data_40T # _chem_comp.id 40T _chem_comp.name "N-[(2S)-2-aminopropyl]-N-[(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)acetyl]glycine" _chem_comp.type PEPTIDE-LIKE _chem_comp.pdbx_type HETAIN _chem_comp.formula "C12 H18 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2010-04-26 _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 298.295 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 40T _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 2KVJ _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 40T C "C'" C 0 1 N N N Y N Y 33.527 32.268 41.018 -2.952 -2.130 0.390 "C'" 40T 1 40T N1 N1 N 0 1 N N N N N N 30.933 27.239 40.759 1.535 -0.454 0.386 N1 40T 2 40T C2 C2 C 0 1 N N N N N N 30.815 27.098 39.371 2.109 -1.166 -0.600 C2 40T 3 40T O2 O2 O 0 1 N N N N N N 31.678 27.426 38.569 1.459 -2.012 -1.185 O2 40T 4 40T N3 N3 N 0 1 N N N N N N 29.674 26.554 38.898 3.391 -0.955 -0.950 N3 40T 5 40T C4 C4 C 0 1 N N N N N N 28.604 26.200 39.647 4.125 -0.021 -0.312 C4 40T 6 40T O4 O4 O 0 1 N N N N N N 27.638 25.736 39.055 5.285 0.170 -0.628 O4 40T 7 40T C5 C5 C 0 1 N N N N N N 28.746 26.407 41.087 3.534 0.735 0.729 C5 40T 8 40T C6 C6 C 0 1 N N N N N N 29.898 26.907 41.596 2.243 0.507 1.055 C6 40T 9 40T C7 C7 C 0 1 N N N N N N 27.626 26.046 42.046 4.332 1.785 1.458 C7 40T 10 40T N "N1'" N 0 1 N N N Y Y N 33.843 28.439 44.435 -1.902 2.917 0.319 "N1'" 40T 11 40T O "O1'" O 0 1 N N N Y N Y 33.260 33.449 41.150 -2.688 -2.287 -0.779 "O1'" 40T 12 40T CA "C2'" C 0 1 N N S Y N N 34.881 29.115 43.718 -3.198 2.302 0.002 "C2'" 40T 13 40T C2M C2M C 0 1 N N N N N N 36.139 28.308 43.912 -4.004 3.247 -0.892 C2M 40T 14 40T "C3'" "C3'" C 0 1 N N N Y N N 34.583 29.231 42.223 -2.969 0.979 -0.730 "C3'" 40T 15 40T "N4'" "N4'" N 0 1 N N N Y N N 33.311 29.907 41.925 -2.097 0.120 0.075 "N4'" 40T 16 40T "C5'" "C5'" C 0 1 N N N Y N N 33.305 31.355 42.201 -2.679 -0.804 1.052 "C5'" 40T 17 40T "C7'" "C7'" C 0 1 N N N N N N 32.198 29.294 41.466 -0.760 0.179 -0.084 "C7'" 40T 18 40T "O7'" "O7'" O 0 1 N N N N N N 31.194 29.932 41.162 -0.279 0.943 -0.893 "O7'" 40T 19 40T "C8'" "C8'" C 0 1 N N N N N N 32.196 27.779 41.333 0.137 -0.705 0.744 "C8'" 40T 20 40T HN3 HN3 H 0 1 N N N N N N 29.614 26.400 37.912 3.789 -1.478 -1.664 HN3 40T 21 40T H6 H6 H 0 1 N N N N N N 30.002 27.044 42.662 1.774 1.077 1.844 H6 40T 22 40T H "HN1'" H 0 0 N N N Y Y N 33.733 27.515 44.069 -1.372 3.099 -0.520 "HN1'" 40T 23 40T HA "H22'" H 0 0 N N N Y N N 34.975 30.142 44.102 -3.748 2.117 0.924 "H22'" 40T 24 40T "H13'" "H13'" H 0 0 N N N Y N N 35.394 29.809 41.757 -3.926 0.480 -0.887 "H13'" 40T 25 40T "H23'" "H23'" H 0 0 N N N Y N N 34.536 28.215 41.804 -2.498 1.173 -1.694 "H23'" 40T 26 40T "H15'" "H15'" H 0 0 N N N Y N N 34.114 31.552 42.920 -3.612 -0.389 1.433 "H15'" 40T 27 40T "H25'" "H25'" H 0 0 N N N Y N N 32.319 31.602 42.621 -1.981 -0.947 1.877 "H25'" 40T 28 40T H7 H7 H 0 1 N N N N N N 26.726 26.626 41.793 3.853 2.757 1.334 H7 40T 29 40T H7A H7A H 0 1 N N N N N N 27.405 24.971 41.964 4.377 1.536 2.518 H7A 40T 30 40T H7B H7B H 0 1 N N N N N N 27.935 26.279 43.076 5.342 1.822 1.050 H7B 40T 31 40T "HXT'" "HXT'" H 0 0 N N N N N N 32.331 27.346 42.335 -0.105 -1.750 0.552 "HXT'" 40T 32 40T "H28'" "H28'" H 0 0 N N N N N N 33.025 27.491 40.670 -0.013 -0.486 1.801 "H28'" 40T 33 40T H2M H2M H 0 1 N N N N N N 36.377 28.252 44.985 -4.966 2.791 -1.128 H2M 40T 34 40T H2MA H2MA H 0 0 N N N N N N 35.988 27.293 43.517 -4.167 4.190 -0.370 H2MA 40T 35 40T H2MB H2MB H 0 0 N N N N N N 36.970 28.790 43.377 -3.454 3.432 -1.814 H2MB 40T 36 40T OXT OXT O 0 1 N Y N Y N Y 34.035 31.762 39.781 -3.494 -3.134 1.097 OXT 40T 37 40T H2 HNXT H 0 0 N Y N Y Y N 32.985 28.942 44.334 -2.024 3.760 0.860 HNXT 40T 38 40T HXT HXT H 0 1 N Y N Y N Y 34.110 32.472 39.155 -3.654 -3.964 0.628 HXT 40T 39 # 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 40T C O DOUB N N 1 40T C "C5'" SING N N 2 40T C OXT SING N N 3 40T N1 "C8'" SING N N 4 40T N1 C6 SING N N 5 40T C2 N1 SING N N 6 40T O2 C2 DOUB N N 7 40T N3 C2 SING N N 8 40T N3 C4 SING N N 9 40T C4 C5 SING N N 10 40T O4 C4 DOUB N N 11 40T C5 C6 DOUB N N 12 40T C5 C7 SING N N 13 40T C6 H6 SING N N 14 40T C7 H7B SING N N 15 40T N H2 SING N N 16 40T CA N SING N N 17 40T CA C2M SING N N 18 40T CA HA SING N N 19 40T C2M H2MB SING N N 20 40T "C3'" CA SING N N 21 40T "N4'" "C3'" SING N N 22 40T "N4'" "C5'" SING N N 23 40T "C5'" "H15'" SING N N 24 40T "C5'" "H25'" SING N N 25 40T "C7'" "N4'" SING N N 26 40T "O7'" "C7'" DOUB N N 27 40T "C8'" "C7'" SING N N 28 40T "C8'" "HXT'" SING N N 29 40T HN3 N3 SING N N 30 40T H N SING N N 31 40T "H13'" "C3'" SING N N 32 40T "H23'" "C3'" SING N N 33 40T H7 C7 SING N N 34 40T H7A C7 SING N N 35 40T "H28'" "C8'" SING N N 36 40T H2M C2M SING N N 37 40T H2MA C2M SING N N 38 40T OXT HXT SING N N 39 # 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 40T SMILES ACDLabs 12.01 "O=C(N(CC(=O)O)CC(N)C)CN1C=C(C(=O)NC1=O)C" 40T SMILES_CANONICAL CACTVS 3.370 "C[C@H](N)CN(CC(O)=O)C(=O)CN1C=C(C)C(=O)NC1=O" 40T SMILES CACTVS 3.370 "C[CH](N)CN(CC(O)=O)C(=O)CN1C=C(C)C(=O)NC1=O" 40T SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)NC1=O)CC(=O)N(C[C@H](C)N)CC(=O)O" 40T SMILES "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)NC1=O)CC(=O)N(CC(C)N)CC(=O)O" 40T InChI InChI 1.03 "InChI=1S/C12H18N4O5/c1-7-3-16(12(21)14-11(7)20)5-9(17)15(4-8(2)13)6-10(18)19/h3,8H,4-6,13H2,1-2H3,(H,18,19)(H,14,20,21)/t8-/m0/s1" 40T InChIKey InChI 1.03 LMRWZEVJIJNHDI-QMMMGPOBSA-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 40T "SYSTEMATIC NAME" ACDLabs 12.01 "N-[(2S)-2-aminopropyl]-N-[(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)acetyl]glycine" 40T "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "2-[[(2S)-2-azanylpropyl]-[2-(5-methyl-2,4-dioxo-pyrimidin-1-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 40T "Create component" 2010-04-26 RCSB 40T "Modify descriptor" 2011-06-04 RCSB 40T "Modify backbone" 2023-11-03 PDBE #