data_A1EEL # _chem_comp.id A1EEL _chem_comp.name "(6~{S},9~{a}~{S})-6-[(2~{S})-butan-2-yl]-~{N}-[(2~{S})-2-methylbutyl]-8-(naphthalen-1-ylmethyl)-4,7-bis(oxidanylidene)-3,6,9,9~{a}-tetrahydro-2~{H}-pyrazino[1,2-a]pyrimidine-1-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H38 N4 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-10-22 _chem_comp.pdbx_modified_date 2025-02-14 _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 478.626 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1EEL _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 9K2B _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 A1EEL C4 C1 C 0 1 N N N N N N 99.225 -10.860 -5.150 -5.074 0.826 -1.590 C4 A1EEL 1 A1EEL C5 C2 C 0 1 N N N N N N 99.234 -11.208 -7.646 -4.154 2.231 0.260 C5 A1EEL 2 A1EEL C7 C3 C 0 1 N N N N N N 99.014 -8.774 -7.945 -2.403 1.219 1.620 C7 A1EEL 3 A1EEL C10 C4 C 0 1 N N N N N N 100.876 -7.562 -9.181 -0.831 0.104 3.116 C10 A1EEL 4 A1EEL C15 C5 C 0 1 N N S N N N 98.890 -6.362 -8.497 -0.839 -0.356 0.624 C15 A1EEL 5 A1EEL C20 C6 C 0 1 Y N N N N N 100.070 -3.533 -4.604 4.215 -0.422 -1.924 C20 A1EEL 6 A1EEL C21 C7 C 0 1 Y N N N N N 99.762 -3.846 -3.291 5.540 -0.361 -1.496 C21 A1EEL 7 A1EEL C22 C8 C 0 1 Y N N N N N 98.468 -3.836 -2.859 5.943 0.577 -0.595 C22 A1EEL 8 A1EEL C24 C9 C 0 1 Y N N N N N 96.061 -3.473 -3.326 5.391 2.486 0.838 C24 A1EEL 9 A1EEL C26 C10 C 0 1 Y N N N N N 95.360 -2.818 -5.517 3.143 3.318 0.859 C26 A1EEL 10 A1EEL C28 C11 C 0 1 Y N N N N N 97.728 -3.183 -5.098 3.667 1.444 -0.532 C28 A1EEL 11 A1EEL C1 C12 C 0 1 N N N N N N 100.032 -13.708 -4.994 -6.120 3.313 -2.866 C1 A1EEL 12 A1EEL C2 C13 C 0 1 N N N N N N 100.500 -12.884 -6.173 -5.754 3.222 -1.384 C2 A1EEL 13 A1EEL C3 C14 C 0 1 N N S N N N 100.007 -11.397 -6.351 -4.603 2.229 -1.203 C3 A1EEL 14 A1EEL N6 N1 N 0 1 N N N N N N 99.627 -9.940 -8.232 -2.977 1.371 0.410 N6 A1EEL 15 A1EEL O8 O1 O 0 1 N N N N N N 97.984 -8.712 -7.285 -2.802 1.868 2.568 O8 A1EEL 16 A1EEL N9 N2 N 0 1 N N N N N N 99.585 -7.648 -8.489 -1.388 0.348 1.780 N9 A1EEL 17 A1EEL C11 C15 C 0 1 N N N N N N 100.656 -7.339 -10.665 -0.935 -1.400 3.399 C11 A1EEL 18 A1EEL C12 C16 C 0 1 N N N N N N 99.626 -6.263 -10.909 -0.347 -2.157 2.241 C12 A1EEL 19 A1EEL O13 O2 O 0 1 N N N N N N 99.504 -5.800 -12.032 0.143 -3.246 2.451 O13 A1EEL 20 A1EEL N14 N3 N 0 1 N N N N N N 98.880 -5.832 -9.868 -0.341 -1.683 0.991 N14 A1EEL 21 A1EEL C16 C17 C 0 1 N N N N N N 99.495 -5.326 -7.567 0.321 0.451 0.036 C16 A1EEL 22 A1EEL N17 N4 N 0 1 N N N N N N 99.032 -3.975 -7.900 1.054 -0.341 -0.942 N17 A1EEL 23 A1EEL C18 C18 C 0 1 N N N N N N 99.469 -2.935 -6.958 1.860 0.375 -1.934 C18 A1EEL 24 A1EEL C19 C19 C 0 1 Y N N N N N 99.094 -3.208 -5.517 3.287 0.458 -1.458 C19 A1EEL 25 A1EEL C23 C20 C 0 1 Y N N N N N 97.415 -3.507 -3.745 5.012 1.499 -0.088 C23 A1EEL 26 A1EEL C25 C21 C 0 1 Y N N N N N 95.064 -3.134 -4.202 4.465 3.372 1.295 C25 A1EEL 27 A1EEL C27 C22 C 0 1 Y N N N N N 96.654 -2.838 -5.964 2.739 2.376 -0.037 C27 A1EEL 28 A1EEL C29 C23 C 0 1 N N N N N N 98.297 -3.620 -8.998 1.043 -1.673 -0.997 C29 A1EEL 29 A1EEL O30 O3 O 0 1 N N N N N N 97.920 -2.474 -9.198 1.755 -2.225 -1.809 O30 A1EEL 30 A1EEL C31 C24 C 0 1 N N S N N N 97.969 -4.680 -10.034 0.189 -2.525 -0.098 C31 A1EEL 31 A1EEL C32 C25 C 0 1 N N S N N N 96.462 -5.028 -10.105 -0.972 -3.113 -0.902 C32 A1EEL 32 A1EEL C33 C26 C 0 1 N N N N N N 96.230 -6.394 -10.754 -0.426 -4.090 -1.946 C33 A1EEL 33 A1EEL C34 C27 C 0 1 N N N N N N 95.767 -4.916 -8.720 -1.922 -3.854 0.042 C34 A1EEL 34 A1EEL C35 C28 C 0 1 N N N N N N 94.490 -5.729 -8.585 -3.146 -4.335 -0.741 C35 A1EEL 35 A1EEL H1 H1 H 0 1 N N N N N N 99.812 -11.012 -4.232 -5.910 0.535 -0.953 H1 A1EEL 36 A1EEL H2 H2 H 0 1 N N N N N N 99.033 -9.786 -5.288 -5.394 0.825 -2.632 H2 A1EEL 37 A1EEL H3 H3 H 0 1 N N N N N N 98.268 -11.396 -5.067 -4.255 0.119 -1.461 H3 A1EEL 38 A1EEL H4 H4 H 0 1 N N N N N N 98.154 -11.202 -7.437 -3.902 3.247 0.562 H4 A1EEL 39 A1EEL H5 H5 H 0 1 N N N N N N 99.468 -12.027 -8.342 -4.961 1.854 0.888 H5 A1EEL 40 A1EEL H6 H6 H 0 1 N N N N N N 101.432 -8.499 -9.032 0.214 0.414 3.143 H6 A1EEL 41 A1EEL H7 H7 H 0 1 N N N N N N 101.455 -6.723 -8.769 -1.400 0.661 3.860 H7 A1EEL 42 A1EEL H8 H8 H 0 1 N N N N N N 97.849 -6.527 -8.182 -1.617 -0.470 -0.131 H8 A1EEL 43 A1EEL H9 H9 H 0 1 N N N N N N 101.103 -3.544 -4.919 3.922 -1.176 -2.640 H9 A1EEL 44 A1EEL H10 H10 H 0 1 N N N N N N 100.554 -4.101 -2.602 6.258 -1.068 -1.884 H10 A1EEL 45 A1EEL H11 H11 H 0 1 N N N N N N 98.245 -4.081 -1.831 6.973 0.613 -0.272 H11 A1EEL 46 A1EEL H12 H12 H 0 1 N N N N N N 95.813 -3.717 -2.304 6.413 2.540 1.185 H12 A1EEL 47 A1EEL H13 H13 H 0 1 N N N N N N 94.563 -2.553 -6.196 2.428 4.033 1.238 H13 A1EEL 48 A1EEL H14 H14 H 0 1 N N N N N N 100.482 -14.711 -5.045 -6.940 4.020 -2.995 H14 A1EEL 49 A1EEL H15 H15 H 0 1 N N N N N N 100.338 -13.216 -4.059 -5.254 3.653 -3.434 H15 A1EEL 50 A1EEL H16 H16 H 0 1 N N N N N N 98.936 -13.796 -5.021 -6.427 2.331 -3.226 H16 A1EEL 51 A1EEL H17 H17 H 0 1 N N N N N N 100.196 -13.428 -7.079 -5.446 4.204 -1.024 H17 A1EEL 52 A1EEL H18 H18 H 0 1 N N N N N N 101.598 -12.848 -6.118 -6.620 2.882 -0.816 H18 A1EEL 53 A1EEL H19 H19 H 0 1 N N N N N N 100.916 -10.783 -6.433 -3.768 2.521 -1.839 H19 A1EEL 54 A1EEL H20 H20 H 0 1 N N N N N N 100.389 -9.931 -8.880 -2.610 0.912 -0.362 H20 A1EEL 55 A1EEL H21 H21 H 0 1 N N N N N N 100.309 -8.278 -11.121 -0.383 -1.638 4.309 H21 A1EEL 56 A1EEL H22 H22 H 0 1 N N N N N N 101.607 -7.036 -11.127 -1.982 -1.676 3.525 H22 A1EEL 57 A1EEL H23 H23 H 0 1 N N N N N N 99.203 -5.560 -6.532 -0.072 1.346 -0.448 H23 A1EEL 58 A1EEL H24 H24 H 0 1 N N N N N N 100.591 -5.361 -7.656 0.997 0.745 0.839 H24 A1EEL 59 A1EEL H25 H25 H 0 1 N N N N N N 100.564 -2.851 -7.020 1.824 -0.158 -2.885 H25 A1EEL 60 A1EEL H26 H26 H 0 1 N N N N N N 99.011 -1.982 -7.259 1.462 1.382 -2.067 H26 A1EEL 61 A1EEL H27 H27 H 0 1 N N N N N N 94.038 -3.113 -3.864 4.760 4.129 2.007 H27 A1EEL 62 A1EEL H28 H28 H 0 1 N N N N N N 96.863 -2.587 -6.993 1.711 2.346 -0.366 H28 A1EEL 63 A1EEL H29 H29 H 0 1 N N N N N N 98.213 -4.232 -11.009 0.791 -3.330 0.322 H29 A1EEL 64 A1EEL H30 H30 H 0 1 N N N N N N 95.992 -4.277 -10.757 -1.511 -2.310 -1.403 H30 A1EEL 65 A1EEL H31 H31 H 0 1 N N N N N N 95.151 -6.606 -10.787 0.041 -4.936 -1.442 H31 A1EEL 66 A1EEL H32 H32 H 0 1 N N N N N N 96.634 -6.387 -11.777 -1.244 -4.447 -2.572 H32 A1EEL 67 A1EEL H33 H33 H 0 1 N N N N N N 96.739 -7.171 -10.165 0.312 -3.583 -2.566 H33 A1EEL 68 A1EEL H34 H34 H 0 1 N N N N N N 96.475 -5.260 -7.952 -1.408 -4.711 0.476 H34 A1EEL 69 A1EEL H35 H35 H 0 1 N N N N N N 95.521 -3.858 -8.544 -2.242 -3.180 0.837 H35 A1EEL 70 A1EEL H36 H36 H 0 1 N N N N N N 94.070 -5.589 -7.578 -3.660 -3.478 -1.175 H36 A1EEL 71 A1EEL H37 H37 H 0 1 N N N N N N 93.760 -5.393 -9.336 -2.826 -5.008 -1.537 H37 A1EEL 72 A1EEL H38 H38 H 0 1 N N N N N N 94.715 -6.794 -8.744 -3.823 -4.862 -0.069 H38 A1EEL 73 # 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 A1EEL O13 C12 DOUB N N 1 A1EEL C12 C11 SING N N 2 A1EEL C12 N14 SING N N 3 A1EEL C33 C32 SING N N 4 A1EEL C11 C10 SING N N 5 A1EEL C32 C31 SING N N 6 A1EEL C32 C34 SING N N 7 A1EEL C31 N14 SING N N 8 A1EEL C31 C29 SING N N 9 A1EEL N14 C15 SING N N 10 A1EEL O30 C29 DOUB N N 11 A1EEL C10 N9 SING N N 12 A1EEL C29 N17 SING N N 13 A1EEL C34 C35 SING N N 14 A1EEL C15 N9 SING N N 15 A1EEL C15 C16 SING N N 16 A1EEL N9 C7 SING N N 17 A1EEL N6 C7 SING N N 18 A1EEL N6 C5 SING N N 19 A1EEL C7 O8 DOUB N N 20 A1EEL N17 C16 SING N N 21 A1EEL N17 C18 SING N N 22 A1EEL C5 C3 SING N N 23 A1EEL C18 C19 SING N N 24 A1EEL C3 C2 SING N N 25 A1EEL C3 C4 SING N N 26 A1EEL C2 C1 SING N N 27 A1EEL C27 C26 DOUB Y N 28 A1EEL C27 C28 SING Y N 29 A1EEL C26 C25 SING Y N 30 A1EEL C19 C28 DOUB Y N 31 A1EEL C19 C20 SING Y N 32 A1EEL C28 C23 SING Y N 33 A1EEL C20 C21 DOUB Y N 34 A1EEL C25 C24 DOUB Y N 35 A1EEL C23 C24 SING Y N 36 A1EEL C23 C22 DOUB Y N 37 A1EEL C21 C22 SING Y N 38 A1EEL C4 H1 SING N N 39 A1EEL C4 H2 SING N N 40 A1EEL C4 H3 SING N N 41 A1EEL C5 H4 SING N N 42 A1EEL C5 H5 SING N N 43 A1EEL C10 H6 SING N N 44 A1EEL C10 H7 SING N N 45 A1EEL C15 H8 SING N N 46 A1EEL C20 H9 SING N N 47 A1EEL C21 H10 SING N N 48 A1EEL C22 H11 SING N N 49 A1EEL C24 H12 SING N N 50 A1EEL C26 H13 SING N N 51 A1EEL C1 H14 SING N N 52 A1EEL C1 H15 SING N N 53 A1EEL C1 H16 SING N N 54 A1EEL C2 H17 SING N N 55 A1EEL C2 H18 SING N N 56 A1EEL C3 H19 SING N N 57 A1EEL N6 H20 SING N N 58 A1EEL C11 H21 SING N N 59 A1EEL C11 H22 SING N N 60 A1EEL C16 H23 SING N N 61 A1EEL C16 H24 SING N N 62 A1EEL C18 H25 SING N N 63 A1EEL C18 H26 SING N N 64 A1EEL C25 H27 SING N N 65 A1EEL C27 H28 SING N N 66 A1EEL C31 H29 SING N N 67 A1EEL C32 H30 SING N N 68 A1EEL C33 H31 SING N N 69 A1EEL C33 H32 SING N N 70 A1EEL C33 H33 SING N N 71 A1EEL C34 H34 SING N N 72 A1EEL C34 H35 SING N N 73 A1EEL C35 H36 SING N N 74 A1EEL C35 H37 SING N N 75 A1EEL C35 H38 SING N N 76 # 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 A1EEL InChI InChI 1.06 "InChI=1S/C28H38N4O3/c1-5-19(3)16-29-28(35)31-15-14-25(33)32-24(31)18-30(27(34)26(32)20(4)6-2)17-22-12-9-11-21-10-7-8-13-23(21)22/h7-13,19-20,24,26H,5-6,14-18H2,1-4H3,(H,29,35)/t19-,20-,24+,26-/m0/s1" A1EEL InChIKey InChI 1.06 DSUXNYPFVGTLTM-NLVWIRSPSA-N A1EEL SMILES_CANONICAL CACTVS 3.385 "CC[C@H](C)CNC(=O)N1CCC(=O)N2[C@@H]1CN(Cc3cccc4ccccc34)C(=O)[C@@H]2[C@@H](C)CC" A1EEL SMILES CACTVS 3.385 "CC[CH](C)CNC(=O)N1CCC(=O)N2[CH]1CN(Cc3cccc4ccccc34)C(=O)[CH]2[CH](C)CC" A1EEL SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC[C@H](C)CNC(=O)N1CCC(=O)N2[C@@H]1CN(C(=O)[C@@H]2[C@@H](C)CC)Cc3cccc4c3cccc4" A1EEL SMILES "OpenEye OEToolkits" 2.0.7 "CCC(C)CNC(=O)N1CCC(=O)N2C1CN(C(=O)C2C(C)CC)Cc3cccc4c3cccc4" # _pdbx_chem_comp_identifier.comp_id A1EEL _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 "(6~{S},9~{a}~{S})-6-[(2~{S})-butan-2-yl]-~{N}-[(2~{S})-2-methylbutyl]-8-(naphthalen-1-ylmethyl)-4,7-bis(oxidanylidene)-3,6,9,9~{a}-tetrahydro-2~{H}-pyrazino[1,2-a]pyrimidine-1-carboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1EEL "Create component" 2024-10-22 PDBC A1EEL "Initial release" 2025-02-19 RCSB #