data_G5F # _chem_comp.id G5F _chem_comp.name "[(2~{S},3~{S},4~{R})-4-[(2~{S},3~{R},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]oxy-5-[[(2~{S},3~{R})-2,3-bis(oxidanyl)butoxy]-oxidanyl-phosphoryl]oxy-2,3-bis(oxidanyl)pentyl] [(2~{R},3~{S},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentyl] hydrogen phosphate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C23 H47 N O24 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-01-27 _chem_comp.pdbx_modified_date 2022-08-26 _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 783.559 _chem_comp.one_letter_code ? _chem_comp.three_letter_code G5F _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 7QXD _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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 G5F C2 C1 C 0 1 N N R 4.850 -24.824 -61.815 2.294 2.890 -1.497 C2 G5F 1 G5F C4 C2 C 0 1 N N S 3.099 -26.575 -62.329 1.463 0.705 -0.623 C4 G5F 2 G5F C5 C3 C 0 1 N N R 5.267 -26.867 -63.185 1.295 2.645 0.777 C5 G5F 3 G5F C6 C4 C 0 1 N N N 6.215 -27.983 -63.555 0.404 3.306 1.830 C6 G5F 4 G5F C7 C5 C 0 1 N N R 1.249 -28.056 -62.649 0.686 -1.438 0.120 C7 G5F 5 G5F C8 C6 C 0 1 N N N 0.114 -27.226 -63.204 1.908 -2.359 0.120 C8 G5F 6 G5F C9 C7 C 0 1 N N S 0.768 -29.253 -61.836 -0.584 -2.274 -0.046 C9 G5F 7 G5F C10 C8 C 0 1 N N S 1.902 -30.043 -61.177 -1.806 -1.353 -0.046 C10 G5F 8 G5F C11 C9 C 0 1 N N N 2.842 -30.656 -62.179 -3.076 -2.190 -0.212 C11 G5F 9 G5F C12 C10 C 0 1 N N N 6.883 -31.839 -62.782 -8.177 -0.886 0.167 C12 G5F 10 G5F O14 O1 O 0 1 N N N 12.016 -32.092 -61.748 -13.151 2.558 1.596 O14 G5F 11 G5F C15 C11 C 0 1 N N S 9.919 -32.561 -62.884 -11.035 1.559 0.990 C15 G5F 12 G5F C16 C12 C 0 1 N N N -3.821 -27.879 -63.003 7.054 -1.316 0.656 C16 G5F 13 G5F C17 C13 C 0 1 N N S -4.517 -28.584 -64.162 7.800 0.005 0.861 C17 G5F 14 G5F C18 C14 C 0 1 N N R -5.578 -27.735 -64.874 9.300 -0.271 0.984 C18 G5F 15 G5F C19 C15 C 0 1 N N N -6.320 -28.457 -66.009 10.045 1.050 1.189 C19 G5F 16 G5F C20 C16 C 0 1 N N N 1.568 -24.541 -60.289 1.905 -0.031 -3.699 C20 G5F 17 G5F O21 O2 O 0 1 N N N 5.312 -33.234 -60.767 -5.983 -2.442 -1.710 O21 G5F 18 G5F O22 O3 O 0 1 N N N -2.808 -25.909 -61.012 4.630 -3.256 1.714 O22 G5F 19 G5F C1 C17 C 0 1 N N S 5.881 -25.869 -62.209 1.451 3.583 -0.423 C1 G5F 20 G5F C3 C18 C 0 1 N N R 3.547 -25.475 -61.355 1.626 1.565 -1.879 C3 G5F 21 G5F O1 O4 O 0 1 N N N 4.143 -27.501 -62.562 0.696 1.420 0.347 O1 G5F 22 G5F O2 O5 O 0 1 N N N 2.024 -27.231 -61.758 0.790 -0.510 -0.962 O2 G5F 23 G5F N1 N1 N 0 1 N N N 2.465 -24.517 -61.281 2.461 0.858 -2.852 N1 G5F 24 G5F O3 O6 O 0 1 N N N 5.400 -23.985 -60.805 2.383 3.730 -2.650 O3 G5F 25 G5F O4 O7 O 0 1 N N N 7.032 -25.255 -62.786 2.102 4.785 -0.007 O4 G5F 26 G5F O5 O8 O 0 1 N N N 5.626 -28.841 -64.554 0.352 2.481 2.996 O5 G5F 27 G5F O6 O9 O 0 1 N N N -0.688 -26.778 -62.080 3.083 -1.592 0.391 O6 G5F 28 G5F O7 O10 O 0 1 N N N 3.964 -31.237 -61.465 -4.222 -1.344 -0.096 O7 G5F 29 G5F P1 P1 P 0 1 N N N 4.545 -32.669 -61.936 -5.731 -1.891 -0.218 P1 G5F 30 G5F O8 O11 O 0 1 N N N 5.566 -32.308 -63.125 -6.762 -0.695 0.093 O8 G5F 31 G5F C13 C19 C 0 1 N N R 7.729 -31.885 -64.028 -8.856 0.450 0.477 C13 G5F 32 G5F C14 C20 C 0 1 N N S 9.175 -31.507 -63.712 -10.356 0.224 0.679 C14 G5F 33 G5F P2 P2 P 0 1 N N N -2.053 -25.984 -62.301 4.554 -2.241 0.466 P2 G5F 34 G5F O9 O12 O 0 1 N N N -2.820 -26.892 -63.398 5.646 -1.073 0.658 O9 G5F 35 G5F C21 C21 C 0 1 N N N 0.390 -23.637 -60.467 2.764 -0.758 -4.700 C21 G5F 36 G5F O10 O13 O 0 1 N N N 1.677 -25.301 -59.325 0.712 -0.245 -3.655 O10 G5F 37 G5F O11 O14 O 0 1 N N N 0.030 -30.069 -62.714 -0.688 -3.203 1.035 O11 G5F 38 G5F O12 O15 O 0 1 N N N 1.375 -31.099 -60.366 -1.702 -0.425 -1.128 O12 G5F 39 G5F C22 C22 C 0 1 N N N 11.426 -32.437 -63.001 -12.535 1.333 1.192 C22 G5F 40 G5F O15 O16 O 0 1 N N N -3.555 -29.010 -65.129 7.563 0.864 -0.256 O15 G5F 41 G5F O17 O17 O 0 1 N N N -6.543 -27.296 -63.924 9.536 -1.130 2.101 O17 G5F 42 G5F O18 O18 O 0 1 N N N 9.152 -30.246 -63.029 -10.559 -0.679 1.768 O18 G5F 43 G5F O19 O19 O 0 1 N N N 9.513 -33.878 -63.280 -10.832 2.462 -0.099 O19 G5F 44 G5F O20 O20 O 0 1 N N N 7.201 -30.998 -65.023 -8.653 1.352 -0.612 O20 G5F 45 G5F O23 O21 O 0 1 N N N 3.386 -33.385 -62.581 -5.939 -2.987 0.754 O23 G5F 46 G5F O24 O22 O 0 1 N N N -1.785 -24.723 -63.097 4.834 -2.977 -0.787 O24 G5F 47 G5F H1 H1 H 0 1 N N N 4.627 -24.218 -62.705 3.293 2.696 -1.110 H1 G5F 48 G5F H2 H2 H 0 1 N N N 2.801 -26.099 -63.275 2.445 0.473 -0.212 H2 G5F 49 G5F H3 H3 H 0 1 N N N 4.954 -26.336 -64.096 2.275 2.438 1.207 H3 G5F 50 G5F H4 H4 H 0 1 N N N 6.442 -28.577 -62.657 0.815 4.281 2.093 H4 G5F 51 G5F H5 H5 H 0 1 N N N 7.145 -27.550 -63.953 -0.602 3.432 1.428 H5 G5F 52 G5F H6 H6 H 0 1 N N N 1.876 -28.414 -63.479 0.642 -0.893 1.063 H6 G5F 53 G5F H7 H7 H 0 1 N N N 0.514 -26.359 -63.749 1.787 -3.123 0.888 H7 G5F 54 G5F H8 H8 H 0 1 N N N -0.499 -27.835 -63.884 2.002 -2.837 -0.855 H8 G5F 55 G5F H9 H9 H 0 1 N N N 0.108 -28.879 -61.039 -0.540 -2.819 -0.989 H9 G5F 56 G5F H10 H10 H 0 1 N N N 2.475 -29.350 -60.544 -1.850 -0.808 0.897 H10 G5F 57 G5F H11 H11 H 0 1 N N N 3.204 -29.881 -62.870 -3.072 -2.664 -1.193 H11 G5F 58 G5F H12 H12 H 0 1 N N N 2.319 -31.439 -62.747 -3.109 -2.956 0.562 H12 G5F 59 G5F H13 H13 H 0 1 N N N 7.321 -32.487 -62.009 -8.542 -1.266 -0.787 H13 G5F 60 G5F H14 H14 H 0 1 N N N 6.826 -30.807 -62.406 -8.406 -1.602 0.955 H14 G5F 61 G5F H15 H15 H 0 1 N N N 12.958 -32.021 -61.850 -14.104 2.489 1.743 H15 G5F 62 G5F H16 H16 H 0 1 N N N 9.649 -32.407 -61.829 -10.606 1.983 1.898 H16 G5F 63 G5F H17 H17 H 0 1 N N N -4.588 -27.367 -62.404 7.346 -1.753 -0.299 H17 G5F 64 G5F H18 H18 H 0 1 N N N -3.324 -28.643 -62.387 7.305 -2.004 1.463 H18 G5F 65 G5F H19 H19 H 0 1 N N N -5.024 -29.471 -63.754 7.443 0.486 1.771 H19 G5F 66 G5F H20 H20 H 0 1 N N N -5.072 -26.860 -65.307 9.657 -0.752 0.073 H20 G5F 67 G5F H21 H21 H 0 1 N N N -7.057 -27.775 -66.458 9.688 1.531 2.099 H21 G5F 68 G5F H24 H24 H 0 1 N N N 4.948 -34.078 -60.527 -5.864 -1.776 -2.401 H24 G5F 69 G5F H25 H25 H 0 1 N N N -3.046 -25.006 -60.836 4.457 -2.841 2.570 H25 G5F 70 G5F H26 H26 H 0 1 N N N 6.176 -26.417 -61.302 0.468 3.822 -0.828 H26 G5F 71 G5F H27 H27 H 0 1 N N N 3.710 -25.928 -60.366 0.646 1.763 -2.314 H27 G5F 72 G5F H28 H28 H 0 1 N N N 2.386 -23.818 -61.991 3.415 1.030 -2.888 H28 G5F 73 G5F H29 H29 H 0 1 N N N 4.760 -23.329 -60.554 2.797 4.587 -2.481 H29 G5F 74 G5F H30 H30 H 0 1 N N N 7.404 -24.636 -62.169 1.625 5.274 0.678 H30 G5F 75 G5F H31 H31 H 0 1 N N N 6.235 -29.536 -64.774 -0.197 2.840 3.707 H31 G5F 76 G5F H32 H32 H 0 1 N N N 7.721 -32.914 -64.415 -8.427 0.873 1.385 H32 G5F 77 G5F H33 H33 H 0 1 N N N 9.710 -31.390 -64.666 -10.785 -0.200 -0.229 H33 G5F 78 G5F H34 H34 H 0 1 N N N -0.309 -23.775 -59.629 2.143 -1.430 -5.293 H34 G5F 79 G5F H35 H35 H 0 1 N N N 0.731 -22.591 -60.492 3.247 -0.035 -5.358 H35 G5F 80 G5F H36 H36 H 0 1 N N N -0.119 -23.880 -61.412 3.524 -1.336 -4.175 H36 G5F 81 G5F H37 H37 H 0 1 N N N -0.290 -30.831 -62.245 -0.732 -2.787 1.907 H37 G5F 82 G5F H38 H38 H 0 1 N N N 0.777 -30.737 -59.723 -1.658 -0.840 -2.000 H38 G5F 83 G5F H39 H39 H 0 1 N N N 11.840 -33.398 -63.339 -12.688 0.578 1.963 H39 G5F 84 G5F H40 H40 H 0 1 N N N 11.665 -31.655 -63.737 -12.980 0.994 0.257 H40 G5F 85 G5F H41 H41 H 0 1 N N N -2.890 -29.538 -64.703 7.856 0.499 -1.102 H41 G5F 86 G5F H42 H42 H 0 1 N N N -6.105 -26.846 -63.212 9.243 -0.765 2.947 H42 G5F 87 G5F H43 H43 H 0 1 N N N 10.040 -29.983 -62.818 -10.202 -0.366 2.611 H43 G5F 88 G5F H44 H44 H 0 1 N N N 9.979 -34.523 -62.761 -11.189 2.149 -0.941 H44 G5F 89 G5F H45 H45 H 0 1 N N N 6.302 -31.237 -65.216 -9.010 1.039 -1.454 H45 G5F 90 G5F C23 C23 C 0 1 N N N ? ? ? 11.545 0.775 1.311 C23 G5F 91 G5F O13 O23 O 0 1 N N N ? ? ? 9.809 1.909 0.072 O13 G5F 92 G5F O16 O24 O 0 1 N N N ? ? ? 12.229 1.991 1.618 O16 G5F 93 G5F H22 H22 H 0 1 N N N ? ? ? 11.718 0.050 2.107 H22 G5F 94 G5F H23 H23 H 0 1 N N N ? ? ? 11.920 0.375 0.369 H23 G5F 95 G5F H46 H46 H 0 1 N N N ? ? ? 10.102 1.544 -0.775 H46 G5F 96 G5F H47 H47 H 0 1 N N N ? ? ? 13.187 1.891 1.711 H47 G5F 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 G5F C19 C18 SING N N 1 G5F O15 C17 SING N N 2 G5F O20 C13 SING N N 3 G5F C18 C17 SING N N 4 G5F C18 O17 SING N N 5 G5F O5 C6 SING N N 6 G5F C17 C16 SING N N 7 G5F C13 C14 SING N N 8 G5F C13 C12 SING N N 9 G5F C14 O18 SING N N 10 G5F C14 C15 SING N N 11 G5F C6 C5 SING N N 12 G5F O9 C16 SING N N 13 G5F O9 P2 SING N N 14 G5F O19 C15 SING N N 15 G5F C8 C7 SING N N 16 G5F C8 O6 SING N N 17 G5F C5 O1 SING N N 18 G5F C5 C1 SING N N 19 G5F O8 C12 SING N N 20 G5F O8 P1 SING N N 21 G5F O24 P2 DOUB N N 22 G5F C22 C15 SING N N 23 G5F C22 O14 SING N N 24 G5F O4 C1 SING N N 25 G5F O11 C9 SING N N 26 G5F C7 C9 SING N N 27 G5F C7 O2 SING N N 28 G5F O23 P1 DOUB N N 29 G5F O1 C4 SING N N 30 G5F C4 O2 SING N N 31 G5F C4 C3 SING N N 32 G5F P2 O6 SING N N 33 G5F P2 O22 SING N N 34 G5F C1 C2 SING N N 35 G5F C11 O7 SING N N 36 G5F C11 C10 SING N N 37 G5F P1 O7 SING N N 38 G5F P1 O21 SING N N 39 G5F C9 C10 SING N N 40 G5F C2 C3 SING N N 41 G5F C2 O3 SING N N 42 G5F C3 N1 SING N N 43 G5F N1 C20 SING N N 44 G5F C10 O12 SING N N 45 G5F C21 C20 SING N N 46 G5F C20 O10 DOUB N N 47 G5F C2 H1 SING N N 48 G5F C4 H2 SING N N 49 G5F C5 H3 SING N N 50 G5F C6 H4 SING N N 51 G5F C6 H5 SING N N 52 G5F C7 H6 SING N N 53 G5F C8 H7 SING N N 54 G5F C8 H8 SING N N 55 G5F C9 H9 SING N N 56 G5F C10 H10 SING N N 57 G5F C11 H11 SING N N 58 G5F C11 H12 SING N N 59 G5F C12 H13 SING N N 60 G5F C12 H14 SING N N 61 G5F O14 H15 SING N N 62 G5F C15 H16 SING N N 63 G5F C16 H17 SING N N 64 G5F C16 H18 SING N N 65 G5F C17 H19 SING N N 66 G5F C18 H20 SING N N 67 G5F C19 H21 SING N N 68 G5F O21 H24 SING N N 69 G5F O22 H25 SING N N 70 G5F C1 H26 SING N N 71 G5F C3 H27 SING N N 72 G5F N1 H28 SING N N 73 G5F O3 H29 SING N N 74 G5F O4 H30 SING N N 75 G5F O5 H31 SING N N 76 G5F C13 H32 SING N N 77 G5F C14 H33 SING N N 78 G5F C21 H34 SING N N 79 G5F C21 H35 SING N N 80 G5F C21 H36 SING N N 81 G5F O11 H37 SING N N 82 G5F O12 H38 SING N N 83 G5F C22 H39 SING N N 84 G5F C22 H40 SING N N 85 G5F O15 H41 SING N N 86 G5F O17 H42 SING N N 87 G5F O18 H43 SING N N 88 G5F O19 H44 SING N N 89 G5F O20 H45 SING N N 90 G5F C23 C19 SING N N 91 G5F O13 C19 SING N N 92 G5F O16 C23 SING N N 93 G5F C23 H22 SING N N 94 G5F C23 H23 SING N N 95 G5F O13 H46 SING N N 96 G5F O16 H47 SING N N 97 # 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 G5F InChI InChI 1.06 "InChI=1S/C23H47NO24P2/c1-9(28)24-17-22(38)21(37)15(4-27)47-23(17)48-16(8-46-50(41,42)44-6-13(32)19(35)11(30)3-26)20(36)14(33)7-45-49(39,40)43-5-12(31)18(34)10(29)2-25/h10-23,25-27,29-38H,2-8H2,1H3,(H,24,28)(H,39,40)(H,41,42)/t10-,11?,12+,13-,14-,15+,16+,17+,18-,19+,20-,21+,22+,23-/m0/s1" G5F InChIKey InChI 1.06 CTFVIOIQZHDZBZ-OLJBVLMTSA-N G5F SMILES_CANONICAL CACTVS 3.385 "CC(=O)N[C@@H]1[C@@H](O)[C@H](O)[C@@H](CO)O[C@H]1O[C@H](CO[P](O)(=O)OC[C@H](O)[C@H](O)C(O)CO)[C@@H](O)[C@@H](O)CO[P](O)(=O)OC[C@@H](O)[C@@H](O)[C@@H](O)CO" G5F SMILES CACTVS 3.385 "CC(=O)N[CH]1[CH](O)[CH](O)[CH](CO)O[CH]1O[CH](CO[P](O)(=O)OC[CH](O)[CH](O)C(O)CO)[CH](O)[CH](O)CO[P](O)(=O)OC[CH](O)[CH](O)[CH](O)CO" G5F SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@H]1O[C@H](COP(=O)(O)OC[C@@H]([C@@H]([C@H](CO)O)O)O)[C@H]([C@H](COP(=O)(O)OC[C@H]([C@H]([C@H](CO)O)O)O)O)O)CO)O)O" G5F SMILES "OpenEye OEToolkits" 2.0.7 "CC(=O)NC1C(C(C(OC1OC(COP(=O)(O)OCC(C(C(CO)O)O)O)C(C(COP(=O)(O)OCC(C(C(CO)O)O)O)O)O)CO)O)O" # _pdbx_chem_comp_identifier.comp_id G5F _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 "[(2~{R},3~{S},4~{S})-2-[(2~{S},3~{R},4~{R},5~{S},6~{R})-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]oxy-3,4-bis(oxidanyl)-5-[oxidanyl-[(2~{R},3~{S},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentoxy]phosphoryl]oxy-pentyl] [(2~{S},3~{R},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentyl] 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 G5F "Create component" 2022-01-27 PDBE G5F "Modify descriptor" 2022-08-22 RCSB G5F "Initial release" 2022-08-31 RCSB #