data_XQD # _chem_comp.id XQD _chem_comp.name "[(2~{R},3~{R},4~{S},5~{S},6~{R})-3-acetamido-5-[[(1~{S})-1-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethylsulfanyl]-1-oxidanyl-ethyl]amino]-6-methyl-4-oxidanyl-oxan-2-yl] [[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] hydrogen phosphate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C40 H66 N11 O32 P5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-12-31 _chem_comp.pdbx_modified_date 2021-02-26 _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 1399.940 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XQD _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 7L82 _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 XQD N1 N1 N 0 1 N N N -17.224 -23.230 19.774 -17.612 2.442 -1.647 N1 XQD 1 XQD N3 N2 N 0 1 N N N -19.434 -23.714 20.545 -17.911 4.382 -2.924 N3 XQD 2 XQD C4 C1 C 0 1 N N N -19.895 -23.308 19.337 -17.655 3.696 -4.057 C4 XQD 3 XQD C5 C2 C 0 1 N N N -19.075 -22.861 18.312 -17.359 2.314 -3.981 C5 XQD 4 XQD C6 C3 C 0 1 N N N -17.731 -22.810 18.539 -17.342 1.711 -2.773 C6 XQD 5 XQD O5P O1 O 0 1 N N N -6.812 -9.496 11.211 -0.284 0.609 -1.755 O5P XQD 6 XQD C5P C4 C 0 1 N N N -6.596 -10.682 10.971 -0.413 0.115 -0.655 C5P XQD 7 XQD C6P C5 C 0 1 N N N -6.709 -11.209 9.516 0.579 -0.910 -0.168 C6P XQD 8 XQD C7P C6 C 0 1 N N N -7.935 -10.440 8.949 1.640 -1.145 -1.245 C7P XQD 9 XQD N8P N3 N 0 1 N N N -8.210 -11.061 7.630 2.604 -2.141 -0.772 N8P XQD 10 XQD C9P C7 C 0 1 N N N -7.854 -10.554 6.449 3.635 -2.509 -1.559 C9P XQD 11 XQD O9P O2 O 0 1 N N N -7.236 -9.453 6.267 3.712 -2.086 -2.693 O9P XQD 12 XQD CAP C8 C 0 1 N N R -8.182 -11.461 5.256 4.691 -3.444 -1.030 CAP XQD 13 XQD OAP O3 O 0 1 N N N -6.930 -11.570 4.551 4.277 -3.962 0.236 OAP XQD 14 XQD CBP C9 C 0 1 N N N -9.322 -10.944 4.353 6.009 -2.685 -0.864 CBP XQD 15 XQD CDP C10 C 0 1 N N N -10.624 -11.085 5.154 6.527 -2.257 -2.239 CDP XQD 16 XQD CEP C11 C 0 1 N N N -9.075 -9.482 3.936 5.778 -1.446 0.002 CEP XQD 17 XQD CCP C12 C 0 1 N N N -9.311 -11.763 3.055 7.039 -3.593 -0.191 CCP XQD 18 XQD O6A O4 O 0 1 N N N -9.529 -13.118 3.449 8.270 -2.884 -0.036 O6A XQD 19 XQD P2A P1 P 0 1 N N N -9.537 -14.219 2.209 9.579 -3.536 0.638 P2A XQD 20 XQD O4E O5 O 0 1 N N N -10.666 -13.807 1.268 9.923 -4.791 -0.067 O4E XQD 21 XQD O5A O6 O 0 1 N N N -9.538 -15.602 2.845 9.283 -3.855 2.188 O5A XQD 22 XQD O3A O7 O 0 1 N N N -8.185 -13.801 1.429 10.810 -2.504 0.528 O3A XQD 23 XQD P1A P2 P 0 1 N N N -6.961 -14.770 1.031 12.410 -2.659 0.612 P1A XQD 24 XQD O1A O8 O 0 1 N N N -6.090 -15.110 2.239 12.849 -2.877 2.145 O1A XQD 25 XQD O2A O9 O 0 1 N N N -7.456 -15.923 0.196 12.836 -3.825 -0.194 O2A XQD 26 XQD O5C O10 O 0 1 N N N -6.166 -13.838 0.043 13.109 -1.327 0.038 O5C XQD 27 XQD C5C C13 C 0 1 N N N -6.869 -13.231 -1.041 14.523 -1.195 -0.118 C5C XQD 28 XQD C4C C14 C 0 1 N N R -5.892 -12.372 -1.815 14.848 0.189 -0.684 C4C XQD 29 XQD C3C C15 C 0 1 N N S -4.460 -12.900 -1.709 16.359 0.308 -0.979 C3C XQD 30 XQD O3C O11 O 0 1 N N N -3.762 -12.463 -2.862 16.618 0.080 -2.366 O3C XQD 31 XQD P3B P3 P 0 1 N N N -3.552 -13.453 -4.176 17.569 -1.106 -2.896 P3B XQD 32 XQD O9A O12 O 0 1 N N N -2.628 -12.542 -4.966 18.896 -1.001 -2.251 O9A XQD 33 XQD O8A O13 O 0 1 N N N -4.939 -13.764 -4.787 16.907 -2.528 -2.532 O8A XQD 34 XQD O7A O14 O 0 1 N N N -2.888 -14.729 -3.779 17.737 -0.986 -4.493 O7A XQD 35 XQD C2C C16 C 0 1 N N R -3.862 -12.163 -0.500 16.702 1.766 -0.597 C2C XQD 36 XQD O2C O15 O 0 1 N N N -2.432 -12.043 -0.495 17.183 2.482 -1.737 O2C XQD 37 XQD O4C O16 O 0 1 N N N -5.851 -11.024 -1.255 14.582 1.210 0.303 O4C XQD 38 XQD C1A C17 C 0 1 N N R -4.565 -10.813 -0.614 15.357 2.354 -0.117 C1A XQD 39 XQD N9A N4 N 0 1 Y N N -4.892 -10.332 0.760 15.572 3.265 1.010 N9A XQD 40 XQD C4A C18 C 0 1 Y N N -4.638 -9.083 1.186 15.844 4.607 0.929 C4A XQD 41 XQD N3A N5 N 0 1 Y N N -4.062 -7.987 0.608 15.995 5.476 -0.065 N3A XQD 42 XQD C2A C19 C 0 1 Y N N -3.953 -6.839 1.303 16.260 6.741 0.183 C2A XQD 43 XQD C8A C20 C 0 1 Y N N -5.514 -11.031 1.745 15.534 2.935 2.333 C8A XQD 44 XQD N7A N6 N 0 1 Y N N -5.668 -10.213 2.840 15.770 3.988 3.061 N7A XQD 45 XQD C5A C21 C 0 1 Y N N -5.149 -8.999 2.481 15.971 5.058 2.254 C5A XQD 46 XQD C6A C22 C 0 1 Y N N -4.948 -7.819 3.177 16.254 6.417 2.468 C6A XQD 47 XQD N6A N7 N 0 1 N N N -5.457 -7.713 4.438 16.391 6.918 3.751 N6A XQD 48 XQD N1A N8 N 0 1 Y N N -4.396 -6.749 2.587 16.389 7.210 1.411 N1A XQD 49 XQD N4P N9 N 0 1 N N N -6.332 -11.548 11.980 -1.443 0.483 0.132 N4P XQD 50 XQD C3P C23 C 0 1 N N N -6.286 -11.261 13.435 -2.407 1.479 -0.341 C3P XQD 51 XQD C2P C24 C 0 1 N N N -6.587 -12.569 14.156 -3.468 1.714 0.736 C2P XQD 52 XQD S1P S1 S 0 1 N N N -6.425 -12.192 15.934 -4.662 2.947 0.150 S1P XQD 53 XQD C C25 C 0 1 N N S -5.570 -13.723 16.552 -5.734 3.196 1.592 C XQD 54 XQD O O17 O 0 1 N N N -4.745 -14.402 15.580 -5.102 2.654 2.754 O XQD 55 XQD CH3 C26 C 0 1 N N N -4.578 -13.230 17.558 -5.977 4.692 1.795 CH3 XQD 56 XQD N4A N10 N 0 1 N N N -6.526 -14.704 17.187 -7.017 2.516 1.371 N4A XQD 57 XQD "C4'" C27 C 0 1 N N S -7.698 -15.159 16.457 -6.814 1.094 1.064 "C4'" XQD 58 XQD "C3'" C28 C 0 1 N N S -7.497 -16.598 16.120 -7.346 0.240 2.219 "C3'" XQD 59 XQD "O3'" O18 O 0 1 N N N -6.289 -16.818 15.308 -6.596 0.518 3.403 "O3'" XQD 60 XQD "C5'" C29 C 0 1 N N R -8.977 -14.997 17.358 -7.572 0.734 -0.217 "C5'" XQD 61 XQD "C6'" C30 C 0 1 N N N -9.493 -13.651 17.870 -7.006 1.540 -1.388 "C6'" XQD 62 XQD "O5'" O19 O 0 1 N N N -10.101 -15.489 16.573 -7.420 -0.662 -0.482 "O5'" XQD 63 XQD "C1'" C31 C 0 1 N N R -9.968 -16.794 16.089 -7.942 -1.510 0.542 "C1'" XQD 64 XQD "C2'" C32 C 0 1 N N R -8.710 -16.977 15.278 -7.200 -1.240 1.854 "C2'" XQD 65 XQD "N2'" N11 N 0 1 N N N -8.631 -18.391 14.887 -7.773 -2.066 2.919 "N2'" XQD 66 XQD "C7'" C33 C 0 1 N N N -8.434 -18.797 13.620 -7.349 -3.334 3.091 "C7'" XQD 67 XQD "C8'" C34 C 0 1 N N N -8.287 -20.306 13.401 -7.939 -4.184 4.187 "C8'" XQD 68 XQD "O7'" O20 O 0 1 N N N -8.408 -17.981 12.686 -6.493 -3.791 2.363 "O7'" XQD 69 XQD "O1'" O21 O 0 1 N N N -9.995 -17.683 17.224 -9.335 -1.242 0.719 "O1'" XQD 70 XQD PB P4 P 0 1 N N N -11.376 -18.268 17.803 -10.487 -2.014 -0.099 PB XQD 71 XQD O2B O22 O 0 1 N N N -10.915 -18.924 19.047 -10.365 -1.656 -1.664 O2B XQD 72 XQD O1B O23 O 0 1 N N N -12.489 -17.285 17.754 -10.331 -3.474 0.087 O1B XQD 73 XQD O3B O24 O 0 1 N N N -11.791 -19.298 16.623 -11.931 -1.555 0.445 O3B XQD 74 XQD PA P5 P 0 1 N N N -11.552 -20.832 16.423 -13.408 -2.192 0.373 PA XQD 75 XQD O4D O25 O 0 1 N N N -12.297 -21.225 15.175 -13.625 -2.783 -0.967 O4D XQD 76 XQD O5B O26 O 0 1 N N N -10.097 -21.151 16.430 -13.553 -3.338 1.494 O5B XQD 77 XQD O6B O27 O 0 1 N N N -12.264 -21.480 17.674 -14.502 -1.041 0.636 O6B XQD 78 XQD C5B C35 C 0 1 N N N -13.639 -21.319 18.064 -15.909 -1.267 0.535 C5B XQD 79 XQD C4B C36 C 0 1 N N R -13.872 -22.158 19.341 -16.658 0.030 0.846 C4B XQD 80 XQD C2B C37 C 0 1 N N S -13.625 -23.644 19.101 -18.177 -0.229 0.845 C2B XQD 81 XQD O4A O28 O 0 1 N N N -12.861 -24.221 20.127 -18.738 0.081 2.122 O4A XQD 82 XQD C3B C38 C 0 1 N N R -15.039 -24.179 19.099 -18.726 0.735 -0.236 C3B XQD 83 XQD "O2'" O29 O 0 1 N N N -15.146 -25.521 19.527 -19.948 1.339 0.193 "O2'" XQD 84 XQD C1B C39 C 0 1 N N R -15.781 -23.241 20.007 -17.593 1.788 -0.336 C1B XQD 85 XQD O4B O30 O 0 1 N N N -15.216 -21.961 19.657 -16.390 1.006 -0.175 O4B XQD 86 XQD C2 C40 C 0 1 N N N -18.070 -23.628 20.758 -17.888 3.756 -1.733 C2 XQD 87 XQD O2 O31 O 0 1 N N N -17.687 -23.999 21.876 -18.120 4.387 -0.720 O2 XQD 88 XQD O4 O32 O 0 1 N N N -21.144 -23.303 19.176 -17.676 4.261 -5.135 O4 XQD 89 XQD H1 H1 H 0 1 N N N -20.052 -24.060 21.251 -18.111 5.330 -2.968 H1 XQD 90 XQD H2 H2 H 0 1 N N N -19.489 -22.562 17.360 -17.148 1.749 -4.877 H2 XQD 91 XQD H3 H3 H 0 1 N N N -17.063 -22.448 17.771 -17.117 0.658 -2.695 H3 XQD 92 XQD H4 H4 H 0 1 N N N -6.885 -12.295 9.503 1.058 -0.548 0.742 H4 XQD 93 XQD H5 H5 H 0 1 N N N -5.800 -10.978 8.942 0.061 -1.846 0.042 H5 XQD 94 XQD H6 H6 H 0 1 N N N -7.699 -9.372 8.831 1.161 -1.506 -2.155 H6 XQD 95 XQD H7 H7 H 0 1 N N N -8.802 -10.552 9.616 2.158 -0.209 -1.455 H7 XQD 96 XQD H8 H8 H 0 1 N N N -8.703 -11.931 7.626 2.501 -2.536 0.108 H8 XQD 97 XQD H9 H9 H 0 1 N N N -8.473 -12.449 5.643 4.831 -4.267 -1.730 H9 XQD 98 XQD H10 H10 H 0 1 N N N -6.362 -10.850 4.800 4.133 -3.284 0.911 H10 XQD 99 XQD H11 H11 H 0 1 N N N -10.562 -10.474 6.067 5.825 -1.556 -2.690 H11 XQD 100 XQD H12 H12 H 0 1 N N N -11.471 -10.742 4.541 7.499 -1.777 -2.127 H12 XQD 101 XQD H13 H13 H 0 1 N N N -10.773 -12.140 5.428 6.626 -3.134 -2.878 H13 XQD 102 XQD H14 H14 H 0 1 N N N -9.072 -8.841 4.830 5.043 -0.798 -0.478 H14 XQD 103 XQD H15 H15 H 0 1 N N N -8.103 -9.405 3.426 5.408 -1.750 0.982 H15 XQD 104 XQD H16 H16 H 0 1 N N N -9.874 -9.156 3.254 6.716 -0.905 0.120 H16 XQD 105 XQD H17 H17 H 0 1 N N N -8.340 -11.663 2.547 6.670 -3.898 0.789 H17 XQD 106 XQD H18 H18 H 0 1 N N N -10.113 -11.426 2.382 7.204 -4.477 -0.808 H18 XQD 107 XQD H19 H19 H 0 1 N N N -10.305 -16.083 2.556 9.050 -3.076 2.712 H19 XQD 108 XQD H20 H20 H 0 1 N N N -5.979 -16.052 2.295 12.601 -2.150 2.733 H20 XQD 109 XQD H21 H21 H 0 1 N N N -7.687 -12.607 -0.652 15.009 -1.315 0.850 H21 XQD 110 XQD H22 H22 H 0 1 N N N -7.283 -14.009 -1.699 14.886 -1.962 -0.803 H22 XQD 111 XQD H23 H23 H 0 1 N N N -6.190 -12.337 -2.873 14.269 0.375 -1.588 H23 XQD 112 XQD H24 H24 H 0 1 N N N -4.438 -13.991 -1.570 16.925 -0.391 -0.363 H24 XQD 113 XQD H25 H25 H 0 1 N N N -5.026 -13.316 -5.620 16.033 -2.666 -2.922 H25 XQD 114 XQD H26 H26 H 0 1 N N N -1.994 -14.735 -4.100 18.299 -1.670 -4.882 H26 XQD 115 XQD H27 H27 H 0 1 N N N -4.201 -12.662 0.419 17.439 1.787 0.205 H27 XQD 116 XQD H28 H28 H 0 1 N N N -2.156 -11.576 0.285 17.414 3.403 -1.554 H28 XQD 117 XQD H29 H29 H 0 1 N N N -3.943 -10.088 -1.159 14.856 2.873 -0.934 H29 XQD 118 XQD H30 H30 H 0 1 N N N -3.506 -5.975 0.834 16.378 7.420 -0.648 H30 XQD 119 XQD H31 H31 H 0 1 N N N -5.835 -12.060 1.679 15.336 1.946 2.719 H31 XQD 120 XQD H32 H32 H 0 1 N N N -5.336 -6.777 4.769 16.290 6.330 4.515 H32 XQD 121 XQD H33 H33 H 0 1 N N N -6.431 -7.938 4.424 16.587 7.859 3.886 H33 XQD 122 XQD H34 H34 H 0 1 N N N -6.146 -12.493 11.712 -1.546 0.088 1.012 H34 XQD 123 XQD H35 H35 H 0 1 N N N -5.288 -10.895 13.717 -1.889 2.415 -0.551 H35 XQD 124 XQD H36 H36 H 0 1 N N N -7.041 -10.504 13.695 -2.887 1.117 -1.251 H36 XQD 125 XQD H37 H37 H 0 1 N N N -7.608 -12.909 13.926 -3.986 0.778 0.946 H37 XQD 126 XQD H38 H38 H 0 1 N N N -5.867 -13.346 13.860 -2.989 2.076 1.645 H38 XQD 127 XQD H39 H39 H 0 1 N N N -4.350 -15.168 15.979 -4.927 1.705 2.699 H39 XQD 128 XQD H40 H40 H 0 1 N N N -5.104 -12.689 18.358 -6.459 5.106 0.909 H40 XQD 129 XQD H41 H41 H 0 1 N N N -4.037 -14.085 17.989 -6.622 4.841 2.662 H41 XQD 130 XQD H42 H42 H 0 1 N N N -3.863 -12.554 17.067 -5.025 5.196 1.959 H42 XQD 131 XQD H43 H43 H 0 1 N N N -6.858 -14.278 18.029 -7.547 2.971 0.642 H43 XQD 132 XQD H45 H45 H 0 1 N N N -7.832 -14.572 15.537 -5.751 0.900 0.925 H45 XQD 133 XQD H46 H46 H 0 1 N N N -7.468 -17.208 17.035 -8.397 0.471 2.390 H46 XQD 134 XQD H47 H47 H 0 1 N N N -5.520 -16.587 15.815 -6.880 0.011 4.176 H47 XQD 135 XQD H48 H48 H 0 1 N N N -8.845 -15.656 18.229 -8.629 0.968 -0.092 H48 XQD 136 XQD H49 H49 H 0 1 N N N -10.397 -13.811 18.475 -5.968 1.253 -1.560 H49 XQD 137 XQD H50 H50 H 0 1 N N N -8.719 -13.172 18.487 -7.592 1.339 -2.285 H50 XQD 138 XQD H51 H51 H 0 1 N N N -9.734 -13.002 17.015 -7.054 2.604 -1.154 H51 XQD 139 XQD H52 H52 H 0 1 N N N -10.824 -17.028 15.439 -7.806 -2.553 0.255 H52 XQD 140 XQD H53 H53 H 0 1 N N N -8.750 -16.337 14.384 -6.144 -1.483 1.731 H53 XQD 141 XQD H54 H54 H 0 1 N N N -8.729 -19.087 15.599 -8.457 -1.701 3.501 H54 XQD 142 XQD H55 H55 H 0 1 N N N -8.162 -20.511 12.327 -8.807 -4.719 3.805 H55 XQD 143 XQD H56 H56 H 0 1 N N N -7.406 -20.672 13.949 -7.193 -4.900 4.532 H56 XQD 144 XQD H57 H57 H 0 1 N N N -9.187 -20.819 13.770 -8.241 -3.546 5.018 H57 XQD 145 XQD H58 H58 H 0 1 N N N -11.436 -18.617 19.779 -10.457 -0.714 -1.861 H58 XQD 146 XQD H59 H59 H 0 1 N N N -9.860 -21.570 15.611 -13.423 -3.021 2.399 H59 XQD 147 XQD H60 H60 H 0 1 N N N -13.847 -20.259 18.270 -16.153 -1.594 -0.476 H60 XQD 148 XQD H61 H61 H 0 1 N N N -14.300 -21.673 17.259 -16.205 -2.038 1.247 H61 XQD 149 XQD H62 H62 H 0 1 N N N -13.210 -21.797 20.142 -16.346 0.414 1.817 H62 XQD 150 XQD H63 H63 H 0 1 N N N -13.162 -23.793 18.114 -18.388 -1.264 0.578 H63 XQD 151 XQD H64 H64 H 0 1 N N N -11.980 -23.867 20.104 -19.693 -0.064 2.178 H64 XQD 152 XQD H65 H65 H 0 1 N N N -15.447 -24.079 18.083 -18.862 0.217 -1.185 H65 XQD 153 XQD H66 H66 H 0 1 N N N -16.057 -25.790 19.501 -20.662 0.708 0.357 H66 XQD 154 XQD H67 H67 H 0 1 N N N -15.564 -23.488 21.057 -17.684 2.526 0.461 H67 XQD 155 # # 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 XQD O9A P3B DOUB N N 1 XQD O8A P3B SING N N 2 XQD P3B O7A SING N N 3 XQD P3B O3C SING N N 4 XQD O3C C3C SING N N 5 XQD C4C C3C SING N N 6 XQD C4C O4C SING N N 7 XQD C4C C5C SING N N 8 XQD C3C C2C SING N N 9 XQD O4C C1A SING N N 10 XQD C5C O5C SING N N 11 XQD C1A C2C SING N N 12 XQD C1A N9A SING N N 13 XQD C2C O2C SING N N 14 XQD O5C P1A SING N N 15 XQD O2A P1A DOUB N N 16 XQD N3A C4A DOUB Y N 17 XQD N3A C2A SING Y N 18 XQD N9A C4A SING Y N 19 XQD N9A C8A SING Y N 20 XQD P1A O3A SING N N 21 XQD P1A O1A SING N N 22 XQD C4A C5A SING Y N 23 XQD O4E P2A DOUB N N 24 XQD C2A N1A DOUB Y N 25 XQD O3A P2A SING N N 26 XQD C8A N7A DOUB Y N 27 XQD P2A O5A SING N N 28 XQD P2A O6A SING N N 29 XQD C5A N7A SING Y N 30 XQD C5A C6A DOUB Y N 31 XQD N1A C6A SING Y N 32 XQD CCP O6A SING N N 33 XQD CCP CBP SING N N 34 XQD C6A N6A SING N N 35 XQD CEP CBP SING N N 36 XQD CBP CDP SING N N 37 XQD CBP CAP SING N N 38 XQD OAP CAP SING N N 39 XQD CAP C9P SING N N 40 XQD O9P C9P DOUB N N 41 XQD C9P N8P SING N N 42 XQD N8P C7P SING N N 43 XQD C7P C6P SING N N 44 XQD C6P C5P SING N N 45 XQD C5P O5P DOUB N N 46 XQD C5P N4P SING N N 47 XQD N4P C3P SING N N 48 XQD "O7'" "C7'" DOUB N N 49 XQD "C8'" "C7'" SING N N 50 XQD C3P C2P SING N N 51 XQD "C7'" "N2'" SING N N 52 XQD C2P S1P SING N N 53 XQD "N2'" "C2'" SING N N 54 XQD O4D PA DOUB N N 55 XQD "C2'" "C1'" SING N N 56 XQD "C2'" "C3'" SING N N 57 XQD "O3'" "C3'" SING N N 58 XQD O C SING N N 59 XQD S1P C SING N N 60 XQD "C1'" "O5'" SING N N 61 XQD "C1'" "O1'" SING N N 62 XQD "C3'" "C4'" SING N N 63 XQD PA O5B SING N N 64 XQD PA O3B SING N N 65 XQD PA O6B SING N N 66 XQD "C4'" N4A SING N N 67 XQD "C4'" "C5'" SING N N 68 XQD C N4A SING N N 69 XQD C CH3 SING N N 70 XQD "O5'" "C5'" SING N N 71 XQD O3B PB SING N N 72 XQD "O1'" PB SING N N 73 XQD "C5'" "C6'" SING N N 74 XQD O6B C5B SING N N 75 XQD O1B PB DOUB N N 76 XQD PB O2B SING N N 77 XQD C5B C4B SING N N 78 XQD C5 C6 DOUB N N 79 XQD C5 C4 SING N N 80 XQD C6 N1 SING N N 81 XQD C3B C2B SING N N 82 XQD C3B "O2'" SING N N 83 XQD C3B C1B SING N N 84 XQD C2B C4B SING N N 85 XQD C2B O4A SING N N 86 XQD O4 C4 DOUB N N 87 XQD C4 N3 SING N N 88 XQD C4B O4B SING N N 89 XQD O4B C1B SING N N 90 XQD N1 C1B SING N N 91 XQD N1 C2 SING N N 92 XQD N3 C2 SING N N 93 XQD C2 O2 DOUB N N 94 XQD N3 H1 SING N N 95 XQD C5 H2 SING N N 96 XQD C6 H3 SING N N 97 XQD C6P H4 SING N N 98 XQD C6P H5 SING N N 99 XQD C7P H6 SING N N 100 XQD C7P H7 SING N N 101 XQD N8P H8 SING N N 102 XQD CAP H9 SING N N 103 XQD OAP H10 SING N N 104 XQD CDP H11 SING N N 105 XQD CDP H12 SING N N 106 XQD CDP H13 SING N N 107 XQD CEP H14 SING N N 108 XQD CEP H15 SING N N 109 XQD CEP H16 SING N N 110 XQD CCP H17 SING N N 111 XQD CCP H18 SING N N 112 XQD O5A H19 SING N N 113 XQD O1A H20 SING N N 114 XQD C5C H21 SING N N 115 XQD C5C H22 SING N N 116 XQD C4C H23 SING N N 117 XQD C3C H24 SING N N 118 XQD O8A H25 SING N N 119 XQD O7A H26 SING N N 120 XQD C2C H27 SING N N 121 XQD O2C H28 SING N N 122 XQD C1A H29 SING N N 123 XQD C2A H30 SING N N 124 XQD C8A H31 SING N N 125 XQD N6A H32 SING N N 126 XQD N6A H33 SING N N 127 XQD N4P H34 SING N N 128 XQD C3P H35 SING N N 129 XQD C3P H36 SING N N 130 XQD C2P H37 SING N N 131 XQD C2P H38 SING N N 132 XQD O H39 SING N N 133 XQD CH3 H40 SING N N 134 XQD CH3 H41 SING N N 135 XQD CH3 H42 SING N N 136 XQD N4A H43 SING N N 137 XQD "C4'" H45 SING N N 138 XQD "C3'" H46 SING N N 139 XQD "O3'" H47 SING N N 140 XQD "C5'" H48 SING N N 141 XQD "C6'" H49 SING N N 142 XQD "C6'" H50 SING N N 143 XQD "C6'" H51 SING N N 144 XQD "C1'" H52 SING N N 145 XQD "C2'" H53 SING N N 146 XQD "N2'" H54 SING N N 147 XQD "C8'" H55 SING N N 148 XQD "C8'" H56 SING N N 149 XQD "C8'" H57 SING N N 150 XQD O2B H58 SING N N 151 XQD O5B H59 SING N N 152 XQD C5B H60 SING N N 153 XQD C5B H61 SING N N 154 XQD C4B H62 SING N N 155 XQD C2B H63 SING N N 156 XQD O4A H64 SING N N 157 XQD C3B H65 SING N N 158 XQD "O2'" H66 SING N N 159 XQD C1B H67 SING N N 160 # # 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 XQD SMILES ACDLabs 12.01 "N6(C5C(C(C(COP(OP(OC4OC(C(NC(SCCNC(=O)CCNC(=O)C(O)C(C)(C)COP(O)(=O)OP(O)(=O)OCC1C(C(O)C(O1)n2c3c(nc2)c(N)ncn3)OP(O)(=O)O)(C)O)C(O)C4NC(C)=O)C)(O)=O)(O)=O)O5)O)O)C(NC(C=C6)=O)=O" XQD InChI InChI 1.03 "InChI=1S/C40H66N11O32P5S/c1-17-23(27(56)24(47-18(2)52)37(77-17)81-88(72,73)83-86(68,69)74-12-19-26(55)28(57)35(78-19)50-10-7-22(54)48-38(50)61)49-40(5,62)89-11-9-42-21(53)6-8-43-34(60)31(59)39(3,4)14-76-87(70,71)82-85(66,67)75-13-20-30(80-84(63,64)65)29(58)36(79-20)51-16-46-25-32(41)44-15-45-33(25)51/h7,10,15-17,19-20,23-24,26-31,35-37,49,55-59,62H,6,8-9,11-14H2,1-5H3,(H,42,53)(H,43,60)(H,47,52)(H,66,67)(H,68,69)(H,70,71)(H,72,73)(H2,41,44,45)(H,48,54,61)(H2,63,64,65)/t17-,19-,20-,23-,24-,26-,27+,28-,29-,30-,31+,35-,36-,37-,40+/m1/s1" XQD InChIKey InChI 1.03 CHRNLGHDEXUXFL-IOFFXKHASA-N XQD SMILES_CANONICAL CACTVS 3.385 "C[C@H]1O[C@H](O[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)[C@H](NC(C)=O)[C@@H](O)[C@@H]1N[C@@](C)(O)SCCNC(=O)CCNC(=O)[C@H](O)C(C)(C)CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@H]([C@H](O)[C@@H]4O[P](O)(O)=O)n5cnc6c(N)ncnc56" XQD SMILES CACTVS 3.385 "C[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH](NC(C)=O)[CH](O)[CH]1N[C](C)(O)SCCNC(=O)CCNC(=O)[CH](O)C(C)(C)CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH]([CH](O)[CH]4O[P](O)(O)=O)n5cnc6c(N)ncnc56" XQD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)NC(=O)C)O)N[C@@](C)(O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP(=O)(O)OP(=O)(O)OC[C@@H]4[C@H]([C@H]([C@@H](O4)n5cnc6c5ncnc6N)O)OP(=O)(O)O)O" XQD SMILES "OpenEye OEToolkits" 2.0.7 "CC1C(C(C(C(O1)OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)NC(=O)C)O)NC(C)(O)SCCNC(=O)CCNC(=O)C(C(C)(C)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)n5cnc6c5ncnc6N)O)OP(=O)(O)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 XQD "SYSTEMATIC NAME" ACDLabs 12.01 "(2R,3R,4S,5S,6R)-3-(acetylamino)-5-({(3R,5S,9R,19S)-1-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]-3,5,9,19-tetrahydroxy-8,8-dimethyl-3,5-dioxido-10,14-dioxo-2,4,6-trioxa-18-thia-11,15-diaza-3lambda~5~,5lambda~5~-diphosphaicosan-19-yl}amino)-4-hydroxy-6-methyltetrahydro-2H-pyran-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)" XQD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{R},3~{R},4~{S},5~{S},6~{R})-3-acetamido-5-[[(1~{S})-1-[2-[3-[[(2~{R})-4-[[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-4-oxidanyl-3-phosphonooxy-oxolan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-oxidanyl-phosphoryl]oxy-3,3-dimethyl-2-oxidanyl-butanoyl]amino]propanoylamino]ethylsulfanyl]-1-oxidanyl-ethyl]amino]-6-methyl-4-oxidanyl-oxan-2-yl] [[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] hydrogen phosphate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XQD "Create component" 2020-12-31 RCSB XQD "Initial release" 2021-03-03 RCSB ##