data_A1AD4 # _chem_comp.id A1AD4 _chem_comp.name "[5-(2-{(2R,5S)-2-[2-(carboxymethoxy)-3-methoxy-5-nitrophenyl]-3,5-dimethyl-4-oxoimidazolidin-1-yl}-2-oxoethyl)-3,6-dimethoxy-9,9-dimethyl-9H-xanthen-4-yl]acetic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C35 H37 N3 O13" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-02-05 _chem_comp.pdbx_modified_date 2024-06-28 _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 707.681 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1AD4 _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 8VW5 _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_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 A1AD4 N1 N1 N 0 1 N N N N N N 4.466 -10.767 45.566 -1.269 -1.261 0.643 N1 A1AD4 1 A1AD4 C7 C1 C 0 1 Y N N N N N 2.429 -12.375 41.596 0.542 2.705 1.954 C7 A1AD4 2 A1AD4 C8 C2 C 0 1 Y N N N N N 2.284 -13.412 40.688 1.241 3.876 1.696 C8 A1AD4 3 A1AD4 N2 N2 N 1 1 N N N N N N 5.200 -14.306 49.298 -6.774 -0.368 1.298 N2 A1AD4 4 A1AD4 C9 C3 C 0 1 Y N N N N N 2.206 -14.722 41.122 2.462 3.823 1.055 C9 A1AD4 5 A1AD4 O1 O1 O 0 1 N N N N N N 5.001 -12.245 43.949 -0.715 0.705 -0.223 O1 A1AD4 6 A1AD4 C1 C4 C 0 1 N N S N N N 3.597 -9.716 46.103 -1.159 -2.379 1.592 C1 A1AD4 7 A1AD4 O5 O2 O 0 1 N N N N N N 0.059 -16.232 48.320 6.604 -2.577 0.154 O5 A1AD4 8 A1AD4 C5 C5 C 0 1 N N N N N N 2.717 -11.570 44.040 0.314 0.213 1.843 C5 A1AD4 9 A1AD4 C6 C6 C 0 1 Y N N N N N 2.527 -12.648 42.990 1.072 1.486 1.565 C6 A1AD4 10 A1AD4 C4 C7 C 0 1 N N N N N N 4.162 -11.549 44.497 -0.593 -0.095 0.680 C4 A1AD4 11 A1AD4 O4 O3 O 0 1 N N N N N N 0.328 -12.389 48.617 2.485 -4.019 -0.588 O4 A1AD4 12 A1AD4 C3 C8 C 0 1 N N R N N N 5.842 -10.637 46.036 -2.262 -1.676 -0.355 C3 A1AD4 13 A1AD4 O3 O4 O 0 1 N N N N N N -0.759 -13.330 46.929 3.559 -2.424 -1.678 O3 A1AD4 14 A1AD4 C2 C9 C 0 1 N N N N N N 4.590 -8.821 46.822 -2.111 -3.444 1.113 C2 A1AD4 15 A1AD4 N N3 N 0 1 N N N N N N 5.776 -9.455 46.893 -2.728 -3.016 -0.001 N A1AD4 16 A1AD4 C C10 C 0 1 N N N N N N 2.561 -10.258 47.079 -1.553 -1.916 2.996 C A1AD4 17 A1AD4 O O5 O 0 1 N N N N N N 4.342 -7.725 47.283 -2.292 -4.518 1.648 O A1AD4 18 A1AD4 C10 C11 C 0 1 Y N N N N N 2.273 -15.049 42.467 2.995 2.606 0.665 C10 A1AD4 19 A1AD4 C11 C12 C 0 1 Y N N N N N 2.445 -13.993 43.384 2.301 1.434 0.919 C11 A1AD4 20 A1AD4 C12 C13 C 0 1 Y N N N N N 1.791 -15.326 45.220 4.128 0.093 0.308 C12 A1AD4 21 A1AD4 C13 C14 C 0 1 Y N N N N N 1.570 -16.445 44.396 4.920 1.193 0.021 C13 A1AD4 22 A1AD4 C14 C15 C 0 1 Y N N N N N 0.847 -17.497 44.933 6.273 1.027 -0.219 C14 A1AD4 23 A1AD4 C15 C16 C 0 1 Y N N N N N 0.347 -17.458 46.223 6.839 -0.232 -0.175 C15 A1AD4 24 A1AD4 C16 C17 C 0 1 Y N N N N N 0.555 -16.351 47.031 6.049 -1.337 0.111 C16 A1AD4 25 A1AD4 C17 C18 C 0 1 Y N N N N N 1.297 -15.239 46.535 4.695 -1.174 0.352 C17 A1AD4 26 A1AD4 C18 C19 C 0 1 N N N N N N 1.509 -13.966 47.331 3.836 -2.373 0.662 C18 A1AD4 27 A1AD4 C19 C20 C 0 1 N N N N N N 0.247 -13.188 47.589 3.283 -2.940 -0.621 C19 A1AD4 28 A1AD4 C20 C21 C 0 1 N N N N N N -0.693 -17.366 48.950 8.006 -2.670 -0.106 C20 A1AD4 29 A1AD4 C21 C22 C 0 1 N N N N N N 2.116 -16.481 42.972 4.327 2.575 -0.033 C21 A1AD4 30 A1AD4 C22 C23 C 0 1 N N N N N N 3.489 -17.165 43.016 5.279 3.559 0.651 C22 A1AD4 31 A1AD4 C23 C24 C 0 1 N N N N N N 1.183 -17.289 42.050 4.141 2.987 -1.495 C23 A1AD4 32 A1AD4 C24 C25 C 0 1 N N N N N N 2.369 -10.672 39.802 -1.143 4.046 2.961 C24 A1AD4 33 A1AD4 C25 C26 C 0 1 Y N N N N N 6.373 -11.885 46.740 -3.423 -0.715 -0.350 C25 A1AD4 34 A1AD4 C26 C27 C 0 1 Y N N N N N 5.574 -12.527 47.672 -4.528 -0.970 0.441 C26 A1AD4 35 A1AD4 C27 C28 C 0 1 Y N N N N N 6.067 -13.630 48.339 -5.594 -0.091 0.449 C27 A1AD4 36 A1AD4 C28 C29 C 0 1 Y N N N N N 7.333 -14.128 48.128 -5.560 1.048 -0.335 C28 A1AD4 37 A1AD4 C29 C30 C 0 1 Y N N N N N 8.130 -13.505 47.193 -4.457 1.309 -1.130 C29 A1AD4 38 A1AD4 C30 C31 C 0 1 Y N N N N N 7.653 -12.382 46.498 -3.380 0.426 -1.134 C30 A1AD4 39 A1AD4 C31 C32 C 0 1 N N N N N N 8.899 -12.571 44.464 -2.355 0.264 -3.273 C31 A1AD4 40 A1AD4 C32 C33 C 0 1 N N N N N N 10.351 -12.294 44.207 -1.030 0.527 -3.941 C32 A1AD4 41 A1AD4 C33 C34 C 0 1 N N N N N N 10.007 -14.950 47.634 -5.559 3.292 -1.844 C33 A1AD4 42 A1AD4 C34 C35 C 0 1 N N N N N N 7.009 -8.832 47.387 -3.725 -3.782 -0.753 C34 A1AD4 43 A1AD4 O10 O6 O 0 1 N N N N N N 9.384 -13.928 46.839 -4.422 2.428 -1.902 O10 A1AD4 44 A1AD4 O11 O7 O 0 1 N N N N N N 4.080 -13.858 49.475 -6.805 -1.371 1.988 O11 A1AD4 45 A1AD4 O12 O8 O -1 1 N N N N N N 5.627 -15.306 49.854 -7.714 0.406 1.305 O12 A1AD4 46 A1AD4 O2 O9 O 0 1 N N N N N N 2.509 -14.234 44.751 2.802 0.232 0.547 O2 A1AD4 47 A1AD4 O6 O10 O 0 1 N N N N N N 2.439 -11.042 41.237 -0.658 2.754 2.590 O6 A1AD4 48 A1AD4 O7 O11 O 0 1 N N N N N N 8.456 -11.762 45.562 -2.292 0.681 -1.908 O7 A1AD4 49 A1AD4 O8 O12 O 0 1 N N N N N N 10.989 -12.856 43.343 -0.124 1.021 -3.312 O8 A1AD4 50 A1AD4 O9 O13 O 0 1 N N N N N N 10.845 -11.414 45.035 -0.856 0.213 -5.234 O9 A1AD4 51 A1AD4 H7 H1 H 0 1 N N N N N N 2.231 -13.194 39.631 0.830 4.828 1.998 H7 A1AD4 52 A1AD4 H8 H2 H 0 1 N N N N N N 2.090 -15.511 40.394 3.005 4.736 0.855 H8 A1AD4 53 A1AD4 H3 H3 H 0 1 N N N N N N 3.102 -9.161 45.293 -0.139 -2.764 1.597 H3 A1AD4 54 A1AD4 H6 H4 H 0 1 N N N N N N 2.455 -10.592 43.611 1.019 -0.607 1.982 H6 A1AD4 55 A1AD4 H5 H5 H 0 1 N N N N N N 2.065 -11.779 44.901 -0.283 0.336 2.747 H5 A1AD4 56 A1AD4 H13 H6 H 0 1 N N N N N N -0.508 -11.957 48.749 2.155 -4.346 -1.436 H13 A1AD4 57 A1AD4 H4 H7 H 0 1 N N N N N N 6.496 -10.422 45.178 -1.804 -1.695 -1.344 H4 A1AD4 58 A1AD4 H2 H8 H 0 1 N N N N N N 1.938 -9.431 47.450 -2.529 -1.433 2.958 H2 A1AD4 59 A1AD4 H H9 H 0 1 N N N N N N 1.925 -10.995 46.567 -1.599 -2.777 3.662 H A1AD4 60 A1AD4 H1 H10 H 0 1 N N N N N N 3.072 -10.740 47.925 -0.811 -1.208 3.367 H1 A1AD4 61 A1AD4 H9 H11 H 0 1 N N N N N N 0.668 -18.373 44.328 6.889 1.885 -0.443 H9 A1AD4 62 A1AD4 H10 H12 H 0 1 N N N N N N -0.212 -18.300 46.605 7.895 -0.357 -0.364 H10 A1AD4 63 A1AD4 H11 H13 H 0 1 N N N N N N 1.954 -14.234 48.300 4.437 -3.130 1.165 H11 A1AD4 64 A1AD4 H12 H14 H 0 1 N N N N N N 2.205 -13.322 46.774 3.013 -2.072 1.311 H12 A1AD4 65 A1AD4 H14 H15 H 0 1 N N N N N N -1.003 -17.081 49.966 8.320 -3.712 -0.040 H14 A1AD4 66 A1AD4 H15 H16 H 0 1 N N N N N N -1.583 -17.596 48.346 8.217 -2.290 -1.105 H15 A1AD4 67 A1AD4 H16 H17 H 0 1 N N N N N N -0.045 -18.253 48.999 8.552 -2.080 0.630 H16 A1AD4 68 A1AD4 H17 H18 H 0 1 N N N N N N 4.163 -16.595 43.673 5.406 3.274 1.696 H17 A1AD4 69 A1AD4 H18 H19 H 0 1 N N N N N N 3.377 -18.188 43.405 6.245 3.540 0.148 H18 A1AD4 70 A1AD4 H19 H20 H 0 1 N N N N N N 3.912 -17.203 42.001 4.861 4.565 0.598 H19 A1AD4 71 A1AD4 H20 H21 H 0 1 N N N N N N 1.086 -18.315 42.434 3.730 3.996 -1.538 H20 A1AD4 72 A1AD4 H21 H22 H 0 1 N N N N N N 0.192 -16.813 42.023 5.105 2.966 -2.004 H21 A1AD4 73 A1AD4 H22 H23 H 0 1 N N N N N N 1.605 -17.316 41.034 3.457 2.294 -1.983 H22 A1AD4 74 A1AD4 H23 H24 H 0 1 N N N N N N 2.388 -9.577 39.704 -2.106 3.943 3.460 H23 A1AD4 75 A1AD4 H24 H25 H 0 1 N N N N N N 3.230 -11.103 39.270 -0.432 4.520 3.639 H24 A1AD4 76 A1AD4 H25 H26 H 0 1 N N N N N N 1.437 -11.063 39.368 -1.259 4.661 2.069 H25 A1AD4 77 A1AD4 H26 H27 H 0 1 N N N N N N 4.576 -12.168 47.874 -4.558 -1.859 1.054 H26 A1AD4 78 A1AD4 H27 H28 H 0 1 N N N N N N 7.692 -14.984 48.681 -6.395 1.733 -0.328 H27 A1AD4 79 A1AD4 H29 H29 H 0 1 N N N N N N 8.313 -12.327 43.566 -3.138 0.822 -3.788 H29 A1AD4 80 A1AD4 H28 H30 H 0 1 N N N N N N 8.765 -13.634 44.712 -2.579 -0.802 -3.318 H28 A1AD4 81 A1AD4 H31 H31 H 0 1 N N N N N N 11.002 -15.178 47.225 -6.447 2.744 -2.161 H31 A1AD4 82 A1AD4 H32 H32 H 0 1 N N N N N N 10.109 -14.597 48.671 -5.696 3.645 -0.822 H32 A1AD4 83 A1AD4 H33 H33 H 0 1 N N N N N N 9.386 -15.858 47.616 -5.403 4.144 -2.505 H33 A1AD4 84 A1AD4 H34 H34 H 0 1 N N N N N N 6.756 -7.962 48.011 -3.220 -4.451 -1.449 H34 A1AD4 85 A1AD4 H35 H35 H 0 1 N N N N N N 7.574 -9.561 47.986 -4.331 -4.367 -0.062 H35 A1AD4 86 A1AD4 H36 H36 H 0 1 N N N N N N 7.622 -8.506 46.534 -4.366 -3.097 -1.308 H36 A1AD4 87 A1AD4 H30 H37 H 0 1 N N N N N N 11.769 -11.290 44.852 0.012 0.400 -5.618 H30 A1AD4 88 # 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 A1AD4 C24 O6 SING N N 1 A1AD4 C8 C9 DOUB Y N 2 A1AD4 C8 C7 SING Y N 3 A1AD4 C9 C10 SING Y N 4 A1AD4 O6 C7 SING N N 5 A1AD4 C7 C6 DOUB Y N 6 A1AD4 C23 C21 SING N N 7 A1AD4 C10 C21 SING N N 8 A1AD4 C10 C11 DOUB Y N 9 A1AD4 C21 C22 SING N N 10 A1AD4 C21 C13 SING N N 11 A1AD4 C6 C11 SING Y N 12 A1AD4 C6 C5 SING N N 13 A1AD4 O8 C32 DOUB N N 14 A1AD4 C11 O2 SING N N 15 A1AD4 O1 C4 DOUB N N 16 A1AD4 C5 C4 SING N N 17 A1AD4 C32 C31 SING N N 18 A1AD4 C32 O9 SING N N 19 A1AD4 C13 C14 DOUB Y N 20 A1AD4 C13 C12 SING Y N 21 A1AD4 C31 O7 SING N N 22 A1AD4 C4 N1 SING N N 23 A1AD4 O2 C12 SING N N 24 A1AD4 C14 C15 SING Y N 25 A1AD4 C12 C17 DOUB Y N 26 A1AD4 O7 C30 SING N N 27 A1AD4 N1 C3 SING N N 28 A1AD4 N1 C1 SING N N 29 A1AD4 C3 C25 SING N N 30 A1AD4 C3 N SING N N 31 A1AD4 C1 C2 SING N N 32 A1AD4 C1 C SING N N 33 A1AD4 C15 C16 DOUB Y N 34 A1AD4 C30 C25 DOUB Y N 35 A1AD4 C30 C29 SING Y N 36 A1AD4 C17 C16 SING Y N 37 A1AD4 C17 C18 SING N N 38 A1AD4 C25 C26 SING Y N 39 A1AD4 C2 N SING N N 40 A1AD4 C2 O DOUB N N 41 A1AD4 O10 C29 SING N N 42 A1AD4 O10 C33 SING N N 43 A1AD4 N C34 SING N N 44 A1AD4 O3 C19 DOUB N N 45 A1AD4 C16 O5 SING N N 46 A1AD4 C29 C28 DOUB Y N 47 A1AD4 C18 C19 SING N N 48 A1AD4 C19 O4 SING N N 49 A1AD4 C26 C27 DOUB Y N 50 A1AD4 C28 C27 SING Y N 51 A1AD4 O5 C20 SING N N 52 A1AD4 C27 N2 SING N N 53 A1AD4 N2 O11 DOUB N N 54 A1AD4 N2 O12 SING N N 55 A1AD4 C8 H7 SING N N 56 A1AD4 C9 H8 SING N N 57 A1AD4 C1 H3 SING N N 58 A1AD4 C5 H6 SING N N 59 A1AD4 C5 H5 SING N N 60 A1AD4 O4 H13 SING N N 61 A1AD4 C3 H4 SING N N 62 A1AD4 C H2 SING N N 63 A1AD4 C H SING N N 64 A1AD4 C H1 SING N N 65 A1AD4 C14 H9 SING N N 66 A1AD4 C15 H10 SING N N 67 A1AD4 C18 H11 SING N N 68 A1AD4 C18 H12 SING N N 69 A1AD4 C20 H14 SING N N 70 A1AD4 C20 H15 SING N N 71 A1AD4 C20 H16 SING N N 72 A1AD4 C22 H17 SING N N 73 A1AD4 C22 H18 SING N N 74 A1AD4 C22 H19 SING N N 75 A1AD4 C23 H20 SING N N 76 A1AD4 C23 H21 SING N N 77 A1AD4 C23 H22 SING N N 78 A1AD4 C24 H23 SING N N 79 A1AD4 C24 H24 SING N N 80 A1AD4 C24 H25 SING N N 81 A1AD4 C26 H26 SING N N 82 A1AD4 C28 H27 SING N N 83 A1AD4 C31 H29 SING N N 84 A1AD4 C31 H28 SING N N 85 A1AD4 C33 H31 SING N N 86 A1AD4 C33 H32 SING N N 87 A1AD4 C33 H33 SING N N 88 A1AD4 C34 H34 SING N N 89 A1AD4 C34 H35 SING N N 90 A1AD4 C34 H36 SING N N 91 A1AD4 O9 H30 SING N N 92 # 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 A1AD4 SMILES ACDLabs 12.01 "[O-][N+](=O)c1cc(c(OCC(=O)O)c(OC)c1)C1N(C)C(=O)C(C)N1C(=O)Cc1c(OC)ccc2c1Oc1c(ccc(OC)c1CC(=O)O)C2(C)C" A1AD4 InChI InChI 1.06 "InChI=1S/C35H37N3O13/c1-17-34(44)36(4)33(21-12-18(38(45)46)13-26(49-7)32(21)50-16-29(42)43)37(17)27(39)14-19-24(47-5)10-8-22-30(19)51-31-20(15-28(40)41)25(48-6)11-9-23(31)35(22,2)3/h8-13,17,33H,14-16H2,1-7H3,(H,40,41)(H,42,43)/t17-,33+/m0/s1" A1AD4 InChIKey InChI 1.06 PGHDTEOXCASCRK-UGAOPGRHSA-N A1AD4 SMILES_CANONICAL CACTVS 3.385 "COc1ccc2c(Oc3c(CC(=O)N4[C@@H](C)C(=O)N(C)[C@H]4c5cc(cc(OC)c5OCC(O)=O)[N+]([O-])=O)c(OC)ccc3C2(C)C)c1CC(O)=O" A1AD4 SMILES CACTVS 3.385 "COc1ccc2c(Oc3c(CC(=O)N4[CH](C)C(=O)N(C)[CH]4c5cc(cc(OC)c5OCC(O)=O)[N+]([O-])=O)c(OC)ccc3C2(C)C)c1CC(O)=O" A1AD4 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]1C(=O)N([C@H](N1C(=O)Cc2c(ccc3c2Oc4c(ccc(c4CC(=O)O)OC)C3(C)C)OC)c5cc(cc(c5OCC(=O)O)OC)[N+](=O)[O-])C" A1AD4 SMILES "OpenEye OEToolkits" 2.0.7 "CC1C(=O)N(C(N1C(=O)Cc2c(ccc3c2Oc4c(ccc(c4CC(=O)O)OC)C3(C)C)OC)c5cc(cc(c5OCC(=O)O)OC)[N+](=O)[O-])C" # 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 A1AD4 "SYSTEMATIC NAME" ACDLabs 12.01 "[5-(2-{(2R,5S)-2-[2-(carboxymethoxy)-3-methoxy-5-nitrophenyl]-3,5-dimethyl-4-oxoimidazolidin-1-yl}-2-oxoethyl)-3,6-dimethoxy-9,9-dimethyl-9H-xanthen-4-yl]acetic acid" A1AD4 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-[5-[2-[(2~{R},5~{S})-2-[2-(2-hydroxy-2-oxoethyloxy)-3-methoxy-5-nitro-phenyl]-3,5-dimethyl-4-oxidanylidene-imidazolidin-1-yl]-2-oxidanylidene-ethyl]-3,6-dimethoxy-9,9-dimethyl-xanthen-4-yl]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 A1AD4 "Create component" 2024-02-05 RCSB A1AD4 "Initial release" 2024-07-03 RCSB #