data_XKB # _chem_comp.id XKB _chem_comp.name ;5'-O-[(3-Indolyl)-1-Ethyl]Carbamoyl 2-aminoethenoadenosine ; _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H24 N8 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "[(2~{R},3~{S},4~{R},5~{R})-5-(5-azanylimidazo[2,1-f]purin-3-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-[2-(1~{H}-indol-3-yl)ethyl]carbamate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-07 _chem_comp.pdbx_modified_date 2023-06-09 _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 492.487 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XKB _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 8PA6 _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.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 XKB C2 C1 C 0 1 Y N N 9.806 5.513 -1.000 7.083 0.322 -0.636 C2 XKB 1 XKB C4 C2 C 0 1 Y N N 7.880 5.537 0.218 4.810 0.417 -0.173 C4 XKB 2 XKB C5 C3 C 0 1 Y N N 7.058 5.199 -0.847 4.899 1.772 0.154 C5 XKB 3 XKB C6 C4 C 0 1 Y N N 7.660 5.032 -2.078 6.210 2.414 0.064 C6 XKB 4 XKB N6 N1 N 0 1 Y N N 7.163 4.707 -3.289 6.649 3.635 0.291 N6 XKB 5 XKB C11 C5 C 0 1 N N N 4.826 4.966 7.661 -2.641 -1.544 0.052 C11 XKB 6 XKB N12 N2 N 0 1 N N N 4.643 5.773 8.703 -3.566 -1.027 -0.782 N12 XKB 7 XKB "O5'" O1 O 0 1 N N N 5.802 5.453 6.863 -1.381 -1.741 -0.380 "O5'" XKB 8 XKB "C5'" C6 C 0 1 N N N 5.942 4.803 5.587 -0.438 -2.301 0.572 "C5'" XKB 9 XKB "C4'" C7 C 0 1 N N R 6.955 5.572 4.819 0.931 -2.452 -0.095 "C4'" XKB 10 XKB "O4'" O2 O 0 1 N N N 7.062 4.987 3.518 1.475 -1.155 -0.392 "O4'" XKB 11 XKB "C3'" C8 C 0 1 N N S 6.668 7.080 4.664 1.908 -3.153 0.868 "C3'" XKB 12 XKB "O3'" O3 O 0 1 N N N 7.677 7.829 5.362 2.386 -4.372 0.296 "O3'" XKB 13 XKB "C2'" C9 C 0 1 N N R 6.619 7.255 3.140 3.068 -2.141 1.035 "C2'" XKB 14 XKB "O2'" O4 O 0 1 N N N 7.126 8.506 2.729 4.332 -2.809 1.032 "O2'" XKB 15 XKB "C1'" C10 C 0 1 N N R 7.423 6.031 2.635 2.907 -1.251 -0.229 "C1'" XKB 16 XKB N9 N3 N 0 1 Y N N 7.080 5.622 1.280 3.492 0.073 -0.006 N9 XKB 17 XKB C8 C11 C 0 1 Y N N 5.783 5.369 0.853 2.828 1.189 0.406 C8 XKB 18 XKB N7 N4 N 0 1 Y N N 5.721 5.109 -0.439 3.660 2.187 0.499 N7 XKB 19 XKB N1 N5 N 0 1 Y N N 9.038 5.224 -2.117 7.275 1.642 -0.337 N1 XKB 20 XKB N3 N6 N 0 1 Y N N 9.210 5.708 0.177 5.907 -0.251 -0.555 N3 XKB 21 XKB C9 C12 C 0 1 Y N N 8.268 4.724 -4.113 7.965 3.683 0.047 C9 XKB 22 XKB C10 C13 C 0 1 Y N N 9.419 4.982 -3.433 8.377 2.460 -0.342 C10 XKB 23 XKB O11 O5 O 0 1 N N N 4.173 3.956 7.428 -2.944 -1.831 1.192 O11 XKB 24 XKB C12 C14 C 0 1 N N N 5.280 7.104 8.874 -4.937 -0.813 -0.312 C12 XKB 25 XKB C13 C15 C 0 1 N N N 4.529 8.233 8.286 -5.777 -0.222 -1.446 C13 XKB 26 XKB C14 C16 C 0 1 Y N N 3.072 8.286 8.613 -7.188 -0.001 -0.962 C14 XKB 27 XKB C15 C17 C 0 1 Y N N 2.062 7.868 7.810 -8.222 -0.844 -1.106 C15 XKB 28 XKB N15 N7 N 0 1 Y N N 0.854 8.051 8.426 -9.345 -0.304 -0.541 N15 XKB 29 XKB C16 C18 C 0 1 Y N N 1.052 8.634 9.651 -9.054 0.931 -0.006 C16 XKB 30 XKB C21 C19 C 0 1 Y N N 2.446 8.795 9.818 -7.688 1.172 -0.241 C21 XKB 31 XKB C20 C20 C 0 1 Y N N 2.907 9.332 11.030 -7.104 2.361 0.202 C20 XKB 32 XKB C19 C21 C 0 1 Y N N 2.003 9.736 11.997 -7.863 3.283 0.866 C19 XKB 33 XKB C18 C22 C 0 1 Y N N 0.627 9.595 11.780 -9.210 3.047 1.104 C18 XKB 34 XKB C17 C23 C 0 1 Y N N 0.133 9.026 10.625 -9.809 1.885 0.667 C17 XKB 35 XKB N2 N8 N 0 1 N N N 11.113 5.659 -1.160 8.161 -0.431 -1.041 N2 XKB 36 XKB H1 H1 H 0 1 N N N 4.029 5.459 9.427 -3.323 -0.798 -1.693 H1 XKB 37 XKB H2 H2 H 0 1 N N N 4.980 4.806 5.053 -0.352 -1.637 1.431 H2 XKB 38 XKB H3 H3 H 0 1 N N N 6.280 3.766 5.726 -0.791 -3.278 0.901 H3 XKB 39 XKB H4 H4 H 0 1 N N N 7.922 5.472 5.334 0.834 -3.032 -1.013 H4 XKB 40 XKB H5 H5 H 0 1 N N N 5.674 7.298 5.081 1.427 -3.345 1.827 H5 XKB 41 XKB H6 H6 H 0 1 N N N 7.619 7.648 6.293 3.006 -4.855 0.860 H6 XKB 42 XKB H7 H7 H 0 1 N N N 5.576 7.142 2.810 2.944 -1.552 1.943 H7 XKB 43 XKB H8 H8 H 0 1 N N N 6.580 9.200 3.079 4.443 -3.443 1.753 H8 XKB 44 XKB H9 H9 H 0 1 N N N 8.498 6.253 2.707 3.359 -1.731 -1.097 H9 XKB 45 XKB H10 H10 H 0 1 N N N 4.922 5.383 1.505 1.771 1.239 0.623 H10 XKB 46 XKB H11 H11 H 0 1 N N N 8.225 4.552 -5.178 8.593 4.556 0.148 H11 XKB 47 XKB H12 H12 H 0 1 N N N 10.422 4.996 -3.833 9.384 2.176 -0.609 H12 XKB 48 XKB H13 H13 H 0 1 N N N 6.273 7.071 8.402 -5.366 -1.764 0.001 H13 XKB 49 XKB H14 H14 H 0 1 N N N 5.393 7.293 9.952 -4.927 -0.123 0.532 H14 XKB 50 XKB H15 H15 H 0 1 N N N 4.627 8.170 7.192 -5.347 0.730 -1.759 H15 XKB 51 XKB H16 H16 H 0 1 N N N 4.989 9.166 8.643 -5.786 -0.912 -2.289 H16 XKB 52 XKB H17 H17 H 0 1 N N N 2.193 7.450 6.823 -8.175 -1.805 -1.595 H17 XKB 53 XKB H18 H18 H 0 1 N N N -0.035 7.799 8.043 -10.218 -0.728 -0.520 H18 XKB 54 XKB H19 H19 H 0 1 N N N 3.968 9.430 11.208 -6.056 2.550 0.021 H19 XKB 55 XKB H20 H20 H 0 1 N N N 2.360 10.162 12.923 -7.411 4.201 1.209 H20 XKB 56 XKB H21 H21 H 0 1 N N N -0.064 9.940 12.535 -9.797 3.786 1.630 H21 XKB 57 XKB H22 H22 H 0 1 N N N -0.928 8.889 10.479 -10.857 1.711 0.859 H22 XKB 58 XKB H23 H23 H 0 1 N N N 11.528 5.924 -0.290 8.043 -1.368 -1.261 H23 XKB 59 XKB H24 H24 H 0 1 N N N 11.509 4.795 -1.469 9.039 -0.024 -1.107 H24 XKB 60 # 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 XKB C9 C10 DOUB Y N 1 XKB C9 N6 SING Y N 2 XKB C10 N1 SING Y N 3 XKB N6 C6 DOUB Y N 4 XKB N1 C6 SING Y N 5 XKB N1 C2 SING Y N 6 XKB C6 C5 SING Y N 7 XKB N2 C2 SING N N 8 XKB C2 N3 DOUB Y N 9 XKB C5 N7 SING Y N 10 XKB C5 C4 DOUB Y N 11 XKB N7 C8 DOUB Y N 12 XKB N3 C4 SING Y N 13 XKB C4 N9 SING Y N 14 XKB C8 N9 SING Y N 15 XKB N9 "C1'" SING N N 16 XKB "C1'" "C2'" SING N N 17 XKB "C1'" "O4'" SING N N 18 XKB "O2'" "C2'" SING N N 19 XKB "C2'" "C3'" SING N N 20 XKB "O4'" "C4'" SING N N 21 XKB "C3'" "C4'" SING N N 22 XKB "C3'" "O3'" SING N N 23 XKB "C4'" "C5'" SING N N 24 XKB "C5'" "O5'" SING N N 25 XKB "O5'" C11 SING N N 26 XKB O11 C11 DOUB N N 27 XKB C11 N12 SING N N 28 XKB C15 N15 SING Y N 29 XKB C15 C14 DOUB Y N 30 XKB C13 C14 SING N N 31 XKB C13 C12 SING N N 32 XKB N15 C16 SING Y N 33 XKB C14 C21 SING Y N 34 XKB N12 C12 SING N N 35 XKB C16 C21 DOUB Y N 36 XKB C16 C17 SING Y N 37 XKB C21 C20 SING Y N 38 XKB C17 C18 DOUB Y N 39 XKB C20 C19 DOUB Y N 40 XKB C18 C19 SING Y N 41 XKB N12 H1 SING N N 42 XKB "C5'" H2 SING N N 43 XKB "C5'" H3 SING N N 44 XKB "C4'" H4 SING N N 45 XKB "C3'" H5 SING N N 46 XKB "O3'" H6 SING N N 47 XKB "C2'" H7 SING N N 48 XKB "O2'" H8 SING N N 49 XKB "C1'" H9 SING N N 50 XKB C8 H10 SING N N 51 XKB C9 H11 SING N N 52 XKB C10 H12 SING N N 53 XKB C12 H13 SING N N 54 XKB C12 H14 SING N N 55 XKB C13 H15 SING N N 56 XKB C13 H16 SING N N 57 XKB C15 H17 SING N N 58 XKB N15 H18 SING N N 59 XKB C20 H19 SING N N 60 XKB C19 H20 SING N N 61 XKB C18 H21 SING N N 62 XKB C17 H22 SING N N 63 XKB N2 H23 SING N N 64 XKB N2 H24 SING N N 65 # 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 XKB InChI InChI 1.06 "InChI=1S/C23H24N8O5/c24-22-29-20-16(19-25-7-8-30(19)22)28-11-31(20)21-18(33)17(32)15(36-21)10-35-23(34)26-6-5-12-9-27-14-4-2-1-3-13(12)14/h1-4,7-9,11,15,17-18,21,27,32-33H,5-6,10H2,(H2,24,29)(H,26,34)/t15-,17-,18-,21-/m1/s1" XKB InChIKey InChI 1.06 PHVKAGZMQNJNJY-QTQZEZTPSA-N XKB SMILES_CANONICAL CACTVS 3.385 "Nc1nc2n(cnc2c3nccn13)[C@@H]4O[C@H](COC(=O)NCCc5c[nH]c6ccccc56)[C@@H](O)[C@H]4O" XKB SMILES CACTVS 3.385 "Nc1nc2n(cnc2c3nccn13)[CH]4O[CH](COC(=O)NCCc5c[nH]c6ccccc56)[CH](O)[CH]4O" XKB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)c(c[nH]2)CCNC(=O)OC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4nc(n6c5ncc6)N)O)O" XKB SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)c(c[nH]2)CCNC(=O)OCC3C(C(C(O3)n4cnc5c4nc(n6c5ncc6)N)O)O" # _pdbx_chem_comp_identifier.comp_id XKB _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~{S},4~{R},5~{R})-5-(5-azanylimidazo[2,1-f]purin-3-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-[2-(1~{H}-indol-3-yl)ethyl]carbamate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XKB "Create component" 2023-06-07 PDBE XKB "Initial release" 2023-06-14 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id XKB _pdbx_chem_comp_synonyms.name "[(2~{R},3~{S},4~{R},5~{R})-5-(5-azanylimidazo[2,1-f]purin-3-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-[2-(1~{H}-indol-3-yl)ethyl]carbamate" _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? #