data_A1H4B # _chem_comp.id A1H4B _chem_comp.name "3-[[(2S,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanylmethyl]-5-pyridin-3-yl-benzoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H22 N6 O5 S" _chem_comp.mon_nstd_parent_comp_id ADE _chem_comp.pdbx_synonyms "3-(((((2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl)thio)methyl)-5-(pyridin-3-yl)benzoic acid" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-02-13 _chem_comp.pdbx_modified_date 2024-02-16 _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 494.523 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1H4B _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 8RZE _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_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 A1H4B C10 C1 C 0 1 N N N N N N 61.704 -65.682 -34.833 4.543 -3.713 0.527 C10 A1H4B 1 A1H4B C13 C2 C 0 1 Y N N N N N 59.791 -67.365 -34.960 5.498 -1.493 -0.070 C13 A1H4B 2 A1H4B C14 C3 C 0 1 Y N N N N N 58.699 -68.050 -34.403 5.430 -0.105 -0.067 C14 A1H4B 3 A1H4B C15 C4 C 0 1 Y N N N N N 57.927 -69.045 -35.206 6.506 0.694 -0.705 C15 A1H4B 4 A1H4B C16 C5 C 0 1 Y N N N N N 56.564 -69.290 -34.942 7.593 0.061 -1.313 C16 A1H4B 5 A1H4B C17 C6 C 0 1 Y N N N N N 55.845 -70.217 -35.704 8.570 0.850 -1.895 C17 A1H4B 6 A1H4B C18 C7 C 0 1 Y N N N N N 56.519 -70.879 -36.734 8.440 2.227 -1.856 C18 A1H4B 7 A1H4B "C3'" C8 C 0 1 N N S N N N 55.705 -67.243 -28.950 -2.693 2.692 1.368 "C3'" A1H4B 8 A1H4B C20 C9 C 0 1 Y N N N N N 58.512 -69.757 -36.268 6.445 2.085 -0.712 C20 A1H4B 9 A1H4B C21 C10 C 0 1 Y N N N N N 58.344 -67.766 -33.076 4.348 0.537 0.537 C21 A1H4B 10 A1H4B "C1'" C11 C 0 1 N N R N N N 53.805 -65.828 -28.820 -3.632 1.021 -0.134 "C1'" A1H4B 11 A1H4B C4 C12 C 0 1 Y N N N N N 51.445 -64.835 -28.960 -5.725 -0.274 -0.726 C4 A1H4B 12 A1H4B C2 C13 C 0 1 Y N N N N N 49.691 -64.787 -27.572 -7.532 0.016 -2.116 C2 A1H4B 13 A1H4B C6 C14 C 0 1 Y N N N N N 49.407 -63.749 -29.630 -7.472 -1.929 -0.876 C6 A1H4B 14 A1H4B "C4'" C15 C 0 1 N N S N N N 56.057 -65.863 -28.349 -1.631 1.865 0.610 "C4'" A1H4B 15 A1H4B C5 C16 C 0 1 Y N N N N N 50.745 -64.127 -29.929 -6.252 -1.511 -0.317 C5 A1H4B 16 A1H4B C8 C17 C 0 1 Y N N N N N 52.676 -64.505 -30.725 -4.386 -1.219 0.749 C8 A1H4B 17 A1H4B "C2'" C18 C 0 1 N N R N N N 54.299 -67.085 -29.547 -4.040 2.125 0.867 "C2'" A1H4B 18 A1H4B "C5'" C19 C 0 1 N N N N N N 57.235 -65.127 -29.000 -0.429 1.584 1.515 "C5'" A1H4B 19 A1H4B C12 C20 C 0 1 N N N N N N 58.661 -66.528 -30.890 2.180 0.498 1.782 C12 A1H4B 20 A1H4B C7 C21 C 0 1 Y N N N N N 59.059 -66.827 -32.326 3.345 -0.203 1.132 C7 A1H4B 21 A1H4B C19 C22 C 0 1 Y N N N N N 60.144 -66.159 -32.896 3.405 -1.582 1.133 C19 A1H4B 22 A1H4B C9 C23 C 0 1 Y N N N N N 60.530 -66.411 -34.224 4.483 -2.237 0.531 C9 A1H4B 23 A1H4B N19 N1 N 0 1 Y N N N N N 57.831 -70.663 -37.024 7.402 2.795 -1.274 N19 A1H4B 24 A1H4B N9 N2 N 0 1 Y N N N N N 52.688 -65.066 -29.500 -4.547 -0.119 -0.040 N9 A1H4B 25 A1H4B N3 N3 N 0 1 Y N N N N N 50.966 -65.198 -27.739 -6.393 0.449 -1.619 N3 A1H4B 26 A1H4B N1 N4 N 0 1 Y N N N N N 48.894 -64.101 -28.414 -8.067 -1.138 -1.763 N1 A1H4B 27 A1H4B N6 N5 N 0 1 N N N N N N 48.579 -63.036 -30.505 -8.039 -3.138 -0.512 N6 A1H4B 28 A1H4B N7 N6 N 0 1 Y N N N N N 51.524 -63.931 -31.013 -5.387 -2.035 0.584 N7 A1H4B 29 A1H4B "O3'" O1 O 0 1 N N N N N N 55.806 -68.263 -27.968 -2.578 4.077 1.036 "O3'" A1H4B 30 A1H4B O11 O2 O 0 1 N N N N N N 62.304 -64.835 -34.122 5.583 -4.343 -0.054 O11 A1H4B 31 A1H4B O12 O3 O 0 1 N N N N N N 62.022 -65.945 -36.021 3.658 -4.359 1.051 O12 A1H4B 32 A1H4B "O4'" O4 O 0 1 N N N N N N 54.932 -65.038 -28.646 -2.301 0.632 0.267 "O4'" A1H4B 33 A1H4B "O2'" O5 O 0 1 N N N N N N 53.381 -68.153 -29.341 -4.798 3.142 0.210 "O2'" A1H4B 34 A1H4B S1 S1 S 0 1 N N N N N N 57.328 -65.283 -30.804 0.862 0.741 0.560 S1 A1H4B 35 A1H4B H46 H1 H 0 1 N N N N N N 60.075 -67.573 -35.981 6.331 -1.994 -0.540 H46 A1H4B 36 A1H4B H47 H2 H 0 1 N N N N N N 56.070 -68.757 -34.143 7.670 -1.016 -1.329 H47 A1H4B 37 A1H4B H48 H3 H 0 1 N N N N N N 54.803 -70.415 -35.503 9.425 0.396 -2.374 H48 A1H4B 38 A1H4B H49 H4 H 0 1 N N N N N N 55.972 -71.596 -37.328 9.201 2.846 -2.309 H49 A1H4B 39 A1H4B "H3'" H5 H 0 1 N N N N N N 56.407 -67.447 -29.772 -2.594 2.547 2.444 "H3'" A1H4B 40 A1H4B H50 H6 H 0 1 N N N N N N 59.552 -69.577 -36.496 5.608 2.587 -0.250 H50 A1H4B 41 A1H4B H51 H7 H 0 1 N N N N N N 57.507 -68.280 -32.627 4.296 1.616 0.540 H51 A1H4B 42 A1H4B "H1'" H8 H 0 1 N N N N N N 53.434 -66.147 -27.835 -3.622 1.416 -1.150 "H1'" A1H4B 43 A1H4B H2 H9 H 0 1 N N N N N N 49.244 -65.046 -26.624 -8.049 0.628 -2.841 H2 A1H4B 44 A1H4B "H4'" H10 H 0 1 N N N N N N 56.220 -65.955 -27.265 -1.313 2.389 -0.290 "H4'" A1H4B 45 A1H4B H8 H11 H 0 1 N N N N N N 53.520 -64.523 -31.399 -3.552 -1.388 1.414 H8 A1H4B 46 A1H4B "H2'" H12 H 0 1 N N N N N N 54.392 -66.862 -30.620 -4.606 1.699 1.695 "H2'" A1H4B 47 A1H4B "H5'2" H13 H 0 0 N N N N N N 57.149 -64.058 -28.753 -0.039 2.525 1.903 "H5'2" A1H4B 48 A1H4B "H5'1" H14 H 0 0 N N N N N N 58.166 -65.528 -28.574 -0.740 0.950 2.345 "H5'1" A1H4B 49 A1H4B H44 H15 H 0 1 N N N N N N 59.540 -66.148 -30.348 1.805 -0.109 2.605 H44 A1H4B 50 A1H4B H43 H16 H 0 1 N N N N N N 58.312 -67.457 -30.416 2.506 1.466 2.163 H43 A1H4B 51 A1H4B H45 H17 H 0 1 N N N N N N 60.694 -65.439 -32.309 2.618 -2.156 1.599 H45 A1H4B 52 A1H4B HN61 H18 H 0 0 N N N N N N 47.688 -62.888 -30.075 -7.595 -3.707 0.135 HN61 A1H4B 53 A1H4B HN62 H19 H 0 0 N N N N N N 48.998 -62.153 -30.715 -8.882 -3.416 -0.904 HN62 A1H4B 54 A1H4B "HO3'" H20 H 0 0 N N N N N N 56.698 -68.304 -27.644 -3.259 4.636 1.437 "HO3'" A1H4B 55 A1H4B H1 H21 H 0 1 N N N N N N 63.011 -64.445 -34.622 5.581 -5.309 -0.028 H1 A1H4B 56 A1H4B "HO2'" H22 H 0 0 N N N N N N 52.551 -67.942 -29.753 -5.029 3.889 0.778 "HO2'" A1H4B 57 # 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 A1H4B "O3'" "C3'" SING N N 1 A1H4B "C3'" "C2'" SING N N 2 A1H4B "C3'" "C4'" SING N N 3 A1H4B "C4'" "C5'" SING N N 4 A1H4B "O4'" "C4'" SING N N 5 A1H4B "C5'" S1 SING N N 6 A1H4B S1 C12 SING N N 7 A1H4B C12 C7 SING N N 8 A1H4B C7 C21 DOUB Y N 9 A1H4B C7 C19 SING Y N 10 A1H4B C19 C9 DOUB Y N 11 A1H4B C9 C10 SING N N 12 A1H4B C13 C9 SING Y N 13 A1H4B O11 C10 SING N N 14 A1H4B C10 O12 DOUB N N 15 A1H4B C14 C13 DOUB Y N 16 A1H4B C15 C14 SING N N 17 A1H4B C21 C14 SING Y N 18 A1H4B C20 C15 DOUB Y N 19 A1H4B C15 C16 SING Y N 20 A1H4B C16 C17 DOUB Y N 21 A1H4B C17 C18 SING Y N 22 A1H4B C18 N19 DOUB Y N 23 A1H4B N19 C20 SING Y N 24 A1H4B "C1'" "O4'" SING N N 25 A1H4B N9 "C1'" SING N N 26 A1H4B "C2'" "C1'" SING N N 27 A1H4B C8 N9 SING Y N 28 A1H4B N9 C4 SING Y N 29 A1H4B C4 N3 SING Y N 30 A1H4B C4 C5 DOUB Y N 31 A1H4B N3 C2 DOUB Y N 32 A1H4B C2 N1 SING Y N 33 A1H4B N1 C6 DOUB Y N 34 A1H4B C6 C5 SING Y N 35 A1H4B N6 C6 SING N N 36 A1H4B C5 N7 SING Y N 37 A1H4B N7 C8 DOUB Y N 38 A1H4B "O2'" "C2'" SING N N 39 A1H4B C13 H46 SING N N 40 A1H4B C16 H47 SING N N 41 A1H4B C17 H48 SING N N 42 A1H4B C18 H49 SING N N 43 A1H4B "C3'" "H3'" SING N N 44 A1H4B C20 H50 SING N N 45 A1H4B C21 H51 SING N N 46 A1H4B "C1'" "H1'" SING N N 47 A1H4B C2 H2 SING N N 48 A1H4B "C4'" "H4'" SING N N 49 A1H4B C8 H8 SING N N 50 A1H4B "C2'" "H2'" SING N N 51 A1H4B "C5'" "H5'2" SING N N 52 A1H4B "C5'" "H5'1" SING N N 53 A1H4B C12 H44 SING N N 54 A1H4B C12 H43 SING N N 55 A1H4B C19 H45 SING N N 56 A1H4B N6 HN61 SING N N 57 A1H4B N6 HN62 SING N N 58 A1H4B "O3'" "HO3'" SING N N 59 A1H4B O11 H1 SING N N 60 A1H4B "O2'" "HO2'" SING N N 61 # 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 A1H4B InChI InChI 1.06 "InChI=1S/C23H22N6O5S/c24-20-17-21(27-10-26-20)29(11-28-17)22-19(31)18(30)16(34-22)9-35-8-12-4-14(6-15(5-12)23(32)33)13-2-1-3-25-7-13/h1-7,10-11,16,18-19,22,30-31H,8-9H2,(H,32,33)(H2,24,26,27)/t16-,18-,19-,22-/m1/s1" A1H4B InChIKey InChI 1.06 BFTUQZBFLLCUQV-WGQQHEPDSA-N A1H4B SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CSCc4cc(cc(c4)c5cccnc5)C(O)=O)[C@@H](O)[C@H]3O" A1H4B SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CSCc4cc(cc(c4)c5cccnc5)C(O)=O)[CH](O)[CH]3O" A1H4B SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(cnc1)c2cc(cc(c2)C(=O)O)CSC[C@@H]3[C@H]([C@H]([C@@H](O3)n4cnc5c4ncnc5N)O)O" A1H4B SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(cnc1)c2cc(cc(c2)C(=O)O)CSCC3C(C(C(O3)n4cnc5c4ncnc5N)O)O" # _pdbx_chem_comp_identifier.comp_id A1H4B _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~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methylsulfanylmethyl]-5-pyridin-3-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 A1H4B "Create component" 2024-02-13 PDBE A1H4B "Initial release" 2024-02-21 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1H4B _pdbx_chem_comp_synonyms.name "3-(((((2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl)methyl)thio)methyl)-5-(pyridin-3-yl)benzoic acid" _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? #