Y N 2 KY5 C31 C30 SING Y N 3 KY5 N33 C28 DOUB Y N 4 KY5 C30 C29 DOUB Y N 5 KY5 C28 N27 SING N N 6 KY5 C28 C29 SING Y N 7 KY5 N27 C26 SING N N 8 KY5 C26 C25 SING N N 9 KY5 C25 C24 SING N N 10 KY5 C24 N19 SING N N 11 KY5 O01 C02 SING N N 12 KY5 N19 C20 SING N N 13 KY5 N19 C18 SING N N 14 KY5 C20 C21 SING N N 15 KY5 C17 C02 SING N N 16 KY5 C17 C18 SING N N 17 KY5 C17 O16 SING N N 18 KY5 C02 C03 SING N N 19 KY5 C21 C22 SING N N 20 KY5 C22 N23 SING N N 21 KY5 O16 C05 SING N N 22 KY5 O04 C03 SING N N 23 KY5 C03 C05 SING N N 24 KY5 C05 N06 SING N N 25 KY5 N08 C09 DOUB Y N 26 KY5 N08 C07 SING Y N 27 KY5 N06 C07 SING Y N 28 KY5 N06 C15 SING Y N 29 KY5 C09 N10 SING Y N 30 KY5 C07 C13 DOUB Y N 31 KY5 C15 N14 DOUB Y N 32 KY5 N10 C11 DOUB Y N 33 KY5 C13 N14 SING Y N 34 KY5 C13 C11 SING Y N 35 KY5 C11 N12 SING N N 36 KY5 C02 H1 SING N N 37 KY5 C03 H2 SING N N 38 KY5 C05 H3 SING N N 39 KY5 C09 H4 SING N N 40 KY5 C15 H5 SING N N 41 KY5 C17 H6 SING N N 42 KY5 C18 H7 SING N N 43 KY5 C18 H8 SING N N 44 KY5 C20 H9 SING N N 45 KY5 C20 H10 SING N N 46 KY5 C21 H11 SING N N 47 KY5 C21 H12 SING N N 48 KY5 C22 H13 SING N N 49 KY5 C22 H14 SING N N 50 KY5 C24 H15 SING N N 51 KY5 C24 H16 SING N N 52 KY5 C25 H17 SING N N 53 KY5 C25 H18 SING N N 54 KY5 C26 H19 SING N N 55 KY5 C26 H20 SING N N 56 KY5 C29 H21 SING N N 57 KY5 C30 H22 SING N N 58 KY5 C31 H23 SING N N 59 KY5 C32 H24 SING N N 60 KY5 N12 H25 SING N N 61 KY5 N12 H26 SING N N 62 KY5 N23 H28 SING N N 63 KY5 N23 H29 SING N N 64 KY5 N27 H31 SING N N 65 KY5 O01 H32 SING N N 66 KY5 O04 H33 SING N N 67 # # 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 KY5 InChI InChI 1.03 "InChI=1S/C21H31N9O3/c22-6-3-9-29(10-4-8-25-15-5-1-2-7-24-15)11-14-17(31)18(32)21(33-14)30-13-28-16-19(23)26-12-27-20(16)30/h1-2,5,7,12-14,17-18,21,31-32H,3-4,6,8-11,22H2,(H,24,25)(H2,23,26,27)/t14-,17-,18-,21-/m1/s1" KY5 InChIKey InChI 1.03 YWUJVBSQHYBLFQ-HAXDFEGKSA-N KY5 SMILES_CANONICAL CACTVS 3.385 "NCCCN(CCCNc1ccccn1)C[C@H]2O[C@H]([C@H](O)[C@@H]2O)n3cnc4c(N)ncnc34" KY5 SMILES CACTVS 3.385 "NCCCN(CCCNc1ccccn1)C[CH]2O[CH]([CH](O)[CH]2O)n3cnc4c(N)ncnc34" KY5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccnc(c1)NCCCN(CCCN)C[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3ncnc4N)O)O" KY5 SMILES "OpenEye OEToolkits" 2.0.7 "c1ccnc(c1)NCCCN(CCCN)CC2C(C(C(O2)n3cnc4c3ncnc4N)O)O" # _pdbx_chem_comp_identifier.comp_id KY5 _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 "(2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-azanylpropyl-[3-(pyridin-2-ylamino)propyl]amino]methyl]oxolane-3,4-diol" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site KY5 "Create component" 2019-07-04 EBI KY5 "Initial release" 2020-03-04 RCSB ##