data_K38 # _chem_comp.id K38 _chem_comp.name "(2~{R},3~{R},4~{S},5~{R})-2-(6-aminopurin-9-yl)-5-[[3-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynylamino]methyl]oxolane-3,4-diol" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H27 N11 O7" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2019-04-16 _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 569.530 _chem_comp.one_letter_code ? _chem_comp.three_letter_code K38 _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 6RGB _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.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 K38 N1 N1 N 0 1 Y N N 19.493 4.158 7.723 -8.177 2.325 1.786 N1 K38 1 K38 C2 C1 C 0 1 Y N N 19.864 5.287 8.329 -7.713 1.176 2.243 C2 K38 2 K38 C4 C2 C 0 1 Y N N 17.824 6.161 8.198 -6.115 1.045 0.596 C4 K38 3 K38 C5 C3 C 0 1 Y N N 17.386 5.042 7.564 -6.572 2.265 0.070 C5 K38 4 K38 C6 C4 C 0 1 Y N N 18.264 4.008 7.315 -7.646 2.904 0.714 C6 K38 5 K38 "C1'" C5 C 0 1 N N R 19.310 9.247 13.874 4.554 -0.842 0.920 "C1'" K38 6 K38 "C2'" C6 C 0 1 N N R 18.314 9.099 14.970 3.333 -0.562 1.833 "C2'" K38 7 K38 "C3'" C7 C 0 1 N N S 18.341 7.608 14.973 2.798 -1.989 2.106 "C3'" K38 8 K38 "C4'" C8 C 0 1 N N R 18.573 7.317 13.494 3.376 -2.836 0.956 "C4'" K38 9 K38 "C5'" C9 C 0 1 N N N 17.364 6.703 12.864 2.238 -3.491 0.170 "C5'" K38 10 K38 C8 C10 C 0 1 Y N N 15.797 6.405 7.768 -4.928 1.601 -1.177 C8 K38 11 K38 CAF C11 C 0 1 N N R 16.859 8.258 8.949 -4.279 -0.569 -0.062 CAF K38 12 K38 CAG C12 C 0 1 N N R 16.726 9.343 7.942 -4.941 -1.743 -0.817 CAG K38 13 K38 CAH C13 C 0 1 N N S 15.455 9.987 8.398 -3.749 -2.536 -1.398 CAH K38 14 K38 CAI C14 C 0 1 N N R 15.493 9.611 9.853 -2.508 -1.746 -0.926 CAI K38 15 K38 CAJ C15 C 0 1 N N N 14.148 9.839 10.636 -1.432 -1.744 -2.014 CAJ K38 16 K38 CAL C16 C 0 1 N N N 14.598 10.587 13.070 0.837 -1.072 -2.523 CAL K38 17 K38 CAM C17 C 0 1 N N N 15.998 10.923 12.923 2.035 -0.414 -1.976 CAM K38 18 K38 CAN C18 C 0 1 N N N 17.107 11.121 12.813 2.990 0.111 -1.540 CAN K38 19 K38 CAO C19 C 0 1 Y N N 18.488 11.273 12.747 4.155 0.752 -1.008 CAO K38 20 K38 CAQ C20 C 0 1 Y N N 20.541 11.026 12.916 5.899 1.204 0.275 CAQ K38 21 K38 CAS C21 C 0 1 Y N N 22.730 11.406 12.687 7.763 2.290 1.068 CAS K38 22 K38 CAU C22 C 0 1 Y N N 21.317 12.962 11.808 6.753 3.187 -0.803 CAU K38 23 K38 CAV C23 C 0 1 Y N N 20.295 12.176 12.263 5.794 2.158 -0.753 CAV K38 24 K38 N3 N2 N 0 1 Y N N 19.068 6.248 8.569 -6.709 0.542 1.673 N3 K38 25 K38 N6 N3 N 0 1 N N N 17.949 2.915 6.700 -8.139 4.108 0.242 N6 K38 26 K38 N7 N4 N 0 1 Y N N 16.142 5.244 7.316 -5.805 2.547 -1.010 N7 K38 27 K38 N9 N5 N 0 1 Y N N 16.830 6.981 8.303 -5.078 0.650 -0.211 N9 K38 28 K38 NAK N6 N 0 1 N N N 14.184 9.564 12.084 -0.219 -1.093 -1.503 NAK K38 29 K38 NAP N7 N 0 1 Y N N 19.415 10.490 13.215 4.858 0.328 0.093 NAP K38 30 K38 NAR N8 N 0 1 Y N N 21.775 10.662 13.114 6.891 1.308 1.153 NAR K38 31 K38 NAT N9 N 0 1 Y N N 22.534 12.557 12.022 7.705 3.211 0.123 NAT K38 32 K38 NAW N10 N 0 1 Y N N 19.030 12.273 12.194 4.718 1.830 -1.501 NAW K38 33 K38 NAX N11 N 0 1 N N N 21.100 14.059 11.174 6.700 4.157 -1.789 NAX K38 34 K38 "O2'" O1 O 0 1 N N N 18.780 9.651 16.159 3.739 0.072 3.047 "O2'" K38 35 K38 "O3'" O2 O 0 1 N N N 19.472 7.178 15.608 3.272 -2.468 3.366 "O3'" K38 36 K38 "O4'" O3 O 0 1 N N N 18.719 8.511 12.959 4.115 -1.947 0.101 "O4'" K38 37 K38 "O5'" O4 O 0 1 N N N 16.182 7.422 13.063 2.785 -4.365 -0.820 "O5'" K38 38 K38 OBH O5 O 0 1 N N N 15.740 8.335 9.690 -2.990 -0.405 -0.693 OBH K38 39 K38 OBI O6 O 0 1 N N N 15.451 11.343 8.192 -3.727 -3.864 -0.872 OBI K38 40 K38 OBJ O7 O 0 1 N N N 17.809 10.207 8.052 -5.692 -2.558 0.086 OBJ K38 41 K38 H1 H1 H 0 1 N N N 20.896 5.390 8.632 -8.174 0.740 3.117 H1 K38 42 K38 H2 H2 H 0 1 N N N 20.292 8.861 14.185 5.421 -1.126 1.515 H2 K38 43 K38 H3 H3 H 0 1 N N N 17.327 9.483 14.673 2.587 0.039 1.312 H3 K38 44 K38 H4 H4 H 0 1 N N N 17.404 7.166 15.342 1.708 -2.000 2.081 H4 K38 45 K38 H5 H5 H 0 1 N N N 19.451 6.666 13.367 4.039 -3.602 1.356 H5 K38 46 K38 H6 H6 H 0 1 N N N 17.230 5.696 13.286 1.609 -4.063 0.852 H6 K38 47 K38 H7 H7 H 0 1 N N N 17.542 6.626 11.781 1.640 -2.720 -0.316 H7 K38 48 K38 H8 H8 H 0 1 N N N 14.805 6.829 7.710 -4.189 1.572 -1.964 H8 K38 49 K38 H9 H9 H 0 1 N N N 17.776 8.389 9.542 -4.157 -0.815 0.992 H9 K38 50 K38 H10 H10 H 0 1 N N N 16.616 8.930 6.928 -5.581 -1.371 -1.617 H10 K38 51 K38 H11 H11 H 0 1 N N N 14.596 9.500 7.912 -3.798 -2.556 -2.486 H11 K38 52 K38 H12 H12 H 0 1 N N N 16.305 10.150 10.363 -2.113 -2.175 -0.005 H12 K38 53 K38 H13 H13 H 0 1 N N N 13.855 10.891 10.501 -1.202 -2.770 -2.299 H13 K38 54 K38 H14 H14 H 0 1 N N N 13.384 9.186 10.189 -1.798 -1.199 -2.885 H14 K38 55 K38 H15 H15 H 0 1 N N N 13.994 11.494 12.920 0.488 -0.522 -3.397 H15 K38 56 K38 H16 H16 H 0 1 N N N 14.428 10.197 14.084 1.084 -2.094 -2.812 H16 K38 57 K38 H17 H17 H 0 1 N N N 23.746 11.090 12.872 8.557 2.345 1.798 H17 K38 58 K38 H18 H18 H 0 1 N N N 18.754 2.325 6.634 -7.744 4.520 -0.542 H18 K38 59 K38 H19 H19 H 0 1 N N N 17.230 2.442 7.209 -8.881 4.539 0.694 H19 K38 60 K38 H20 H20 H 0 1 N N N 13.257 9.289 12.339 -0.421 -0.161 -1.172 H20 K38 61 K38 H22 H22 H 0 1 N N N 21.973 14.474 10.917 7.362 4.865 -1.809 H22 K38 62 K38 H23 H23 H 0 1 N N N 20.567 13.868 10.350 6.000 4.129 -2.460 H23 K38 63 K38 H24 H24 H 0 1 N N N 18.124 9.542 16.838 3.010 0.267 3.652 H24 K38 64 K38 H25 H25 H 0 1 N N N 19.390 7.333 16.542 2.968 -3.358 3.589 H25 K38 65 K38 H26 H26 H 0 1 N N N 15.462 6.973 12.636 2.119 -4.816 -1.357 H26 K38 66 K38 H27 H27 H 0 1 N N N 14.628 11.707 8.495 -4.512 -4.386 -1.087 H27 K38 67 K38 H28 H28 H 0 1 N N N 18.597 9.767 7.755 -6.080 -3.344 -0.323 H28 K38 68 # # 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 K38 N6 C6 SING N N 1 K38 C6 C5 DOUB Y N 2 K38 C6 N1 SING Y N 3 K38 N7 C5 SING Y N 4 K38 N7 C8 DOUB Y N 5 K38 C5 C4 SING Y N 6 K38 N1 C2 DOUB Y N 7 K38 C8 N9 SING Y N 8 K38 CAG OBJ SING N N 9 K38 CAG CAH SING N N 10 K38 CAG CAF SING N N 11 K38 OBI CAH SING N N 12 K38 C4 N9 SING Y N 13 K38 C4 N3 DOUB Y N 14 K38 N9 CAF SING N N 15 K38 C2 N3 SING Y N 16 K38 CAH CAI SING N N 17 K38 CAF OBH SING N N 18 K38 OBH CAI SING N N 19 K38 CAI CAJ SING N N 20 K38 CAJ NAK SING N N 21 K38 NAX CAU SING N N 22 K38 CAU NAT DOUB Y N 23 K38 CAU CAV SING Y N 24 K38 NAT CAS SING Y N 25 K38 NAK CAL SING N N 26 K38 NAW CAV SING Y N 27 K38 NAW CAO DOUB Y N 28 K38 CAV CAQ DOUB Y N 29 K38 CAS NAR DOUB Y N 30 K38 CAO CAN SING N N 31 K38 CAO NAP SING Y N 32 K38 CAN CAM TRIP N N 33 K38 "C5'" "O5'" SING N N 34 K38 "C5'" "C4'" SING N N 35 K38 CAQ NAR SING Y N 36 K38 CAQ NAP SING Y N 37 K38 CAM CAL SING N N 38 K38 "O4'" "C4'" SING N N 39 K38 "O4'" "C1'" SING N N 40 K38 NAP "C1'" SING N N 41 K38 "C4'" "C3'" SING N N 42 K38 "C1'" "C2'" SING N N 43 K38 "C2'" "C3'" SING N N 44 K38 "C2'" "O2'" SING N N 45 K38 "C3'" "O3'" SING N N 46 K38 C2 H1 SING N N 47 K38 "C1'" H2 SING N N 48 K38 "C2'" H3 SING N N 49 K38 "C3'" H4 SING N N 50 K38 "C4'" H5 SING N N 51 K38 "C5'" H6 SING N N 52 K38 "C5'" H7 SING N N 53 K38 C8 H8 SING N N 54 K38 CAF H9 SING N N 55 K38 CAG H10 SING N N 56 K38 CAH H11 SING N N 57 K38 CAI H12 SING N N 58 K38 CAJ H13 SING N N 59 K38 CAJ H14 SING N N 60 K38 CAL H15 SING N N 61 K38 CAL H16 SING N N 62 K38 CAS H17 SING N N 63 K38 N6 H18 SING N N 64 K38 N6 H19 SING N N 65 K38 NAK H20 SING N N 66 K38 NAX H22 SING N N 67 K38 NAX H23 SING N N 68 K38 "O2'" H24 SING N N 69 K38 "O3'" H25 SING N N 70 K38 "O5'" H26 SING N N 71 K38 OBI H27 SING N N 72 K38 OBJ H28 SING N N 73 # # 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 K38 InChI InChI 1.03 "InChI=1S/C23H27N11O7/c24-18-12-20(29-6-27-18)33(8-31-12)22-16(38)14(36)9(40-22)4-26-3-1-2-11-32-13-19(25)28-7-30-21(13)34(11)23-17(39)15(37)10(5-35)41-23/h6-10,14-17,22-23,26,35-39H,3-5H2,(H2,24,27,29)(H2,25,28,30)/t9-,10-,14-,15-,16-,17-,22-,23-/m1/s1" K38 InChIKey InChI 1.03 CGSYXPCXDPYUKS-MKWZPUSRSA-N K38 SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CNCC#Cc4nc5c(N)ncnc5n4[C@@H]6O[C@H](CO)[C@@H](O)[C@H]6O)[C@@H](O)[C@H]3O" K38 SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CNCC#Cc4nc5c(N)ncnc5n4[CH]6O[CH](CO)[CH](O)[CH]6O)[CH](O)[CH]3O" K38 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CNCC#Cc4nc5c(ncnc5n4[C@H]6[C@@H]([C@@H]([C@H](O6)CO)O)O)N)O)O)N" K38 SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CNCC#Cc4nc5c(ncnc5n4C6C(C(C(O6)CO)O)O)N)O)O)N" # _pdbx_chem_comp_identifier.comp_id K38 _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-[6-azanyl-9-[(2~{R},3~{R},4~{S},5~{R})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]purin-8-yl]prop-2-ynylamino]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 K38 "Create component" 2019-04-16 RCSB K38 "Initial release" 2020-02-19 RCSB ##