data_A1DYG # _chem_comp.id A1DYG _chem_comp.name "4-{(2R)-2-[(benzyloxy)methyl]pyrrolidin-1-yl}-7H-pyrrolo[2,3-d]pyrimidine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C18 H20 N4 O" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2026-08-25 _chem_comp.pdbx_modified_date 2026-10-30 _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 308.378 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1DYG _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 15LC _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? _chem_comp.pdbx_comp_type ? # 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 A1DYG C13 C1 C 0 1 Y N N N N N -46.502 -28.992 6.141 4.154 -0.917 -0.505 C13 A1DYG 1 A1DYG C18 C2 C 0 1 Y N N N N N -46.986 -34.485 -0.301 -4.761 -2.344 -0.186 C18 A1DYG 2 A1DYG C17 C3 C 0 1 Y N N N N N -46.083 -33.537 0.217 -3.761 -1.602 -0.786 C17 A1DYG 3 A1DYG C16 C4 C 0 1 Y N N N N N -46.748 -29.124 4.747 2.950 -0.720 0.196 C16 A1DYG 4 A1DYG C15 C5 C 0 1 Y N N N N N -48.168 -28.974 4.545 2.831 -1.841 1.126 C15 A1DYG 5 A1DYG C11 C6 C 0 1 Y N N N N N -45.592 -29.347 3.945 2.172 0.408 -0.106 C11 A1DYG 6 A1DYG C12 C7 C 0 1 Y N N N N N -44.304 -29.279 5.885 3.746 1.020 -1.678 C12 A1DYG 7 A1DYG C1 C8 C 0 1 Y N N N N N -46.521 -35.512 -1.145 -5.834 -1.706 0.408 C1 A1DYG 8 A1DYG C10 C9 C 0 1 N N N N N N -46.802 -28.980 1.837 1.202 0.786 2.017 C10 A1DYG 9 A1DYG C14 C10 C 0 1 Y N N N N N -48.733 -28.763 5.781 3.915 -2.613 0.944 C14 A1DYG 10 A1DYG C2 C11 C 0 1 Y N N N N N -45.153 -35.590 -1.468 -5.907 -0.326 0.401 C2 A1DYG 11 A1DYG C3 C12 C 0 1 Y N N N N N -44.251 -34.639 -0.953 -4.907 0.417 -0.199 C3 A1DYG 12 A1DYG C4 C13 C 0 1 Y N N N N N -44.711 -33.609 -0.108 -3.831 -0.221 -0.787 C4 A1DYG 13 A1DYG C5 C14 C 0 1 N N N N N N -43.730 -32.593 0.445 -2.740 0.588 -1.441 C5 A1DYG 14 A1DYG C6 C15 C 0 1 N N N N N N -43.565 -30.542 1.670 -0.642 1.659 -0.998 C6 A1DYG 15 A1DYG C7 C16 C 0 1 N N R N N N -44.417 -29.267 1.796 0.375 1.921 0.115 C7 A1DYG 16 A1DYG C8 C17 C 0 1 N N N N N N -44.821 -28.747 0.417 -0.332 2.532 1.339 C8 A1DYG 17 A1DYG C9 C18 C 0 1 N N N N N N -46.341 -28.611 0.432 -0.062 1.543 2.496 C9 A1DYG 18 A1DYG N1 N1 N 0 1 N N N N N N -45.648 -29.509 2.546 0.980 0.646 0.555 N1 A1DYG 19 A1DYG N2 N2 N 0 1 Y N N N N N -44.383 -29.417 4.558 2.609 1.243 -1.045 N2 A1DYG 20 A1DYG N3 N3 N 0 1 Y N N N N N -45.289 -29.066 6.759 4.505 -0.026 -1.431 N3 A1DYG 21 A1DYG N4 N4 N 0 1 Y N N N N N -47.729 -28.778 6.734 4.714 -2.071 -0.029 N4 A1DYG 22 A1DYG O1 O1 O 0 1 N N N N N N -44.403 -31.520 1.075 -1.729 0.890 -0.478 O1 A1DYG 23 A1DYG H20 H1 H 0 1 N N N N N N -48.035 -34.425 -0.051 -4.706 -3.423 -0.184 H20 A1DYG 24 A1DYG H19 H2 H 0 1 N N N N N N -46.441 -32.751 0.866 -2.924 -2.101 -1.253 H19 A1DYG 25 A1DYG H18 H3 H 0 1 N N N N N N -48.690 -29.019 3.600 2.026 -2.016 1.825 H18 A1DYG 26 A1DYG H15 H4 H 0 1 N N N N N N -43.312 -29.349 6.305 4.062 1.721 -2.437 H15 A1DYG 27 A1DYG H1 H5 H 0 1 N N N N N N -47.213 -36.239 -1.544 -6.615 -2.286 0.877 H1 A1DYG 28 A1DYG H13 H6 H 0 1 N N N N N N -47.185 -28.088 2.354 2.100 1.372 2.215 H13 A1DYG 29 A1DYG H14 H7 H 0 1 N N N N N N -47.594 -29.742 1.785 1.270 -0.193 2.491 H14 A1DYG 30 A1DYG H17 H8 H 0 1 N N N N N N -49.784 -28.611 5.976 4.126 -3.525 1.484 H17 A1DYG 31 A1DYG H2 H9 H 0 1 N N N N N N -44.795 -36.380 -2.111 -6.746 0.173 0.864 H2 A1DYG 32 A1DYG H3 H10 H 0 1 N N N N N N -43.203 -34.699 -1.206 -4.964 1.495 -0.203 H3 A1DYG 33 A1DYG H4 H11 H 0 1 N N N N N N -43.078 -33.088 1.180 -2.304 0.015 -2.259 H4 A1DYG 34 A1DYG H5 H12 H 0 1 N N N N N N -43.119 -32.198 -0.380 -3.160 1.515 -1.830 H5 A1DYG 35 A1DYG H7 H13 H 0 1 N N N N N N -43.232 -30.878 2.663 -1.018 2.609 -1.378 H7 A1DYG 36 A1DYG H6 H14 H 0 1 N N N N N N -42.688 -30.353 1.034 -0.162 1.108 -1.807 H6 A1DYG 37 A1DYG H8 H15 H 0 1 N N N N N N -43.820 -28.495 2.304 1.152 2.596 -0.245 H8 A1DYG 38 A1DYG H10 H16 H 0 1 N N N N N N -44.511 -29.458 -0.363 0.090 3.510 1.570 H10 A1DYG 39 A1DYG H9 H17 H 0 1 N N N N N N -44.354 -27.769 0.228 -1.403 2.615 1.155 H9 A1DYG 40 A1DYG H11 H18 H 0 1 N N N N N N -46.631 -27.576 0.198 -0.899 0.856 2.620 H11 A1DYG 41 A1DYG H12 H19 H 0 1 N N N N N N -46.790 -29.293 -0.305 0.139 2.080 3.423 H12 A1DYG 42 A1DYG H16 H20 H 0 1 N N N N N N -47.873 -28.651 7.715 5.551 -2.451 -0.338 H16 A1DYG 43 # 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 A1DYG C2 C1 DOUB Y N 1 A1DYG C2 C3 SING Y N 2 A1DYG C1 C18 SING Y N 3 A1DYG C3 C4 DOUB Y N 4 A1DYG C18 C17 DOUB Y N 5 A1DYG C4 C17 SING Y N 6 A1DYG C4 C5 SING N N 7 A1DYG C8 C9 SING N N 8 A1DYG C8 C7 SING N N 9 A1DYG C9 C10 SING N N 10 A1DYG C5 O1 SING N N 11 A1DYG O1 C6 SING N N 12 A1DYG C6 C7 SING N N 13 A1DYG C7 N1 SING N N 14 A1DYG C10 N1 SING N N 15 A1DYG N1 C11 SING N N 16 A1DYG C11 N2 DOUB Y N 17 A1DYG C11 C16 SING Y N 18 A1DYG C15 C16 SING Y N 19 A1DYG C15 C14 DOUB Y N 20 A1DYG N2 C12 SING Y N 21 A1DYG C16 C13 DOUB Y N 22 A1DYG C14 N4 SING Y N 23 A1DYG C12 N3 DOUB Y N 24 A1DYG C13 N4 SING Y N 25 A1DYG C13 N3 SING Y N 26 A1DYG C18 H20 SING N N 27 A1DYG C17 H19 SING N N 28 A1DYG C15 H18 SING N N 29 A1DYG C12 H15 SING N N 30 A1DYG C1 H1 SING N N 31 A1DYG C10 H13 SING N N 32 A1DYG C10 H14 SING N N 33 A1DYG C14 H17 SING N N 34 A1DYG C2 H2 SING N N 35 A1DYG C3 H3 SING N N 36 A1DYG C5 H4 SING N N 37 A1DYG C5 H5 SING N N 38 A1DYG C6 H7 SING N N 39 A1DYG C6 H6 SING N N 40 A1DYG C7 H8 SING N N 41 A1DYG C8 H10 SING N N 42 A1DYG C8 H9 SING N N 43 A1DYG C9 H11 SING N N 44 A1DYG C9 H12 SING N N 45 A1DYG N4 H16 SING N N 46 # 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 A1DYG SMILES ACDLabs 14.52 "n1cnc(c2cc[NH]c12)N1CCCC1COCc1ccccc1" A1DYG InChI InChI 1.06 "InChI=1S/C18H20N4O/c1-2-5-14(6-3-1)11-23-12-15-7-4-10-22(15)18-16-8-9-19-17(16)20-13-21-18/h1-3,5-6,8-9,13,15H,4,7,10-12H2,(H,19,20,21)/t15-/m1/s1" A1DYG InChIKey InChI 1.06 APOQSSWYZSFXKX-OAHLLOKOSA-N A1DYG SMILES_CANONICAL CACTVS 3.385 "C1C[C@H](COCc2ccccc2)N(C1)c3ncnc4[nH]ccc34" A1DYG SMILES CACTVS 3.385 "C1C[CH](COCc2ccccc2)N(C1)c3ncnc4[nH]ccc34" A1DYG SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "c1ccc(cc1)COC[C@H]2CCCN2c3c4cc[nH]c4ncn3" A1DYG SMILES "OpenEye OEToolkits" 3.1.0.0 "c1ccc(cc1)COCC2CCCN2c3c4cc[nH]c4ncn3" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier A1DYG "SYSTEMATIC NAME" ACDLabs 14.52 "4-{(2R)-2-[(benzyloxy)methyl]pyrrolidin-1-yl}-7H-pyrrolo[2,3-d]pyrimidine" A1DYG "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "4-[(2~{R})-2-(phenylmethoxymethyl)pyrrolidin-1-yl]-7~{H}-pyrrolo[2,3-d]pyrimidine" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1DYG "Create component" 2026-08-25 RCSB A1DYG "Initial release" 2026-11-04 RCSB #