data_SJP # _chem_comp.id SJP _chem_comp.name "(2R,3R)-4-amino-N-[(1R,2S,3R,4R,5S)-5-amino-4-[(2,6-diamino-2,3,4,6-tetradeoxy-alpha-D-erythro-hexopyranosyl)oxy]-3-{[3-O-(2,6-diamino-2,3,4,6-tetradeoxy-beta-L-threo-hexopyranosyl)-beta-D-ribofuranosyl]oxy}-2-hydroxycyclohexyl]-3-fluoro-2-hydroxybutanamide" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C27 H52 F N7 O11" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2014-03-05 _chem_comp.pdbx_modified_date 2020-06-01 _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 669.740 _chem_comp.one_letter_code ? _chem_comp.three_letter_code SJP _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 3WRU _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # # 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 SJP C1 C1 C 0 1 N N R -10.495 2.555 19.558 0.585 3.485 1.144 C1 SJP 1 SJP C10 C10 C 0 1 N N R -11.947 4.596 19.276 1.694 1.497 0.394 C10 SJP 2 SJP C11 C11 C 0 1 N N R -12.819 4.338 18.018 1.044 0.178 -0.028 C11 SJP 3 SJP C12 C12 C 0 1 N N S -13.211 5.760 17.367 1.973 -0.985 0.327 C12 SJP 4 SJP C13 C13 C 0 1 N N S -12.346 2.648 16.223 -1.175 -0.727 -0.072 C13 SJP 5 SJP C14 C14 C 0 1 N N R -11.338 2.494 15.039 -2.466 -0.886 0.761 C14 SJP 6 SJP C15 C15 C 0 1 N N S -11.671 1.093 14.674 -3.602 -0.776 -0.281 C15 SJP 7 SJP C16 C16 C 0 1 N N R -11.699 0.338 16.041 -2.863 -0.564 -1.620 C16 SJP 8 SJP C17 C17 C 0 1 N N N -10.323 -0.103 16.631 -3.638 0.411 -2.508 C17 SJP 9 SJP C18 C18 C 0 1 N N R -13.364 -0.053 13.290 -5.493 -1.983 0.563 C18 SJP 10 SJP C19 C19 C 0 1 N N R -14.262 0.191 12.136 -6.088 -3.392 0.631 C19 SJP 11 SJP C2 C2 C 0 1 N N R -10.678 1.112 20.090 -0.783 4.148 0.960 C2 SJP 12 SJP C20 C20 C 0 1 N N N -14.619 -1.194 11.476 -7.330 -3.371 1.528 C20 SJP 13 SJP C21 C21 C 0 1 N N N -15.316 -2.100 12.342 -8.326 -2.345 0.978 C21 SJP 14 SJP C22 C22 C 0 1 N N R -14.459 -2.389 13.482 -7.644 -0.976 0.897 C22 SJP 15 SJP C23 C23 C 0 1 N N N -15.170 -3.368 14.497 -8.614 0.041 0.293 C23 SJP 16 SJP C24 C24 C 0 1 N N R -17.079 9.653 16.757 6.919 -3.069 0.666 C24 SJP 17 SJP C26 C26 C 0 1 N N N -15.868 8.254 18.225 5.176 -2.291 -0.917 C26 SJP 18 SJP C27 C27 C 0 1 N N N -17.599 10.910 16.585 7.935 -4.178 0.946 C27 SJP 19 SJP C28 C28 C 0 1 N N R -16.077 9.752 17.652 6.091 -3.436 -0.567 C28 SJP 20 SJP C3 C3 C 0 1 N N N -10.616 1.079 21.670 -0.775 4.966 -0.335 C3 SJP 21 SJP C4 C4 C 0 1 N N N -9.205 1.676 22.125 0.363 5.990 -0.272 C4 SJP 22 SJP C5 C5 C 0 1 N N S -9.108 3.163 21.578 1.687 5.256 -0.041 C5 SJP 23 SJP C6 C6 C 0 1 N N N -7.777 3.808 21.969 2.821 6.275 0.083 C6 SJP 24 SJP C7 C7 C 0 1 N N R -14.097 6.528 18.427 3.305 -0.816 -0.407 C7 SJP 25 SJP C8 C8 C 0 1 N N N -13.147 6.788 19.698 3.955 0.504 0.014 C8 SJP 26 SJP C9 C9 C 0 1 N N S -12.696 5.424 20.323 3.026 1.666 -0.340 C9 SJP 27 SJP F99 F99 F 0 1 N N N -16.645 9.133 15.488 7.595 -1.866 0.433 F99 SJP 28 SJP N19 N19 N 0 1 N N N -14.297 -4.509 14.971 -7.960 1.355 0.215 N19 SJP 29 SJP N2 N2 N 0 1 N N N -11.997 0.566 19.575 -1.823 3.114 0.881 N2 SJP 30 SJP N23 N23 N 0 1 N N N -15.478 0.764 12.493 -6.465 -3.830 -0.719 N23 SJP 31 SJP N3 N3 N 0 1 N N N -18.668 11.388 15.786 8.730 -3.826 2.130 N3 SJP 32 SJP N6 N6 N 0 1 N N N -7.684 5.126 21.480 4.080 5.575 0.371 N6 SJP 33 SJP N7 N7 N 0 1 N N N -14.500 7.833 17.928 4.194 -1.929 -0.067 N7 SJP 34 SJP N9 N9 N 0 1 N N N -11.798 5.646 21.474 3.650 2.933 0.064 N9 SJP 35 SJP O1 O1 O 0 1 N N N -11.596 3.383 19.922 0.826 2.583 0.062 O1 SJP 36 SJP O11 O11 O 0 1 N N N -11.978 3.537 17.085 -0.200 0.020 0.658 O11 SJP 37 SJP O12 O12 O 0 1 N N N -13.969 5.508 16.251 1.365 -2.217 -0.066 O12 SJP 38 SJP O14 O14 O 0 1 N N N -11.664 3.412 14.053 -2.494 -2.162 1.404 O14 SJP 39 SJP O16 O16 O 0 1 N N N -12.477 1.307 16.761 -1.585 -0.002 -1.252 O16 SJP 40 SJP O17 O17 O 0 1 N N N -10.597 -1.162 17.552 -3.001 0.504 -3.784 O17 SJP 41 SJP O18 O18 O 0 1 N N N -13.021 1.088 13.982 -4.367 -1.982 -0.316 O18 SJP 42 SJP O19 O19 O 0 1 N N N -14.827 10.243 17.076 6.965 -3.700 -1.667 O19 SJP 43 SJP O2 O2 O 0 1 N N N -16.718 7.607 18.862 5.323 -1.695 -1.963 O2 SJP 44 SJP O22 O22 O 0 1 N N N -14.065 -1.113 14.173 -6.480 -1.073 0.074 O22 SJP 45 SJP O5 O5 O 0 1 N N N -9.231 3.161 20.067 1.601 4.490 1.163 O5 SJP 46 SJP H1 H1 H 0 1 N N N -10.433 2.499 18.461 0.599 2.936 2.085 H1 SJP 47 SJP H2 H2 H 0 1 N N N -11.043 5.143 18.970 1.871 1.488 1.469 H2 SJP 48 SJP H3 H3 H 0 1 N N N -13.735 3.795 18.293 0.867 0.187 -1.103 H3 SJP 49 SJP H4 H4 H 0 1 N N N -12.297 6.333 17.152 2.149 -0.994 1.403 H4 SJP 50 SJP H5 H5 H 0 1 N N N -13.312 2.929 15.778 -0.776 -1.704 -0.347 H5 SJP 51 SJP H6 H6 H 0 1 N N N -10.302 2.587 15.397 -2.545 -0.087 1.498 H6 SJP 52 SJP H7 H7 H 0 1 N N N -10.899 0.660 14.021 -4.242 0.077 -0.059 H7 SJP 53 SJP H8 H8 H 0 1 N N N -12.302 -0.571 15.901 -2.726 -1.516 -2.133 H8 SJP 54 SJP H9 H9 H 0 1 N N N -9.662 -0.460 15.828 -4.659 0.052 -2.637 H9 SJP 55 SJP H10 H10 H 0 1 N N N -9.845 0.740 17.152 -3.655 1.395 -2.038 H10 SJP 56 SJP H11 H11 H 0 1 N N N -12.448 -0.521 12.902 -5.176 -1.673 1.560 H11 SJP 57 SJP H12 H12 H 0 1 N N N -13.742 0.808 11.388 -5.350 -4.079 1.045 H12 SJP 58 SJP H13 H13 H 0 1 N N N -9.858 0.490 19.702 -0.985 4.806 1.806 H13 SJP 59 SJP H14 H14 H 0 1 N N N -15.252 -1.003 10.596 -7.791 -4.358 1.535 H14 SJP 60 SJP H15 H15 H 0 1 N N N -13.683 -1.675 11.157 -7.043 -3.093 2.542 H15 SJP 61 SJP H16 H16 H 0 1 N N N -16.253 -1.638 12.688 -8.651 -2.649 -0.017 H16 SJP 62 SJP H17 H17 H 0 1 N N N -15.544 -3.031 11.802 -9.189 -2.283 1.641 H17 SJP 63 SJP H18 H18 H 0 1 N N N -13.545 -2.888 13.127 -7.356 -0.654 1.898 H18 SJP 64 SJP H19 H19 H 0 1 N N N -15.484 -2.786 15.376 -8.901 -0.281 -0.708 H19 SJP 65 SJP H20 H20 H 0 1 N N N -16.056 -3.793 14.003 -9.502 0.115 0.921 H20 SJP 66 SJP H21 H21 H 0 1 N N N -17.862 8.989 17.152 6.259 -2.954 1.526 H21 SJP 67 SJP H22 H22 H 0 1 N N N -16.737 11.504 16.247 7.408 -5.115 1.128 H22 SJP 68 SJP H23 H23 H 0 1 N N N -17.879 11.217 17.604 8.595 -4.293 0.086 H23 SJP 69 SJP H24 H24 H 0 1 N N N -16.365 10.392 18.499 5.496 -4.324 -0.355 H24 SJP 70 SJP H25 H25 H 0 1 N N N -11.431 1.689 22.088 -0.622 4.302 -1.185 H25 SJP 71 SJP H26 H26 H 0 1 N N N -10.714 0.043 22.025 -1.727 5.486 -0.443 H26 SJP 72 SJP H27 H27 H 0 1 N N N -8.389 1.069 21.706 0.411 6.539 -1.212 H27 SJP 73 SJP H28 H28 H 0 1 N N N -9.135 1.676 23.223 0.183 6.685 0.548 H28 SJP 74 SJP H29 H29 H 0 1 N N N -9.934 3.748 22.010 1.885 4.591 -0.881 H29 SJP 75 SJP H30 H30 H 0 1 N N N -6.953 3.211 21.550 2.917 6.826 -0.852 H30 SJP 76 SJP H31 H31 H 0 1 N N N -7.696 3.826 23.066 2.598 6.970 0.893 H31 SJP 77 SJP H32 H32 H 0 1 N N N -14.959 5.912 18.722 3.128 -0.807 -1.482 H32 SJP 78 SJP H33 H33 H 0 1 N N N -12.259 7.353 19.379 4.131 0.495 1.090 H33 SJP 79 SJP H34 H34 H 0 1 N N N -13.699 7.368 20.452 4.904 0.624 -0.508 H34 SJP 80 SJP H35 H35 H 0 1 N N N -13.590 4.872 20.647 2.850 1.675 -1.416 H35 SJP 81 SJP H36 H36 H 0 1 N N N -14.813 -5.082 15.607 -7.099 1.299 -0.308 H36 SJP 82 SJP H37 H37 H 0 1 N N N -14.010 -5.058 14.186 -8.580 2.045 -0.181 H37 SJP 83 SJP H39 H39 H 0 1 N N N -12.127 -0.366 19.912 -2.735 3.527 0.760 H39 SJP 84 SJP H40 H40 H 0 1 N N N -12.746 1.144 19.898 -1.623 2.456 0.143 H40 SJP 85 SJP H42 H42 H 0 1 N N N -15.315 1.653 12.921 -6.860 -4.759 -0.701 H42 SJP 86 SJP H43 H43 H 0 1 N N N -16.042 0.885 11.676 -7.101 -3.175 -1.148 H43 SJP 87 SJP H45 H45 H 0 1 N N N -18.765 12.375 15.913 8.135 -3.651 2.926 H45 SJP 88 SJP H46 H46 H 0 1 N N N -18.478 11.193 14.824 9.408 -4.544 2.337 H46 SJP 89 SJP H48 H48 H 0 1 N N N -6.806 5.521 21.750 4.856 6.219 0.390 H48 SJP 90 SJP H49 H49 H 0 1 N N N -7.752 5.117 20.482 4.017 5.058 1.235 H49 SJP 91 SJP H51 H51 H 0 1 N N N -13.873 8.413 17.408 4.077 -2.406 0.770 H51 SJP 92 SJP H52 H52 H 0 1 N N N -12.273 6.186 22.169 4.578 3.019 -0.323 H52 SJP 93 SJP H53 H53 H 0 1 N N N -11.531 4.764 21.863 3.075 3.720 -0.198 H53 SJP 94 SJP H55 H55 H 0 1 N N N -14.217 6.330 15.844 1.900 -2.999 0.129 H55 SJP 95 SJP H56 H56 H 0 1 N N N -11.429 4.286 14.343 -1.766 -2.306 2.025 H56 SJP 96 SJP H57 H57 H 0 1 N N N -9.784 -1.464 17.939 -3.440 1.106 -4.400 H57 SJP 97 SJP H58 H58 H 0 1 N N N -14.163 10.290 17.753 7.525 -2.951 -1.912 H58 SJP 98 # # 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 SJP C20 C19 SING N N 1 SJP C20 C21 SING N N 2 SJP C19 N23 SING N N 3 SJP C19 C18 SING N N 4 SJP C21 C22 SING N N 5 SJP C18 O18 SING N N 6 SJP C18 O22 SING N N 7 SJP C22 O22 SING N N 8 SJP C22 C23 SING N N 9 SJP O18 C15 SING N N 10 SJP O14 C14 SING N N 11 SJP C23 N19 SING N N 12 SJP C15 C14 SING N N 13 SJP C15 C16 SING N N 14 SJP C14 C13 SING N N 15 SJP F99 C24 SING N N 16 SJP N3 C27 SING N N 17 SJP C16 C17 SING N N 18 SJP C16 O16 SING N N 19 SJP C13 O16 SING N N 20 SJP C13 O11 SING N N 21 SJP O12 C12 SING N N 22 SJP C27 C24 SING N N 23 SJP C17 O17 SING N N 24 SJP C24 C28 SING N N 25 SJP O19 C28 SING N N 26 SJP O11 C11 SING N N 27 SJP C12 C11 SING N N 28 SJP C12 C7 SING N N 29 SJP C28 C26 SING N N 30 SJP N7 C26 SING N N 31 SJP N7 C7 SING N N 32 SJP C11 C10 SING N N 33 SJP C26 O2 DOUB N N 34 SJP C7 C8 SING N N 35 SJP C10 O1 SING N N 36 SJP C10 C9 SING N N 37 SJP C1 O1 SING N N 38 SJP C1 O5 SING N N 39 SJP C1 C2 SING N N 40 SJP N2 C2 SING N N 41 SJP C8 C9 SING N N 42 SJP O5 C5 SING N N 43 SJP C2 C3 SING N N 44 SJP C9 N9 SING N N 45 SJP N6 C6 SING N N 46 SJP C5 C6 SING N N 47 SJP C5 C4 SING N N 48 SJP C3 C4 SING N N 49 SJP C1 H1 SING N N 50 SJP C10 H2 SING N N 51 SJP C11 H3 SING N N 52 SJP C12 H4 SING N N 53 SJP C13 H5 SING N N 54 SJP C14 H6 SING N N 55 SJP C15 H7 SING N N 56 SJP C16 H8 SING N N 57 SJP C17 H9 SING N N 58 SJP C17 H10 SING N N 59 SJP C18 H11 SING N N 60 SJP C19 H12 SING N N 61 SJP C2 H13 SING N N 62 SJP C20 H14 SING N N 63 SJP C20 H15 SING N N 64 SJP C21 H16 SING N N 65 SJP C21 H17 SING N N 66 SJP C22 H18 SING N N 67 SJP C23 H19 SING N N 68 SJP C23 H20 SING N N 69 SJP C24 H21 SING N N 70 SJP C27 H22 SING N N 71 SJP C27 H23 SING N N 72 SJP C28 H24 SING N N 73 SJP C3 H25 SING N N 74 SJP C3 H26 SING N N 75 SJP C4 H27 SING N N 76 SJP C4 H28 SING N N 77 SJP C5 H29 SING N N 78 SJP C6 H30 SING N N 79 SJP C6 H31 SING N N 80 SJP C7 H32 SING N N 81 SJP C8 H33 SING N N 82 SJP C8 H34 SING N N 83 SJP C9 H35 SING N N 84 SJP N19 H36 SING N N 85 SJP N19 H37 SING N N 86 SJP N2 H39 SING N N 87 SJP N2 H40 SING N N 88 SJP N23 H42 SING N N 89 SJP N23 H43 SING N N 90 SJP N3 H45 SING N N 91 SJP N3 H46 SING N N 92 SJP N6 H48 SING N N 93 SJP N6 H49 SING N N 94 SJP N7 H51 SING N N 95 SJP N9 H52 SING N N 96 SJP N9 H53 SING N N 97 SJP O12 H55 SING N N 98 SJP O14 H56 SING N N 99 SJP O17 H57 SING N N 100 SJP O19 H58 SING N N 101 # # 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 SJP SMILES ACDLabs 12.01 "FC(CN)C(O)C(=O)NC4C(O)C(OC2OC(C(OC1OC(CN)CCC1N)C2O)CO)C(OC3OC(CN)CCC3N)C(N)C4" SJP InChI InChI 1.03 "InChI=1S/C27H52FN7O11/c28-12(8-31)18(37)24(40)35-16-5-15(34)21(44-25-13(32)3-1-10(6-29)41-25)23(19(16)38)46-27-20(39)22(17(9-36)43-27)45-26-14(33)4-2-11(7-30)42-26/h10-23,25-27,36-39H,1-9,29-34H2,(H,35,40)/t10-,11+,12+,13+,14+,15-,16+,17+,18-,19-,20+,21+,22+,23+,25+,26+,27-/m0/s1" SJP InChIKey InChI 1.03 XWTWBGQMVSXRIE-ZLDKHCKJSA-N SJP SMILES_CANONICAL CACTVS 3.385 "NC[C@@H](F)[C@H](O)C(=O)N[C@@H]1C[C@H](N)[C@@H](O[C@H]2O[C@H](CN)CC[C@H]2N)[C@H](O[C@@H]3O[C@H](CO)[C@@H](O[C@H]4O[C@@H](CN)CC[C@H]4N)[C@H]3O)[C@H]1O" SJP SMILES CACTVS 3.385 "NC[CH](F)[CH](O)C(=O)N[CH]1C[CH](N)[CH](O[CH]2O[CH](CN)CC[CH]2N)[CH](O[CH]3O[CH](CO)[CH](O[CH]4O[CH](CN)CC[CH]4N)[CH]3O)[CH]1O" SJP SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1C[C@H]([C@H](O[C@@H]1CN)O[C@@H]2[C@H](C[C@H]([C@@H]([C@H]2O[C@H]3[C@@H]([C@@H]([C@H](O3)CO)O[C@@H]4[C@@H](CC[C@@H](O4)CN)N)O)O)NC(=O)[C@H]([C@@H](CN)F)O)N)N" SJP SMILES "OpenEye OEToolkits" 1.7.6 "C1CC(C(OC1CN)OC2C(CC(C(C2OC3C(C(C(O3)CO)OC4C(CCC(O4)CN)N)O)O)NC(=O)C(C(CN)F)O)N)N" # # 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 SJP "SYSTEMATIC NAME" ACDLabs 12.01 "(2R,3R)-4-amino-N-[(1R,2S,3R,4R,5S)-5-amino-4-[(2,6-diamino-2,3,4,6-tetradeoxy-alpha-D-erythro-hexopyranosyl)oxy]-3-{[3-O-(2,6-diamino-2,3,4,6-tetradeoxy-beta-L-threo-hexopyranosyl)-beta-D-ribofuranosyl]oxy}-2-hydroxycyclohexyl]-3-fluoro-2-hydroxybutanamide" SJP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "(2R,3R)-N-[(1R,2S,3R,4R,5S)-4-[(2R,3R,6S)-6-(aminomethyl)-3-azanyl-oxan-2-yl]oxy-3-[(2S,3R,4S,5R)-4-[(2R,3R,6R)-6-(aminomethyl)-3-azanyl-oxan-2-yl]oxy-5-(hydroxymethyl)-3-oxidanyl-oxolan-2-yl]oxy-5-azanyl-2-oxidanyl-cyclohexyl]-4-azanyl-3-fluoranyl-2-oxidanyl-butanamide" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site SJP "Create component" 2014-03-05 PDBJ SJP "Initial release" 2014-11-05 RCSB SJP "Other modification" 2020-06-01 RCSB ##