data_A1D9C # _chem_comp.id A1D9C _chem_comp.name "(2S)-2-[2-[[(2S,3S,4R,5R)-5-(6-azanyl-2-chloranyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanyl]ethylamino]-3-(1H-imidazol-4-yl)propanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H23 Cl N8 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-06-18 _chem_comp.pdbx_modified_date 2024-11-01 _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 498.944 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1D9C _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 8ZX0 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBC _chem_comp.pdbx_pcm ? # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1D9C C4 C1 C 0 1 N N S N N N 13.838 12.391 16.486 -2.892 0.793 0.032 C4 A1D9C 1 A1D9C C6 C2 C 0 1 Y N N N N N 13.037 12.860 14.106 -3.443 -1.391 1.170 C6 A1D9C 2 A1D9C C8 C3 C 0 1 Y N N N N N 11.344 14.078 14.481 -5.508 -1.690 0.579 C8 A1D9C 3 A1D9C C21 C4 C 0 1 N N N N N N 20.080 12.575 17.119 3.201 0.239 0.585 C21 A1D9C 4 A1D9C C22 C5 C 0 1 N N N N N N 20.533 13.797 17.858 4.193 -0.522 -0.297 C22 A1D9C 5 A1D9C C24 C6 C 0 1 N N R N N N 22.083 15.762 17.381 6.438 -1.427 -0.388 C24 A1D9C 6 A1D9C C28 C7 C 0 1 N N N N N N 23.528 16.030 16.968 7.852 -1.071 0.073 C28 A1D9C 7 A1D9C O1 O1 O 0 1 N N N N N N 15.553 10.273 18.223 -1.569 3.875 0.790 O1 A1D9C 8 A1D9C C2 C8 C 0 1 N N S N N N 15.710 11.013 17.001 -1.617 2.507 1.202 C2 A1D9C 9 A1D9C C3 C9 C 0 1 N N R N N N 14.441 11.057 16.117 -3.048 1.945 1.049 C3 A1D9C 10 A1D9C N5 N1 N 0 1 Y N N N N N 12.962 12.972 15.472 -3.771 -0.324 0.387 N5 A1D9C 11 A1D9C N7 N2 N 0 1 Y N N N N N 12.094 13.506 13.467 -4.462 -2.193 1.279 N7 A1D9C 12 A1D9C C9 C10 C 0 1 Y N N N N N 10.170 14.849 14.477 -6.828 -2.107 0.340 C9 A1D9C 13 A1D9C N10 N3 N 0 1 Y N N N N N 9.644 15.229 15.659 -7.607 -1.342 -0.418 N10 A1D9C 14 A1D9C C11 C11 C 0 1 Y N N N N N 10.274 14.835 16.754 -7.158 -0.213 -0.940 C11 A1D9C 15 A1D9C CL12 CL1 CL 0 0 N N N N N N 9.541 15.356 18.226 -8.228 0.738 -1.921 CL12 A1D9C 16 A1D9C N13 N4 N 0 1 Y N N N N N 11.380 14.117 16.908 -5.923 0.208 -0.756 N13 A1D9C 17 A1D9C C14 C12 C 0 1 Y N N N N N 11.870 13.760 15.720 -5.075 -0.488 -0.006 C14 A1D9C 18 A1D9C N15 N5 N 0 1 N N N N N N 9.541 15.242 13.363 -7.307 -3.286 0.882 N15 A1D9C 19 A1D9C O16 O2 O 0 1 N N N N N N 14.929 13.264 16.709 -1.507 0.395 0.134 O16 A1D9C 20 A1D9C O17 O3 O 0 1 N N N N N N 13.513 10.055 16.487 -3.928 2.948 0.539 O17 A1D9C 21 A1D9C C18 C13 C 0 1 N N R N N N 15.976 12.483 17.318 -0.765 1.628 0.259 C18 A1D9C 22 A1D9C C19 C14 C 0 1 N N N N N N 17.341 12.886 16.797 0.610 1.362 0.875 C19 A1D9C 23 A1D9C S20 S1 S 0 1 N N N N N N 18.540 11.937 17.765 1.639 0.456 -0.312 S20 A1D9C 24 A1D9C N23 N6 N 0 1 N N N N N N 21.776 14.310 17.219 5.458 -0.698 0.430 N23 A1D9C 25 A1D9C C25 C15 C 0 1 N N N N N N 21.102 16.549 16.527 6.217 -2.910 -0.233 C25 A1D9C 26 A1D9C O26 O4 O 0 1 N N N N N N 21.052 17.792 16.725 7.001 -3.777 -0.892 O26 A1D9C 27 A1D9C O27 O5 O 0 1 N N N N N N 20.490 15.908 15.649 5.335 -3.318 0.485 O27 A1D9C 28 A1D9C C29 C16 C 0 1 Y N N N N N 23.778 15.682 15.538 8.116 0.389 -0.195 C29 A1D9C 29 A1D9C C30 C17 C 0 1 Y N N N N N 23.864 16.490 14.448 8.513 1.301 0.712 C30 A1D9C 30 A1D9C N31 N7 N 0 1 Y N N N N N 24.155 15.681 13.384 8.633 2.493 0.049 N31 A1D9C 31 A1D9C C32 C18 C 0 1 Y N N N N N 24.234 14.433 13.850 8.304 2.267 -1.242 C32 A1D9C 32 A1D9C N33 N8 N 0 1 Y N N N N N 24.010 14.381 15.157 8.001 1.005 -1.381 N33 A1D9C 33 A1D9C H4 H1 H 0 1 N N N N N N 13.270 12.266 17.419 -3.113 1.142 -0.977 H4 A1D9C 34 A1D9C H6 H2 H 0 1 N N N N N N 13.805 12.290 13.603 -2.478 -1.550 1.629 H6 A1D9C 35 A1D9C H21A H3 H 0 0 N N N N N N 20.853 11.798 17.210 3.019 -0.326 1.499 H21A A1D9C 36 A1D9C H21B H4 H 0 0 N N N N N N 19.941 12.832 16.058 3.614 1.215 0.837 H21B A1D9C 37 A1D9C H22B H5 H 0 0 N N N N N N 19.749 14.568 17.814 3.780 -1.499 -0.549 H22B A1D9C 38 A1D9C H22A H6 H 0 0 N N N N N N 20.736 13.540 18.908 4.375 0.043 -1.211 H22A A1D9C 39 A1D9C H24 H7 H 0 1 N N N N N N 21.953 16.049 18.435 6.316 -1.149 -1.435 H24 A1D9C 40 A1D9C H28A H8 H 0 0 N N N N N N 23.747 17.098 17.117 7.946 -1.266 1.141 H28A A1D9C 41 A1D9C H28B H9 H 0 0 N N N N N N 24.195 15.427 17.601 8.576 -1.677 -0.472 H28B A1D9C 42 A1D9C H1 H10 H 0 1 N N N N N N 16.368 10.290 18.711 -2.134 4.462 1.311 H1 A1D9C 43 A1D9C H2 H11 H 0 1 N N N N N N 16.546 10.611 16.410 -1.275 2.407 2.232 H2 A1D9C 44 A1D9C H3 H12 H 0 1 N N N N N N 14.707 11.020 15.050 -3.413 1.565 2.003 H3 A1D9C 45 A1D9C H15A H13 H 0 0 N N N N N N 8.737 15.785 13.607 -6.729 -3.836 1.434 H15A A1D9C 46 A1D9C H15B H14 H 0 0 N N N N N N 10.161 15.796 12.808 -8.221 -3.564 0.710 H15B A1D9C 47 A1D9C H17 H15 H 0 1 N N N N N N 12.748 10.109 15.927 -4.015 3.723 1.111 H17 A1D9C 48 A1D9C H18 H16 H 0 1 N N N N N N 15.957 12.618 18.410 -0.658 2.109 -0.714 H18 A1D9C 49 A1D9C H19B H17 H 0 0 N N N N N N 17.431 12.640 15.729 1.087 2.311 1.120 H19B A1D9C 50 A1D9C H19A H18 H 0 0 N N N N N N 17.502 13.965 16.940 0.493 0.769 1.782 H19A A1D9C 51 A1D9C H23 H19 H 0 1 N N N N N N 22.544 13.797 17.602 5.829 0.190 0.731 H23 A1D9C 52 A1D9C H5 H21 H 0 1 N N N N N N 20.465 18.190 16.093 6.822 -4.718 -0.761 H5 A1D9C 53 A1D9C H30 H22 H 0 1 N N N N N N 23.729 17.561 14.426 8.700 1.127 1.761 H30 A1D9C 54 A1D9C H31 H23 H 0 1 N N N N N N 24.284 15.970 12.436 8.903 3.341 0.434 H31 A1D9C 55 A1D9C H32 H24 H 0 1 N N N N N N 24.453 13.571 13.238 8.298 3.006 -2.028 H32 A1D9C 56 # 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 A1D9C O1 C2 SING N N 1 A1D9C C2 C3 SING N N 2 A1D9C C3 C4 SING N N 3 A1D9C C4 N5 SING N N 4 A1D9C N5 C6 SING Y N 5 A1D9C C6 N7 DOUB Y N 6 A1D9C N7 C8 SING Y N 7 A1D9C C8 C9 DOUB Y N 8 A1D9C C9 N10 SING Y N 9 A1D9C N10 C11 DOUB Y N 10 A1D9C C11 CL12 SING N N 11 A1D9C C11 N13 SING Y N 12 A1D9C N13 C14 DOUB Y N 13 A1D9C C9 N15 SING N N 14 A1D9C C4 O16 SING N N 15 A1D9C C3 O17 SING N N 16 A1D9C C2 C18 SING N N 17 A1D9C C18 C19 SING N N 18 A1D9C C19 S20 SING N N 19 A1D9C S20 C21 SING N N 20 A1D9C C21 C22 SING N N 21 A1D9C C22 N23 SING N N 22 A1D9C N23 C24 SING N N 23 A1D9C C24 C25 SING N N 24 A1D9C C25 O26 SING N N 25 A1D9C C25 O27 DOUB N N 26 A1D9C C24 C28 SING N N 27 A1D9C C28 C29 SING N N 28 A1D9C C29 C30 DOUB Y N 29 A1D9C C30 N31 SING Y N 30 A1D9C N31 C32 SING Y N 31 A1D9C C32 N33 DOUB Y N 32 A1D9C C14 N5 SING Y N 33 A1D9C C14 C8 SING Y N 34 A1D9C C18 O16 SING N N 35 A1D9C N33 C29 SING Y N 36 A1D9C C4 H4 SING N N 37 A1D9C C6 H6 SING N N 38 A1D9C C21 H21A SING N N 39 A1D9C C21 H21B SING N N 40 A1D9C C22 H22B SING N N 41 A1D9C C22 H22A SING N N 42 A1D9C C24 H24 SING N N 43 A1D9C C28 H28A SING N N 44 A1D9C C28 H28B SING N N 45 A1D9C O1 H1 SING N N 46 A1D9C C2 H2 SING N N 47 A1D9C C3 H3 SING N N 48 A1D9C N15 H15A SING N N 49 A1D9C N15 H15B SING N N 50 A1D9C O17 H17 SING N N 51 A1D9C C18 H18 SING N N 52 A1D9C C19 H19B SING N N 53 A1D9C C19 H19A SING N N 54 A1D9C N23 H23 SING N N 55 A1D9C O26 H5 SING N N 56 A1D9C C30 H30 SING N N 57 A1D9C N31 H31 SING N N 58 A1D9C C32 H32 SING N N 59 # 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 A1D9C InChI InChI 1.06 "InChI=1S/C18H23ClN8O5S/c19-18-25-14(20)11-15(26-18)27(7-24-11)16-13(29)12(28)10(32-16)5-33-2-1-22-9(17(30)31)3-8-4-21-6-23-8/h4,6-7,9-10,12-13,16,22,28-29H,1-3,5H2,(H,21,23)(H,30,31)(H2,20,25,26)/t9-,10+,12-,13-,16?/m1/s1" A1D9C InChIKey InChI 1.06 JLQQSEYELKTFRD-DZTHZORUSA-N A1D9C SMILES_CANONICAL CACTVS 3.385 "Nc1nc(Cl)nc2n(cnc12)[C@H]3O[C@@H](CSCCN[C@H](Cc4c[nH]cn4)C(O)=O)[C@@H](O)[C@H]3O" A1D9C SMILES CACTVS 3.385 "Nc1nc(Cl)nc2n(cnc12)[CH]3O[CH](CSCCN[CH](Cc4c[nH]cn4)C(O)=O)[CH](O)[CH]3O" A1D9C SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1c(nc[nH]1)C[C@@H](C(=O)O)NCCSC[C@@H]2[C@H]([C@H]([C@@H](O2)n3cnc4c3nc(nc4N)Cl)O)O" A1D9C SMILES "OpenEye OEToolkits" 2.0.7 "c1c(nc[nH]1)CC(C(=O)O)NCCSCC2C(C(C(O2)n3cnc4c3nc(nc4N)Cl)O)O" # _pdbx_chem_comp_identifier.comp_id A1D9C _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~{S})-2-[2-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-azanyl-2-chloranyl-purin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanyl]ethylamino]-3-(1~{H}-imidazol-4-yl)propanoic 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 A1D9C "Create component" 2024-06-18 PDBC A1D9C "Initial release" 2024-11-06 RCSB #