data_KPO # _chem_comp.id KPO _chem_comp.name "1-[(8~{R},15~{S},18~{S})-15-(4-azanylbutyl)-18-(naphthalen-2-ylmethyl)-4,7,14,17,20-pentakis(oxidanylidene)-3,6,13,16,19-pentazabicyclo[20.3.1]hexacosa-1(25),22(26),23-trien-8-yl]guanidine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C37 H49 N9 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-06-01 _chem_comp.pdbx_modified_date 2023-06-09 _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 699.842 _chem_comp.one_letter_code ? _chem_comp.three_letter_code KPO _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 8A15 _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 KPO N1 N1 N 0 1 N N N 5.582 -10.677 2.813 7.611 4.868 -0.304 N1 KPO 1 KPO C7 C1 C 0 1 N N N -0.864 -14.600 3.571 -1.448 2.454 -1.365 C7 KPO 2 KPO C8 C2 C 0 1 N N S -1.646 -13.553 2.772 -2.631 1.574 -1.679 C8 KPO 3 KPO N2 N2 N 0 1 N N N 6.903 -10.362 4.781 6.593 3.032 -1.291 N2 KPO 4 KPO C9 C3 C 0 1 N N N -2.395 -14.184 1.590 -3.911 2.238 -1.168 C9 KPO 5 KPO O1 O1 O 0 1 N N N 6.680 -15.971 0.573 6.461 -1.214 -0.169 O1 KPO 6 KPO C1 C4 C 0 1 N N R 4.089 -12.673 4.269 4.305 3.417 0.269 C1 KPO 7 KPO C5 C5 C 0 1 N N N 1.238 -14.504 6.191 0.734 3.521 0.034 C5 KPO 8 KPO C6 C6 C 0 1 N N N -0.031 -15.230 5.802 -0.459 4.404 -0.336 C6 KPO 9 KPO N3 N3 N 0 1 N N N -0.871 -14.449 4.897 -1.636 3.544 -0.569 N3 KPO 10 KPO C4 C7 C 0 1 N N N 2.080 -14.065 5.010 2.032 4.186 -0.427 C4 KPO 11 KPO O4 O2 O 0 1 N N N -0.229 -15.495 3.002 -0.350 2.194 -1.808 O4 KPO 12 KPO C3 C8 C 0 1 N N N 3.278 -13.249 5.430 3.049 4.168 0.716 C3 KPO 13 KPO O3 O3 O 0 1 N N N -1.571 -10.804 3.465 -2.075 -0.642 -3.027 O3 KPO 14 KPO C2 C9 C 0 1 N N N 5.916 -10.920 4.128 6.576 4.082 -0.403 C2 KPO 15 KPO N4 N4 N 0 1 N N N -6.244 -10.940 0.915 -8.843 1.878 -1.022 N4 KPO 16 KPO N N5 N 0 1 N N N 5.160 -11.869 4.829 5.468 4.301 0.380 N KPO 17 KPO C C10 C 0 1 N N N 4.593 -13.783 3.343 4.508 2.207 1.147 C KPO 18 KPO O O4 O 0 1 N N N 3.924 -14.143 2.381 4.067 2.178 2.276 O KPO 19 KPO C10 C11 C 0 1 N N N -3.140 -13.159 0.711 -5.122 1.407 -1.595 C10 KPO 20 KPO C11 C12 C 0 1 N N N -4.366 -12.523 1.351 -6.403 2.071 -1.084 C11 KPO 21 KPO C12 C13 C 0 1 N N N -4.917 -11.413 0.476 -7.614 1.240 -1.512 C12 KPO 22 KPO C13 C14 C 0 1 N N N -0.816 -11.242 2.597 -2.190 -0.794 -1.829 C13 KPO 23 KPO C14 C15 C 0 1 N N S 0.048 -10.286 1.771 -2.040 -2.160 -1.210 C14 KPO 24 KPO C15 C16 C 0 1 N N N -0.845 -9.240 1.071 -1.618 -2.016 0.254 C15 KPO 25 KPO C16 C17 C 0 1 Y N N -0.124 -8.009 0.581 -2.673 -1.249 1.008 C16 KPO 26 KPO C17 C18 C 0 1 Y N N -0.417 -6.790 1.132 -3.982 -1.598 0.872 C17 KPO 27 KPO C18 C19 C 0 1 Y N N 0.287 -5.616 0.762 -4.968 -0.885 1.574 C18 KPO 28 KPO C19 C20 C 0 1 Y N N 0.011 -4.349 1.336 -6.329 -1.217 1.459 C19 KPO 29 KPO C20 C21 C 0 1 Y N N 0.753 -3.253 0.995 -7.257 -0.504 2.155 C20 KPO 30 KPO C21 C22 C 0 1 Y N N 1.790 -3.359 0.087 -6.878 0.553 2.981 C21 KPO 31 KPO C22 C23 C 0 1 Y N N 2.077 -4.554 -0.508 -5.570 0.902 3.117 C22 KPO 32 KPO C23 C24 C 0 1 Y N N 1.327 -5.719 -0.195 -4.583 0.189 2.415 C23 KPO 33 KPO C24 C25 C 0 1 Y N N 1.569 -6.983 -0.791 -3.222 0.521 2.530 C24 KPO 34 KPO C25 C26 C 0 1 Y N N 0.861 -8.088 -0.409 -2.294 -0.196 1.839 C25 KPO 35 KPO C26 C27 C 0 1 N N N 2.166 -11.074 0.790 -0.311 -3.834 -1.229 C26 KPO 36 KPO C27 C28 C 0 1 N N N 2.793 -11.610 -0.486 0.763 -4.636 -1.922 C27 KPO 37 KPO C28 C29 C 0 1 Y N N 4.286 -11.386 -0.585 1.861 -4.938 -0.934 C28 KPO 38 KPO C29 C30 C 0 1 Y N N 5.175 -12.420 -0.309 2.985 -4.137 -0.880 C29 KPO 39 KPO C30 C31 C 0 1 Y N N 6.551 -12.229 -0.371 3.985 -4.410 0.036 C30 KPO 40 KPO C31 C32 C 0 1 N N N 7.489 -13.352 -0.013 5.212 -3.537 0.098 C31 KPO 41 KPO C32 C33 C 0 1 N N N 6.701 -15.129 1.471 5.632 -1.240 0.716 C32 KPO 42 KPO C33 C34 C 0 1 N N N 6.250 -15.475 2.879 5.366 -0.011 1.549 C33 KPO 43 KPO C34 C35 C 0 1 Y N N 7.035 -10.983 -0.734 3.861 -5.488 0.892 C34 KPO 44 KPO C35 C36 C 0 1 Y N N 6.165 -9.949 -1.013 2.740 -6.295 0.830 C35 KPO 45 KPO C36 C37 C 0 1 Y N N 4.799 -10.148 -0.939 1.740 -6.018 -0.082 C36 KPO 46 KPO N5 N6 N 0 1 N N N -0.715 -12.541 2.299 -2.456 0.268 -1.018 N5 KPO 47 KPO N6 N7 N 0 1 N N N 0.834 -10.977 0.760 -1.006 -2.909 -1.957 N6 KPO 48 KPO N7 N8 N 0 1 N N N 7.142 -13.887 1.294 4.930 -2.378 0.969 N7 KPO 49 KPO N8 N9 N 0 1 N N N 5.765 -14.343 3.647 5.200 1.144 0.637 N8 KPO 50 KPO O2 O5 O 0 1 N N N 2.838 -10.757 1.776 -0.552 -4.006 -0.053 O2 KPO 51 KPO H1 H1 H 0 1 N N N 4.808 -11.235 2.514 7.599 5.609 0.322 H1 KPO 52 KPO H2 H2 H 0 1 N N N -2.384 -13.086 3.441 -2.701 1.430 -2.757 H2 KPO 53 KPO H3 H3 H 0 1 N N N 7.084 -10.620 5.730 7.375 2.877 -1.844 H3 KPO 54 KPO H4 H4 H 0 1 N N N 7.477 -9.678 4.331 5.823 2.447 -1.365 H4 KPO 55 KPO H5 H5 H 0 1 N N N -3.129 -14.900 1.987 -3.879 2.301 -0.080 H5 KPO 56 KPO H6 H6 H 0 1 N N N -1.666 -14.716 0.961 -3.992 3.241 -1.587 H6 KPO 57 KPO H7 H7 H 0 1 N N N 3.424 -12.021 3.683 4.188 3.099 -0.767 H7 KPO 58 KPO H8 H8 H 0 1 N N N 1.843 -15.176 6.817 0.761 3.383 1.115 H8 KPO 59 KPO H9 H9 H 0 1 N N N 0.962 -13.611 6.771 0.632 2.551 -0.453 H9 KPO 60 KPO H10 H10 H 0 1 N N N -0.605 -15.449 6.714 -0.668 5.096 0.479 H10 KPO 61 KPO H11 H11 H 0 1 N N N 0.241 -16.173 5.305 -0.231 4.964 -1.243 H11 KPO 62 KPO H12 H12 H 0 1 N N N -1.484 -13.765 5.292 -2.500 3.745 -0.176 H12 KPO 63 KPO H13 H13 H 0 1 N N N 1.456 -13.457 4.338 2.435 3.643 -1.281 H13 KPO 64 KPO H14 H14 H 0 1 N N N 2.432 -14.959 4.475 1.829 5.218 -0.715 H14 KPO 65 KPO H15 H15 H 0 1 N N N 3.941 -13.893 6.026 2.615 3.666 1.581 H15 KPO 66 KPO H16 H16 H 0 1 N N N 2.924 -12.413 6.051 3.314 5.191 0.984 H16 KPO 67 KPO H17 H17 H 0 1 N N N -6.557 -10.212 0.305 -9.658 1.347 -1.291 H17 KPO 68 KPO H18 H18 H 0 1 N N N -6.894 -11.699 0.889 -8.810 2.006 -0.021 H18 KPO 69 KPO H20 H20 H 0 1 N N N 5.376 -12.004 5.796 5.456 5.042 1.007 H20 KPO 70 KPO H21 H21 H 0 1 N N N -3.463 -13.670 -0.208 -5.155 1.345 -2.683 H21 KPO 71 KPO H22 H22 H 0 1 N N N -2.435 -12.355 0.455 -5.041 0.404 -1.176 H22 KPO 72 KPO H23 H23 H 0 1 N N N -4.086 -12.105 2.329 -6.371 2.134 0.003 H23 KPO 73 KPO H24 H24 H 0 1 N N N -5.141 -13.292 1.488 -6.484 3.074 -1.504 H24 KPO 74 KPO H25 H25 H 0 1 N N N -5.001 -11.788 -0.555 -7.533 0.237 -1.093 H25 KPO 75 KPO H26 H26 H 0 1 N N N -4.216 -10.565 0.502 -7.646 1.178 -2.600 H26 KPO 76 KPO H27 H27 H 0 1 N N N 0.725 -9.754 2.456 -2.990 -2.692 -1.266 H27 KPO 77 KPO H28 H28 H 0 1 N N N -1.619 -8.920 1.784 -1.501 -3.005 0.697 H28 KPO 78 KPO H29 H29 H 0 1 N N N -1.321 -9.723 0.205 -0.671 -1.479 0.308 H29 KPO 79 KPO H30 H30 H 0 1 N N N -1.205 -6.721 1.868 -4.260 -2.419 0.228 H30 KPO 80 KPO H31 H31 H 0 1 N N N -0.793 -4.249 2.050 -6.637 -2.032 0.822 H31 KPO 81 KPO H32 H32 H 0 1 N N N 0.527 -2.295 1.439 -8.302 -0.760 2.065 H32 KPO 82 KPO H33 H33 H 0 1 N N N 2.380 -2.487 -0.154 -7.635 1.102 3.522 H33 KPO 83 KPO H34 H34 H 0 1 N N N 2.883 -4.614 -1.224 -5.291 1.724 3.761 H34 KPO 84 KPO H35 H35 H 0 1 N N N 2.324 -7.074 -1.558 -2.914 1.334 3.170 H35 KPO 85 KPO H36 H36 H 0 1 N N N 1.066 -9.038 -0.880 -1.249 0.061 1.929 H36 KPO 86 KPO H37 H37 H 0 1 N N N 2.312 -11.113 -1.342 0.339 -5.569 -2.293 H37 KPO 87 KPO H38 H38 H 0 1 N N N 2.603 -12.692 -0.536 1.167 -4.062 -2.756 H38 KPO 88 KPO H39 H39 H 0 1 N N N 4.788 -13.392 -0.041 3.084 -3.298 -1.554 H39 KPO 89 KPO H40 H40 H 0 1 N N N 7.409 -14.149 -0.767 6.046 -4.107 0.509 H40 KPO 90 KPO H41 H41 H 0 1 N N N 8.521 -12.972 0.010 5.464 -3.188 -0.903 H41 KPO 91 KPO H42 H42 H 0 1 N N N 5.440 -16.216 2.809 4.456 -0.153 2.132 H42 KPO 92 KPO H43 H43 H 0 1 N N N 7.104 -15.915 3.416 6.208 0.168 2.219 H43 KPO 93 KPO H44 H44 H 0 1 N N N 8.101 -10.820 -0.799 4.639 -5.699 1.610 H44 KPO 94 KPO H45 H45 H 0 1 N N N 6.553 -8.980 -1.290 2.647 -7.142 1.494 H45 KPO 95 KPO H46 H46 H 0 1 N N N 4.126 -9.332 -1.159 0.863 -6.647 -0.128 H46 KPO 96 KPO H47 H47 H 0 1 N N N 0.044 -12.834 1.718 -2.526 0.169 -0.055 H47 KPO 97 KPO H48 H48 H 0 1 N N N 0.348 -11.405 -0.002 -0.833 -2.754 -2.899 H48 KPO 98 KPO H49 H49 H 0 1 N N N 7.239 -13.295 2.094 4.276 -2.425 1.684 H49 KPO 99 KPO H50 H50 H 0 1 N N N 6.310 -13.983 4.404 5.559 1.146 -0.264 H50 KPO 100 # 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 KPO C35 C36 DOUB Y N 1 KPO C35 C34 SING Y N 2 KPO C36 C28 SING Y N 3 KPO C24 C25 DOUB Y N 4 KPO C24 C23 SING Y N 5 KPO C34 C30 DOUB Y N 6 KPO C28 C27 SING N N 7 KPO C28 C29 DOUB Y N 8 KPO C22 C23 DOUB Y N 9 KPO C22 C21 SING Y N 10 KPO C27 C26 SING N N 11 KPO C25 C16 SING Y N 12 KPO C30 C29 SING Y N 13 KPO C30 C31 SING N N 14 KPO C23 C18 SING Y N 15 KPO C31 N7 SING N N 16 KPO C21 C20 DOUB Y N 17 KPO C12 N4 SING N N 18 KPO C12 C11 SING N N 19 KPO O1 C32 DOUB N N 20 KPO C16 C15 SING N N 21 KPO C16 C17 DOUB Y N 22 KPO C10 C11 SING N N 23 KPO C10 C9 SING N N 24 KPO N6 C26 SING N N 25 KPO N6 C14 SING N N 26 KPO C18 C17 SING Y N 27 KPO C18 C19 DOUB Y N 28 KPO C26 O2 DOUB N N 29 KPO C20 C19 SING Y N 30 KPO C15 C14 SING N N 31 KPO N7 C32 SING N N 32 KPO C32 C33 SING N N 33 KPO C9 C8 SING N N 34 KPO C14 C13 SING N N 35 KPO N5 C13 SING N N 36 KPO N5 C8 SING N N 37 KPO O C DOUB N N 38 KPO C13 O3 DOUB N N 39 KPO C8 C7 SING N N 40 KPO N1 C2 DOUB N N 41 KPO C33 N8 SING N N 42 KPO O4 C7 DOUB N N 43 KPO C N8 SING N N 44 KPO C C1 SING N N 45 KPO C7 N3 SING N N 46 KPO C2 N2 SING N N 47 KPO C2 N SING N N 48 KPO C1 N SING N N 49 KPO C1 C3 SING N N 50 KPO N3 C6 SING N N 51 KPO C4 C3 SING N N 52 KPO C4 C5 SING N N 53 KPO C6 C5 SING N N 54 KPO N1 H1 SING N N 55 KPO C8 H2 SING N N 56 KPO N2 H3 SING N N 57 KPO N2 H4 SING N N 58 KPO C9 H5 SING N N 59 KPO C9 H6 SING N N 60 KPO C1 H7 SING N N 61 KPO C5 H8 SING N N 62 KPO C5 H9 SING N N 63 KPO C6 H10 SING N N 64 KPO C6 H11 SING N N 65 KPO N3 H12 SING N N 66 KPO C4 H13 SING N N 67 KPO C4 H14 SING N N 68 KPO C3 H15 SING N N 69 KPO C3 H16 SING N N 70 KPO N4 H17 SING N N 71 KPO N4 H18 SING N N 72 KPO N H20 SING N N 73 KPO C10 H21 SING N N 74 KPO C10 H22 SING N N 75 KPO C11 H23 SING N N 76 KPO C11 H24 SING N N 77 KPO C12 H25 SING N N 78 KPO C12 H26 SING N N 79 KPO C14 H27 SING N N 80 KPO C15 H28 SING N N 81 KPO C15 H29 SING N N 82 KPO C17 H30 SING N N 83 KPO C19 H31 SING N N 84 KPO C20 H32 SING N N 85 KPO C21 H33 SING N N 86 KPO C22 H34 SING N N 87 KPO C24 H35 SING N N 88 KPO C25 H36 SING N N 89 KPO C27 H37 SING N N 90 KPO C27 H38 SING N N 91 KPO C29 H39 SING N N 92 KPO C31 H40 SING N N 93 KPO C31 H41 SING N N 94 KPO C33 H42 SING N N 95 KPO C33 H43 SING N N 96 KPO C34 H44 SING N N 97 KPO C35 H45 SING N N 98 KPO C36 H46 SING N N 99 KPO N5 H47 SING N N 100 KPO N6 H48 SING N N 101 KPO N7 H49 SING N N 102 KPO N8 H50 SING N N 103 # 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 KPO InChI InChI 1.06 "InChI=1S/C37H49N9O5/c38-16-5-3-12-29-34(49)41-17-6-4-13-30(46-37(39)40)35(50)43-23-33(48)42-22-26-9-7-8-24(18-26)21-32(47)44-31(36(51)45-29)20-25-14-15-27-10-1-2-11-28(27)19-25/h1-2,7-11,14-15,18-19,29-31H,3-6,12-13,16-17,20-23,38H2,(H,41,49)(H,42,48)(H,43,50)(H,44,47)(H,45,51)(H4,39,40,46)/t29-,30+,31-/m0/s1" KPO InChIKey InChI 1.06 NLCKEQZZDLBRBR-YPKYBTACSA-N KPO SMILES_CANONICAL CACTVS 3.385 "NCCCC[C@@H]1NC(=O)[C@H](Cc2ccc3ccccc3c2)NC(=O)Cc4cccc(CNC(=O)CNC(=O)[C@@H](CCCCNC1=O)NC(N)=N)c4" KPO SMILES CACTVS 3.385 "NCCCC[CH]1NC(=O)[CH](Cc2ccc3ccccc3c2)NC(=O)Cc4cccc(CNC(=O)CNC(=O)[CH](CCCCNC1=O)NC(N)=N)c4" KPO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/N)\N[C@@H]1CCCCNC(=O)[C@@H](NC(=O)[C@@H](NC(=O)Cc2cccc(c2)CNC(=O)CNC1=O)Cc3ccc4ccccc4c3)CCCCN" KPO SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2cc(ccc2c1)CC3C(=O)NC(C(=O)NCCCCC(C(=O)NCC(=O)NCc4cccc(c4)CC(=O)N3)NC(=N)N)CCCCN" # _pdbx_chem_comp_identifier.comp_id KPO _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 "1-[(8~{R},15~{S},18~{S})-15-(4-azanylbutyl)-18-(naphthalen-2-ylmethyl)-4,7,14,17,20-pentakis(oxidanylidene)-3,6,13,16,19-pentazabicyclo[20.3.1]hexacosa-1(25),22(26),23-trien-8-yl]guanidine" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site KPO "Create component" 2022-06-01 PDBE KPO "Modify descriptor" 2022-08-22 RCSB KPO "Initial release" 2023-06-14 RCSB #