data_XDJ # _chem_comp.id XDJ _chem_comp.name "N-[(1S,2S)-2-aminocyclopentyl]-N-[(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)acetyl]glycine" _chem_comp.type peptide-like _chem_comp.pdbx_type HETAIN _chem_comp.formula "C14 H19 N7 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-12-11 _chem_comp.pdbx_modified_date 2023-11-03 _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 349.345 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XDJ _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 7KZL _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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 XDJ C C02 C 0 1 N N N Y N Y -33.963 2.968 -15.770 2.694 -2.169 -0.965 C02 XDJ 1 XDJ C03 C03 C 0 1 N N N Y N N -35.131 3.819 -16.132 2.777 -0.716 -1.360 C03 XDJ 2 XDJ C05 C05 C 0 1 N N S Y N N -34.894 6.371 -16.355 2.710 0.732 0.723 C05 XDJ 3 XDJ CA C06 C 0 1 N N S Y N N -35.724 6.659 -17.382 3.755 1.734 0.200 C06 XDJ 4 XDJ C08 C08 C 0 1 N N N N N N -34.820 7.562 -18.382 5.126 1.250 0.717 C08 XDJ 5 XDJ C09 C09 C 0 1 N N N N N N -33.536 7.090 -18.341 4.922 -0.265 0.973 C09 XDJ 6 XDJ C10 C10 C 0 1 N N N N N N -33.446 6.142 -17.070 3.481 -0.326 1.539 C10 XDJ 7 XDJ C11 C11 C 0 1 N N N N N N -35.686 5.233 -14.196 0.692 0.252 -0.555 C11 XDJ 8 XDJ C12 C12 C 0 1 N N N N N N -35.845 6.639 -13.630 -0.068 1.178 0.360 C12 XDJ 9 XDJ C14 C14 C 0 1 Y N N N N N -37.522 6.537 -11.771 -1.985 2.231 -0.900 C14 XDJ 10 XDJ C16 C16 C 0 1 Y N N N N N -35.438 6.658 -11.230 -2.473 0.410 0.242 C16 XDJ 11 XDJ C17 C17 C 0 1 Y N N N N N -36.192 6.630 -10.104 -3.615 0.888 -0.411 C17 XDJ 12 XDJ C18 C18 C 0 1 N N N N N N -35.490 6.692 -8.797 -4.831 0.184 -0.252 C18 XDJ 13 XDJ C20 C20 C 0 1 N N N N N N -33.394 6.757 -10.065 -3.690 -1.338 1.136 C20 XDJ 14 XDJ N04 N04 N 0 1 N N N Y N N -35.195 5.131 -15.543 2.021 0.094 -0.402 N04 XDJ 15 XDJ N N07 N 0 1 N N N Y Y N -36.937 7.443 -17.055 3.468 3.077 0.719 N07 XDJ 16 XDJ N13 N13 N 0 1 Y N N N N N -36.284 6.614 -12.244 -1.460 1.271 -0.084 N13 XDJ 17 XDJ N15 N15 N 0 1 Y N N N N N -37.479 6.545 -10.436 -3.253 2.005 -1.088 N15 XDJ 18 XDJ N19 N19 N 0 1 N N N N N N -34.113 6.756 -8.883 -4.835 -0.922 0.525 N19 XDJ 19 XDJ N21 N21 N 0 1 N N N N N N -32.040 6.797 -10.002 -3.724 -2.464 1.919 N21 XDJ 20 XDJ N22 N22 N 0 1 N N N N N N -34.027 6.732 -11.302 -2.552 -0.696 0.991 N22 XDJ 21 XDJ O O01 O 0 1 N N N Y N Y -33.875 1.951 -16.400 1.980 -2.506 -0.051 O01 XDJ 22 XDJ O23 O23 O 0 1 N N N N N N -36.020 6.688 -7.712 -5.850 0.565 -0.802 O23 XDJ 23 XDJ O24 O24 O 0 1 N N N N N N -35.949 4.260 -13.574 0.106 -0.350 -1.430 O24 XDJ 24 XDJ H031 H031 H 0 0 N N N Y N N -35.122 3.947 -17.225 3.820 -0.400 -1.360 H031 XDJ 25 XDJ H032 H032 H 0 0 N N N Y N N -36.041 3.277 -15.834 2.358 -0.586 -2.357 H032 XDJ 26 XDJ H051 H051 H 0 0 N N N Y N N -34.793 7.228 -15.672 1.989 1.244 1.360 H051 XDJ 27 XDJ HA H061 H 0 0 N N N Y N N -36.015 5.749 -17.927 3.749 1.745 -0.889 H061 XDJ 28 XDJ H081 H081 H 0 0 N N N N N N -34.841 8.613 -18.057 5.896 1.409 -0.037 H081 XDJ 29 XDJ H082 H082 H 0 0 N N N N N N -35.212 7.488 -19.407 5.386 1.761 1.644 H082 XDJ 30 XDJ H092 H092 H 0 0 N N N N N N -33.310 6.522 -19.256 4.996 -0.826 0.041 H092 XDJ 31 XDJ H091 H091 H 0 0 N N N N N N -32.827 7.925 -18.243 5.641 -0.633 1.705 H091 XDJ 32 XDJ H102 H102 H 0 0 N N N N N N -33.311 5.091 -17.367 3.476 -0.068 2.598 H102 XDJ 33 XDJ H101 H101 H 0 0 N N N N N N -32.623 6.444 -16.406 3.051 -1.315 1.384 H101 XDJ 34 XDJ H122 H122 H 0 0 N N N N N N -34.877 7.158 -13.688 -0.036 0.789 1.378 H122 XDJ 35 XDJ H121 H121 H 0 0 N N N N N N -36.589 7.183 -14.230 0.388 2.168 0.335 H121 XDJ 36 XDJ H141 H141 H 0 0 N N N N N N -38.419 6.477 -12.369 -1.432 3.057 -1.322 H141 XDJ 37 XDJ H H071 H 0 0 N N N Y Y N -37.520 6.914 -16.438 4.145 3.747 0.386 H071 XDJ 38 XDJ H2 H3 H 0 1 N Y N Y Y N -36.671 8.299 -16.611 2.530 3.364 0.482 H3 XDJ 39 XDJ H191 H191 H 0 0 N N N N N N -33.598 6.805 -8.028 -5.658 -1.418 0.654 H191 XDJ 40 XDJ H211 H211 H 0 0 N N N N N N -31.500 6.808 -10.844 -4.555 -2.952 2.032 H211 XDJ 41 XDJ H212 H212 H 0 0 N N N N N N -31.581 6.815 -9.114 -2.917 -2.773 2.360 H212 XDJ 42 XDJ OXT O1 O 0 1 N Y N Y N Y -32.966 3.539 -14.927 3.408 -3.088 -1.633 O1 XDJ 43 XDJ HXT H1 H 0 1 N Y N Y N Y -32.193 2.986 -14.930 3.322 -4.006 -1.344 H1 XDJ 44 # 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 XDJ C08 C09 SING N N 1 XDJ C08 CA SING N N 2 XDJ C09 C10 SING N N 3 XDJ CA N SING N N 4 XDJ CA C05 SING N N 5 XDJ C10 C05 SING N N 6 XDJ O C DOUB N N 7 XDJ C05 N04 SING N N 8 XDJ C03 C SING N N 9 XDJ C03 N04 SING N N 10 XDJ N04 C11 SING N N 11 XDJ C11 C12 SING N N 12 XDJ C11 O24 DOUB N N 13 XDJ C12 N13 SING N N 14 XDJ N13 C14 SING Y N 15 XDJ N13 C16 SING Y N 16 XDJ C14 N15 DOUB Y N 17 XDJ N22 C16 SING N N 18 XDJ N22 C20 DOUB N N 19 XDJ C16 C17 DOUB Y N 20 XDJ N15 C17 SING Y N 21 XDJ C17 C18 SING N N 22 XDJ C20 N21 SING N N 23 XDJ C20 N19 SING N N 24 XDJ N19 C18 SING N N 25 XDJ C18 O23 DOUB N N 26 XDJ C03 H031 SING N N 27 XDJ C03 H032 SING N N 28 XDJ C05 H051 SING N N 29 XDJ CA HA SING N N 30 XDJ C08 H081 SING N N 31 XDJ C08 H082 SING N N 32 XDJ C09 H092 SING N N 33 XDJ C09 H091 SING N N 34 XDJ C10 H102 SING N N 35 XDJ C10 H101 SING N N 36 XDJ C12 H122 SING N N 37 XDJ C12 H121 SING N N 38 XDJ C14 H141 SING N N 39 XDJ N H SING N N 40 XDJ N H2 SING N N 41 XDJ N19 H191 SING N N 42 XDJ N21 H211 SING N N 43 XDJ N21 H212 SING N N 44 XDJ C OXT SING N N 45 XDJ OXT HXT 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 XDJ SMILES ACDLabs 12.01 "C(O)(CN(C1C(N)CCC1)C(Cn2cnc3c2N=C(N)NC3=O)=O)=O" XDJ InChI InChI 1.03 "InChI=1S/C14H19N7O4/c15-7-2-1-3-8(7)21(5-10(23)24)9(22)4-20-6-17-11-12(20)18-14(16)19-13(11)25/h6-8H,1-5,15H2,(H,23,24)(H3,16,18,19,25)/t7-,8-/m0/s1" XDJ InChIKey InChI 1.03 WUJTVJFBNNNLRX-YUMQZZPRSA-N XDJ SMILES_CANONICAL CACTVS 3.385 "N[C@H]1CCC[C@@H]1N(CC(O)=O)C(=O)Cn2cnc3C(=O)NC(=Nc23)N" XDJ SMILES CACTVS 3.385 "N[CH]1CCC[CH]1N(CC(O)=O)C(=O)Cn2cnc3C(=O)NC(=Nc23)N" XDJ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc2c(n1CC(=O)N(CC(=O)O)[C@H]3CCC[C@@H]3N)N=C(NC2=O)N" XDJ SMILES "OpenEye OEToolkits" 2.0.7 "c1nc2c(n1CC(=O)N(CC(=O)O)C3CCCC3N)N=C(NC2=O)N" # 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 XDJ "SYSTEMATIC NAME" ACDLabs 12.01 "N-[(1S,2S)-2-aminocyclopentyl]-N-[(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)acetyl]glycine" XDJ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-[[(1~{S},2~{S})-2-azanylcyclopentyl]-[2-(2-azanyl-6-oxidanylidene-1~{H}-purin-9-yl)ethanoyl]amino]ethanoic 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 XDJ "Create component" 2020-12-11 RCSB XDJ "Initial release" 2020-12-23 RCSB XDJ "Modify backbone" 2023-11-03 PDBE #