data_YED # _chem_comp.id YED _chem_comp.name "(3S,6S,9S,15aR)-9-[(2S)-butan-2-yl]-3-(6,6-dihydroxyoctyl)-6-[(1-methoxy-1H-indol-3-yl)methyl]octahydro-2H-pyrido[1,2-a][1,4,7,10]tetraazacyclododecine-1,4,7,10(3H,12H)-tetrone" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C34 H51 N5 O7" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-02-23 _chem_comp.pdbx_modified_date 2021-04-30 _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 641.798 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YED _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 7LTG _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.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 YED O6 O1 O 0 1 N N N 75.884 36.486 0.605 -3.353 -0.694 -1.563 O6 YED 1 YED C10 C1 C 0 1 N N N 75.473 35.434 1.059 -3.237 -0.459 -0.379 C10 YED 2 YED N1 N1 N 0 1 N N N 76.283 34.387 1.458 -3.431 -1.445 0.522 N1 YED 3 YED C11 C2 C 0 1 N N S 77.765 34.487 1.684 -3.023 -2.812 0.144 C11 YED 4 YED C12 C3 C 0 1 N N S 78.297 33.670 2.913 -3.563 -3.153 -1.247 C12 YED 5 YED C14 C4 C 0 1 N N N 77.616 34.218 4.217 -5.091 -3.226 -1.197 C14 YED 6 YED C15 C5 C 0 1 N N N 77.874 35.687 4.596 -5.637 -3.443 -2.609 C15 YED 7 YED C13 C6 C 0 1 N N N 79.832 33.584 3.030 -3.003 -4.505 -1.694 C13 YED 8 YED C16 C7 C 0 1 N N N 78.437 34.164 0.295 -1.517 -2.829 0.130 C16 YED 9 YED O5 O2 O 0 1 N N N 79.185 35.027 -0.145 -0.927 -1.770 0.147 O5 YED 10 YED N2 N2 N 0 1 N N N 78.247 32.952 -0.448 -0.799 -3.961 0.100 N2 YED 11 YED C32 C8 C 0 1 N N N 79.035 32.683 -1.748 -1.454 -5.260 -0.060 C32 YED 12 YED C31 C9 C 0 1 N N N 79.455 31.178 -1.918 -0.931 -6.240 0.991 C31 YED 13 YED C30 C10 C 0 1 N N N 78.281 30.191 -1.681 0.599 -6.267 0.952 C30 YED 14 YED C29 C11 C 0 1 N N N 77.640 30.399 -0.307 1.137 -4.873 1.284 C29 YED 15 YED C17 C12 C 0 1 N N R 77.225 31.889 -0.051 0.660 -3.882 0.221 C17 YED 16 YED C18 C13 C 0 1 N N N 75.903 32.314 -0.815 1.047 -2.482 0.627 C18 YED 17 YED O4 O3 O 0 1 N N N 75.853 33.265 -1.580 1.918 -1.888 0.026 O4 YED 18 YED N3 N3 N 0 1 N N N 74.729 31.609 -0.558 0.409 -1.894 1.674 N3 YED 19 YED C19 C14 C 0 1 N N S 73.420 32.115 -1.040 0.313 -0.417 1.657 C19 YED 20 YED C20 C15 C 0 1 N N N 72.343 31.233 -0.353 1.207 0.148 0.552 C20 YED 21 YED C21 C16 C 0 1 N N N 70.958 31.530 -0.905 2.673 0.040 0.975 C21 YED 22 YED C22 C17 C 0 1 N N N 69.979 30.578 -0.193 3.572 0.467 -0.186 C22 YED 23 YED C23 C18 C 0 1 N N N 68.578 30.784 -0.676 5.038 0.358 0.237 C23 YED 24 YED C24 C19 C 0 1 N N N 67.584 29.817 0.037 5.938 0.786 -0.924 C24 YED 25 YED C25 C20 C 0 1 N N N 66.195 29.606 -0.719 7.404 0.677 -0.500 C25 YED 26 YED O2 O4 O 0 1 N N N 65.654 30.818 -1.035 7.698 -0.675 -0.143 O2 YED 27 YED C26 C21 C 0 1 N N N 65.146 28.721 0.097 8.304 1.104 -1.662 C26 YED 28 YED C27 C22 C 0 1 N N N 64.928 29.053 1.578 9.770 0.996 -1.238 C27 YED 29 YED O1 O5 O 0 1 N N N 66.359 29.055 -1.999 7.640 1.528 0.623 O1 YED 30 YED C28 C23 C 0 1 N N N 73.228 33.585 -0.591 -1.121 -0.050 1.390 C28 YED 31 YED O3 O6 O 0 1 N N N 72.684 34.424 -1.302 -2.002 -0.611 2.007 O3 YED 32 YED N4 N4 N 0 1 N N N 73.655 33.881 0.712 -1.451 0.892 0.475 N4 YED 33 YED C9 C24 C 0 1 N N S 73.950 35.230 1.225 -2.873 0.932 0.075 C9 YED 34 YED C8 C25 C 0 1 N N N 73.505 35.331 2.716 -3.063 1.925 -1.073 C8 YED 35 YED C7 C26 C 0 1 Y N N 73.892 36.607 3.390 -2.814 3.325 -0.573 C7 YED 36 YED C33 C27 C 0 1 Y N N 73.914 37.891 2.826 -3.740 4.193 -0.135 C33 YED 37 YED N N5 N 0 1 Y N N 74.282 38.798 3.879 -3.141 5.365 0.238 N YED 38 YED O O7 O 0 1 N N N 74.498 40.159 3.833 -3.820 6.499 0.748 O YED 39 YED C C28 C 0 1 N N N 74.319 40.862 2.597 -5.235 6.331 0.851 C YED 40 YED C6 C29 C 0 1 Y N N 74.273 36.717 4.804 -1.516 3.994 -0.466 C6 YED 41 YED C1 C30 C 0 1 Y N N 74.490 38.095 5.085 -1.781 5.278 0.044 C1 YED 42 YED C5 C31 C 0 1 Y N N 74.426 35.778 5.823 -0.203 3.617 -0.756 C5 YED 43 YED C4 C32 C 0 1 Y N N 74.774 36.244 7.102 0.819 4.498 -0.538 C4 YED 44 YED C3 C33 C 0 1 Y N N 74.967 37.640 7.362 0.563 5.765 -0.032 C3 YED 45 YED C2 C34 C 0 1 Y N N 74.831 38.596 6.355 -0.725 6.160 0.254 C2 YED 46 YED H1 H1 H 0 1 N N N 75.851 33.498 1.607 -3.824 -1.261 1.389 H1 YED 47 YED H2 H2 H 0 1 N N N 77.988 35.543 1.895 -3.399 -3.528 0.875 H2 YED 48 YED H3 H3 H 0 1 N N N 77.932 32.640 2.782 -3.259 -2.382 -1.954 H3 YED 49 YED H4 H4 H 0 1 N N N 76.529 34.096 4.096 -5.394 -4.055 -0.558 H4 YED 50 YED H5 H5 H 0 1 N N N 77.964 33.597 5.055 -5.486 -2.293 -0.794 H5 YED 51 YED H6 H6 H 0 1 N N N 77.336 35.926 5.525 -6.725 -3.495 -2.574 H6 YED 52 YED H7 H7 H 0 1 N N N 78.952 35.843 4.746 -5.333 -2.614 -3.248 H7 YED 53 YED H8 H8 H 0 1 N N N 77.518 36.342 3.787 -5.242 -4.376 -3.012 H8 YED 54 YED H9 H9 H 0 1 N N N 80.100 32.994 3.919 -3.368 -5.288 -1.029 H9 YED 55 YED H10 H10 H 0 1 N N N 80.242 33.100 2.131 -3.327 -4.713 -2.713 H10 YED 56 YED H11 H11 H 0 1 N N N 80.250 34.597 3.123 -1.914 -4.476 -1.658 H11 YED 57 YED H12 H12 H 0 1 N N N 79.945 33.301 -1.739 -2.530 -5.140 0.061 H12 YED 58 YED H13 H13 H 0 1 N N N 78.406 32.969 -2.604 -1.242 -5.652 -1.055 H13 YED 59 YED H14 H14 H 0 1 N N N 79.834 31.033 -2.940 -1.263 -5.923 1.980 H14 YED 60 YED H15 H15 H 0 1 N N N 80.253 30.953 -1.196 -1.317 -7.237 0.781 H15 YED 61 YED H16 H16 H 0 1 N N N 77.519 30.349 -2.458 0.968 -6.984 1.686 H16 YED 62 YED H17 H17 H 0 1 N N N 78.662 29.161 -1.745 0.932 -6.559 -0.043 H17 YED 63 YED H18 H18 H 0 1 N N N 76.742 29.767 -0.238 0.769 -4.564 2.262 H18 YED 64 YED H19 H19 H 0 1 N N N 78.361 30.097 0.467 2.227 -4.898 1.296 H19 YED 65 YED H20 H20 H 0 1 N N N 77.027 31.995 1.026 1.117 -4.123 -0.738 H20 YED 66 YED H21 H21 H 0 1 N N N 74.769 30.753 -0.043 0.033 -2.418 2.398 H21 YED 67 YED H22 H22 H 0 1 N N N 73.339 32.035 -2.134 0.622 -0.016 2.623 H22 YED 68 YED H23 H23 H 0 1 N N N 72.580 30.174 -0.530 1.051 -0.418 -0.366 H23 YED 69 YED H24 H24 H 0 1 N N N 72.350 31.435 0.728 0.955 1.195 0.380 H24 YED 70 YED H25 H25 H 0 1 N N N 70.685 32.576 -0.700 2.852 0.689 1.832 H25 YED 71 YED H26 H26 H 0 1 N N N 70.937 31.352 -1.990 2.897 -0.992 1.248 H26 YED 72 YED H27 H27 H 0 1 N N N 70.279 29.539 -0.394 3.392 -0.182 -1.043 H27 YED 73 YED H28 H28 H 0 1 N N N 70.017 30.768 0.890 3.348 1.498 -0.459 H28 YED 74 YED H29 H29 H 0 1 N N N 68.277 31.822 -0.471 5.218 1.008 1.094 H29 YED 75 YED H30 H30 H 0 1 N N N 68.542 30.599 -1.760 5.262 -0.673 0.510 H30 YED 76 YED H31 H31 H 0 1 N N N 67.371 30.222 1.037 5.758 0.136 -1.781 H31 YED 77 YED H32 H32 H 0 1 N N N 68.072 28.836 0.135 5.714 1.817 -1.196 H32 YED 78 YED H33 H33 H 0 1 N N N 65.488 31.309 -0.239 7.560 -1.310 -0.859 H33 YED 79 YED H34 H34 H 0 1 N N N 64.173 28.818 -0.407 8.124 0.455 -2.518 H34 YED 80 YED H35 H35 H 0 1 N N N 65.485 27.676 0.042 8.080 2.136 -1.934 H35 YED 81 YED H36 H36 H 0 1 N N N 64.183 28.364 2.003 10.411 1.300 -2.065 H36 YED 82 YED H37 H37 H 0 1 N N N 65.878 28.946 2.121 9.950 1.645 -0.381 H37 YED 83 YED H38 H38 H 0 1 N N N 64.566 30.087 1.672 9.994 -0.036 -0.965 H38 YED 84 YED H39 H39 H 0 1 N N N 66.738 28.187 -1.924 7.460 2.463 0.453 H39 YED 85 YED H40 H40 H 0 1 N N N 73.768 33.114 1.344 -0.795 1.502 0.104 H40 YED 86 YED H41 H41 H 0 1 N N N 73.414 35.989 0.636 -3.491 1.221 0.926 H41 YED 87 YED H42 H42 H 0 1 N N N 72.409 35.240 2.755 -2.359 1.695 -1.872 H42 YED 88 YED H43 H43 H 0 1 N N N 73.962 34.497 3.269 -4.082 1.851 -1.453 H43 YED 89 YED H44 H44 H 0 1 N N N 73.697 38.148 1.800 -4.801 3.995 -0.085 H44 YED 90 YED H45 H45 H 0 1 N N N 74.533 41.930 2.748 -5.650 6.125 -0.135 H45 YED 91 YED H46 H46 H 0 1 N N N 75.005 40.454 1.840 -5.454 5.498 1.519 H46 YED 92 YED H47 H47 H 0 1 N N N 73.281 40.741 2.254 -5.681 7.243 1.250 H47 YED 93 YED H48 H48 H 0 1 N N N 74.281 34.724 5.635 0.004 2.633 -1.150 H48 YED 94 YED H49 H49 H 0 1 N N N 74.899 35.535 7.907 1.835 4.206 -0.762 H49 YED 95 YED H50 H50 H 0 1 N N N 75.224 37.960 8.361 1.382 6.449 0.135 H50 YED 96 YED H51 H51 H 0 1 N N N 74.978 39.650 6.538 -0.914 7.147 0.649 H51 YED 97 # # 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 YED O1 C25 SING N N 1 YED C31 C32 SING N N 2 YED C31 C30 SING N N 3 YED C32 N2 SING N N 4 YED C30 C29 SING N N 5 YED O4 C18 DOUB N N 6 YED O3 C28 DOUB N N 7 YED C19 C28 SING N N 8 YED C19 N3 SING N N 9 YED C19 C20 SING N N 10 YED O2 C25 SING N N 11 YED C21 C20 SING N N 12 YED C21 C22 SING N N 13 YED C18 N3 SING N N 14 YED C18 C17 SING N N 15 YED C25 C24 SING N N 16 YED C25 C26 SING N N 17 YED C23 C22 SING N N 18 YED C23 C24 SING N N 19 YED C28 N4 SING N N 20 YED N2 C17 SING N N 21 YED N2 C16 SING N N 22 YED C29 C17 SING N N 23 YED O5 C16 DOUB N N 24 YED C26 C27 SING N N 25 YED C16 C11 SING N N 26 YED O6 C10 DOUB N N 27 YED N4 C9 SING N N 28 YED C10 C9 SING N N 29 YED C10 N1 SING N N 30 YED C9 C8 SING N N 31 YED N1 C11 SING N N 32 YED C11 C12 SING N N 33 YED C O SING N N 34 YED C8 C7 SING N N 35 YED C33 C7 DOUB Y N 36 YED C33 N SING Y N 37 YED C12 C13 SING N N 38 YED C12 C14 SING N N 39 YED C7 C6 SING Y N 40 YED O N SING N N 41 YED N C1 SING Y N 42 YED C14 C15 SING N N 43 YED C6 C1 DOUB Y N 44 YED C6 C5 SING Y N 45 YED C1 C2 SING Y N 46 YED C5 C4 DOUB Y N 47 YED C2 C3 DOUB Y N 48 YED C4 C3 SING Y N 49 YED N1 H1 SING N N 50 YED C11 H2 SING N N 51 YED C12 H3 SING N N 52 YED C14 H4 SING N N 53 YED C14 H5 SING N N 54 YED C15 H6 SING N N 55 YED C15 H7 SING N N 56 YED C15 H8 SING N N 57 YED C13 H9 SING N N 58 YED C13 H10 SING N N 59 YED C13 H11 SING N N 60 YED C32 H12 SING N N 61 YED C32 H13 SING N N 62 YED C31 H14 SING N N 63 YED C31 H15 SING N N 64 YED C30 H16 SING N N 65 YED C30 H17 SING N N 66 YED C29 H18 SING N N 67 YED C29 H19 SING N N 68 YED C17 H20 SING N N 69 YED N3 H21 SING N N 70 YED C19 H22 SING N N 71 YED C20 H23 SING N N 72 YED C20 H24 SING N N 73 YED C21 H25 SING N N 74 YED C21 H26 SING N N 75 YED C22 H27 SING N N 76 YED C22 H28 SING N N 77 YED C23 H29 SING N N 78 YED C23 H30 SING N N 79 YED C24 H31 SING N N 80 YED C24 H32 SING N N 81 YED O2 H33 SING N N 82 YED C26 H34 SING N N 83 YED C26 H35 SING N N 84 YED C27 H36 SING N N 85 YED C27 H37 SING N N 86 YED C27 H38 SING N N 87 YED O1 H39 SING N N 88 YED N4 H40 SING N N 89 YED C9 H41 SING N N 90 YED C8 H42 SING N N 91 YED C8 H43 SING N N 92 YED C33 H44 SING N N 93 YED C H45 SING N N 94 YED C H46 SING N N 95 YED C H47 SING N N 96 YED C5 H48 SING N N 97 YED C4 H49 SING N N 98 YED C3 H50 SING N N 99 YED C2 H51 SING N N 100 # # 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 YED SMILES ACDLabs 12.01 "O=C1C(NC(C(NC(C2N(C(C(N1)C(C)CC)=O)CCCC2)=O)CCCCCC(CC)(O)O)=O)Cc3c4c(n(c3)OC)cccc4" YED InChI InChI 1.03 "InChI=1S/C34H51N5O7/c1-5-22(3)29-33(43)38-19-13-11-17-28(38)32(42)35-25(15-8-7-12-18-34(44,45)6-2)30(40)36-26(31(41)37-29)20-23-21-39(46-4)27-16-10-9-14-24(23)27/h9-10,14,16,21-22,25-26,28-29,44-45H,5-8,11-13,15,17-20H2,1-4H3,(H,35,42)(H,36,40)(H,37,41)/t22-,25-,26-,28+,29-/m0/s1" YED InChIKey InChI 1.03 YTTBRMMMZWYPGH-WLUNDFKZSA-N YED SMILES_CANONICAL CACTVS 3.385 "CC[C@H](C)[C@@H]1NC(=O)[C@H](Cc2cn(OC)c3ccccc23)NC(=O)[C@H](CCCCCC(O)(O)CC)NC(=O)[C@H]4CCCCN4C1=O" YED SMILES CACTVS 3.385 "CC[CH](C)[CH]1NC(=O)[CH](Cc2cn(OC)c3ccccc23)NC(=O)[CH](CCCCCC(O)(O)CC)NC(=O)[CH]4CCCCN4C1=O" YED SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC[C@H](C)[C@H]1C(=O)N2CCCC[C@@H]2C(=O)N[C@H](C(=O)N[C@H](C(=O)N1)Cc3cn(c4c3cccc4)OC)CCCCCC(CC)(O)O" YED SMILES "OpenEye OEToolkits" 2.0.7 "CCC(C)C1C(=O)N2CCCCC2C(=O)NC(C(=O)NC(C(=O)N1)Cc3cn(c4c3cccc4)OC)CCCCCC(CC)(O)O" # # 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 YED "SYSTEMATIC NAME" ACDLabs 12.01 "(3S,6S,9S,15aR)-9-[(2S)-butan-2-yl]-3-(6,6-dihydroxyoctyl)-6-[(1-methoxy-1H-indol-3-yl)methyl]octahydro-2H-pyrido[1,2-a][1,4,7,10]tetraazacyclododecine-1,4,7,10(3H,12H)-tetrone" YED "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(3~{S},6~{S},9~{S},12~{R})-9-[6,6-bis(oxidanyl)octyl]-3-[(2~{S})-butan-2-yl]-6-[(1-methoxyindol-3-yl)methyl]-1,4,7,10-tetrazabicyclo[10.4.0]hexadecane-2,5,8,11-tetrone" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YED "Create component" 2021-02-23 RCSB YED "Initial release" 2021-05-05 RCSB ##