data_PRDCC_002309 # _chem_comp.id PRD_002309 _chem_comp.name "N2-(phenylacetyl)-D-lysyl-D-lysyl-D-arginine" _chem_comp.formula "C26 H45 N8 O5" _chem_comp.formula_weight 549.686 _chem_comp.pdbx_release_status REF_ONLY _chem_comp.type peptide-like _chem_comp.pdbx_type ? _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge ? _chem_comp.pdbx_initial_date ? _chem_comp.pdbx_modified_date ? _chem_comp.pdbx_ambiguous_flag ? _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.one_letter_code ? _chem_comp.three_letter_code ? _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag ? _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag ? _chem_comp.pdbx_model_coordinates_db_code ? _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site ? # 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_comp_id _chem_comp_atom.pdbx_residue_numbering _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_polymer_type _chem_comp_atom.pdbx_ref_id _chem_comp_atom.pdbx_component_id _chem_comp_atom.pdbx_ordinal _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag PRD_002309 C1 C1 C 0 1 N N N -5.099 0.927 -11.061 4.530 -0.075 0.786 PAC 1 C1 polymer 1 1 1 ? ? ? PRD_002309 C2 C2 C 0 1 N N N -4.526 2.328 -10.838 5.472 -0.376 1.923 PAC 1 C2 polymer 1 1 2 ? ? ? PRD_002309 C3 C3 C 0 1 Y N N -3.453 2.396 -9.764 6.892 -0.364 1.417 PAC 1 "C1'" polymer 1 1 3 ? ? ? PRD_002309 C4 C4 C 0 1 Y N N -3.729 3.023 -8.565 7.620 0.810 1.430 PAC 1 "C2'" polymer 1 1 4 ? ? ? PRD_002309 C5 C5 C 0 1 Y N N -2.752 3.089 -7.587 8.922 0.821 0.965 PAC 1 "C3'" polymer 1 1 5 ? ? ? PRD_002309 C6 C6 C 0 1 Y N N -1.503 2.531 -7.813 9.495 -0.343 0.487 PAC 1 "C4'" polymer 1 1 6 ? ? ? PRD_002309 C7 C7 C 0 1 Y N N -1.235 1.903 -9.018 8.767 -1.517 0.475 PAC 1 "C5'" polymer 1 1 7 ? ? ? PRD_002309 C8 C8 C 0 1 Y N N -2.209 1.843 -9.999 7.466 -1.529 0.944 PAC 1 "C6'" polymer 1 1 8 ? ? ? PRD_002309 O1 O1 O 0 1 N N N -5.382 0.218 -10.152 4.968 0.130 -0.326 PAC 1 O1 polymer 1 1 9 ? ? ? PRD_002309 N1 N1 N 0 1 N N N -5.315 0.522 -12.438 3.201 -0.038 1.005 DLY 2 N polymer 1 1 10 ? ? ? PRD_002309 C9 C9 C 0 1 N N R -5.875 -0.742 -12.889 2.285 0.255 -0.101 DLY 2 CA polymer 1 1 11 ? ? ? PRD_002309 C10 C10 C 0 1 N N N -5.180 -2.011 -12.389 0.932 -0.339 0.197 DLY 2 C polymer 1 1 12 ? ? ? PRD_002309 O2 O2 O 0 1 N N N -5.838 -2.836 -11.864 0.751 -0.947 1.231 DLY 2 O polymer 1 1 13 ? ? ? PRD_002309 C11 C11 C 0 1 N N N -7.331 -0.781 -12.437 2.152 1.770 -0.265 DLY 2 CB polymer 1 1 14 ? ? ? PRD_002309 C12 C12 C 0 1 N N N -8.114 0.349 -13.092 3.500 2.358 -0.689 DLY 2 CG polymer 1 1 15 ? ? ? PRD_002309 C13 C13 C 0 1 N N N -9.145 -0.250 -14.048 3.367 3.873 -0.853 DLY 2 CD polymer 1 1 16 ? ? ? PRD_002309 C14 C14 C 0 1 N N N -9.291 0.657 -15.271 4.714 4.460 -1.278 DLY 2 CE polymer 1 1 17 ? ? ? PRD_002309 N2 N2 N 0 1 N N N -10.560 0.422 -15.930 4.587 5.915 -1.435 DLY 2 NZ polymer 1 1 18 ? ? ? PRD_002309 N3 N3 N 0 1 N N N -3.780 -2.326 -12.582 -0.076 -0.194 -0.685 DLY 3 N polymer 1 1 19 ? ? ? PRD_002309 C15 C15 C 0 1 N N R -2.787 -1.491 -13.217 -1.391 -0.771 -0.396 DLY 3 CA polymer 1 1 20 ? ? ? PRD_002309 C16 C16 C 0 1 N N N -1.627 -1.477 -12.233 -2.451 -0.006 -1.146 DLY 3 C polymer 1 1 21 ? ? ? PRD_002309 O3 O3 O 0 1 N N N -0.976 -0.501 -12.072 -2.139 0.929 -1.852 DLY 3 O polymer 1 1 22 ? ? ? PRD_002309 C17 C17 C 0 1 N N N -2.303 -2.118 -14.526 -1.413 -2.237 -0.835 DLY 3 CB polymer 1 1 23 ? ? ? PRD_002309 C18 C18 C 0 1 N N N -3.386 -2.935 -15.232 -0.424 -3.038 0.014 DLY 3 CG polymer 1 1 24 ? ? ? PRD_002309 C19 C19 C 0 1 N N N -3.037 -3.022 -16.720 -0.445 -4.503 -0.425 DLY 3 CD polymer 1 1 25 ? ? ? PRD_002309 C20 C20 C 0 1 N N N -3.834 -4.129 -17.401 0.544 -5.304 0.424 DLY 3 CE polymer 1 1 26 ? ? ? PRD_002309 N4 N4 N 0 1 N N N -3.862 -3.868 -18.829 0.523 -6.712 0.002 DLY 3 NZ polymer 1 1 27 ? ? ? PRD_002309 N5 N5 N 0 1 N N N -1.398 -2.703 -11.487 -3.746 -0.361 -1.031 DAR 4 N polymer 1 1 28 ? ? ? PRD_002309 C21 C21 C 0 1 N N R -0.356 -2.911 -10.493 -4.777 0.382 -1.760 DAR 4 CA polymer 1 1 29 ? ? ? PRD_002309 C22 C22 C 0 1 N N N -0.537 -1.961 -9.311 -6.117 0.239 -1.036 DAR 4 CB polymer 1 1 30 ? ? ? PRD_002309 C23 C23 C 0 1 N N N -1.845 -2.281 -8.592 -6.030 0.909 0.336 DAR 4 CG polymer 1 1 31 ? ? ? PRD_002309 C24 C24 C 0 1 N N N -2.027 -1.244 -7.492 -7.370 0.765 1.060 DAR 4 CD polymer 1 1 32 ? ? ? PRD_002309 N6 N6 N 0 1 N N N -3.276 -0.514 -7.608 -7.286 1.407 2.375 DAR 4 NE polymer 1 1 33 ? ? ? PRD_002309 C25 C25 C 0 1 N N N -3.814 -0.100 -6.562 -8.372 1.405 3.207 DAR 4 CZ polymer 1 1 34 ? ? ? PRD_002309 N7 N7 N 0 1 N N N -3.187 -0.368 -5.287 -9.505 0.821 2.822 DAR 4 NH1 polymer 1 1 35 ? ? ? PRD_002309 N8 N8 N 1 1 N N N -5.054 0.640 -6.609 -8.296 1.988 4.402 DAR 4 NH2 polymer 1 1 36 ? ? ? PRD_002309 C26 C26 C 0 1 N N N 1.042 -2.779 -11.106 -4.899 -0.169 -3.158 DAR 4 C polymer 1 1 37 ? ? ? PRD_002309 O4 O4 O 0 1 N N N 2.066 -2.945 -10.391 -4.198 -1.087 -3.509 DAR 4 O polymer 1 1 38 ? ? ? PRD_002309 O5 O5 O 0 1 N Y N 1.177 -2.529 -12.331 -5.788 0.362 -4.013 DAR 4 OXT polymer 1 1 39 ? ? ? PRD_002309 H1 H1 H 0 1 N N N -4.089 2.677 -11.785 5.358 0.379 2.701 PAC 1 H21 polymer 1 1 40 ? ? ? PRD_002309 H2 H2 H 0 1 N N N -5.350 2.996 -10.546 5.242 -1.359 2.336 PAC 1 H22 polymer 1 1 41 ? ? ? PRD_002309 H3 H3 H 0 1 N N N -4.702 3.459 -8.391 7.173 1.719 1.803 PAC 1 "H2'" polymer 1 1 42 ? ? ? PRD_002309 H4 H4 H 0 1 N N N -2.963 3.576 -6.646 9.491 1.739 0.974 PAC 1 "H3'" polymer 1 1 43 ? ? ? PRD_002309 H5 H5 H 0 1 N N N -0.740 2.586 -7.050 10.512 -0.334 0.123 PAC 1 "H4'" polymer 1 1 44 ? ? ? PRD_002309 H6 H6 H 0 1 N N N -0.266 1.460 -9.192 9.215 -2.427 0.101 PAC 1 "H5'" polymer 1 1 45 ? ? ? PRD_002309 H7 H7 H 0 1 N N N -1.998 1.366 -10.945 6.899 -2.448 0.938 PAC 1 "H6'" polymer 1 1 46 ? ? ? PRD_002309 H8 H8 H 0 1 N N N -5.053 1.177 -13.147 2.851 -0.205 1.894 DLY 2 H polymer 1 1 47 ? ? ? PRD_002309 H9 H9 H 0 1 N N N -5.862 -0.763 -13.989 2.677 -0.177 -1.021 DLY 2 HA polymer 1 1 48 ? ? ? PRD_002309 H10 H10 H 0 1 N N N -7.775 -1.745 -12.724 1.404 1.989 -1.027 DLY 2 HB2 polymer 1 1 49 ? ? ? PRD_002309 H11 H11 H 0 1 N N N -7.375 -0.668 -11.344 1.845 2.213 0.683 DLY 2 HB3 polymer 1 1 50 ? ? ? PRD_002309 H12 H12 H 0 1 N N N -8.627 0.939 -12.318 4.248 2.139 0.073 DLY 2 HG2 polymer 1 1 51 ? ? ? PRD_002309 H13 H13 H 0 1 N N N -7.425 0.999 -13.652 3.807 1.915 -1.637 DLY 2 HG3 polymer 1 1 52 ? ? ? PRD_002309 H14 H14 H 0 1 N N N -8.812 -1.248 -14.369 2.619 4.092 -1.615 DLY 2 HD2 polymer 1 1 53 ? ? ? PRD_002309 H15 H15 H 0 1 N N N -10.115 -0.334 -13.536 3.060 4.315 0.095 DLY 2 HD3 polymer 1 1 54 ? ? ? PRD_002309 H16 H16 H 0 1 N N N -9.239 1.708 -14.950 5.462 4.241 -0.515 DLY 2 HE2 polymer 1 1 55 ? ? ? PRD_002309 H17 H17 H 0 1 N N N -8.473 0.448 -15.976 5.021 4.018 -2.225 DLY 2 HE3 polymer 1 1 56 ? ? ? PRD_002309 H18 H18 H 0 1 N N N -10.639 1.022 -16.726 4.241 6.341 -0.588 DLY 2 HZ1 polymer 1 1 57 ? ? ? PRD_002309 H19 H19 H 0 1 N N N -10.610 -0.532 -16.226 5.464 6.327 -1.715 DLY 2 HZ2 polymer 1 1 58 ? ? ? PRD_002309 H20 H20 H 0 1 N N N -3.469 -3.213 -12.241 0.069 0.292 -1.512 DLY 3 H polymer 1 1 59 ? ? ? PRD_002309 H21 H21 H 0 1 N N N -3.161 -0.471 -13.392 -1.587 -0.709 0.675 DLY 3 HA polymer 1 1 60 ? ? ? PRD_002309 H22 H22 H 0 1 N N N -1.975 -1.313 -15.200 -2.416 -2.641 -0.702 DLY 3 HB2 polymer 1 1 61 ? ? ? PRD_002309 H23 H23 H 0 1 N N N -1.453 -2.780 -14.305 -1.130 -2.306 -1.885 DLY 3 HB3 polymer 1 1 62 ? ? ? PRD_002309 H24 H24 H 0 1 N N N -3.428 -3.946 -14.801 0.580 -2.633 -0.119 DLY 3 HG2 polymer 1 1 63 ? ? ? PRD_002309 H25 H25 H 0 1 N N N -4.362 -2.443 -15.108 -0.707 -2.969 1.064 DLY 3 HG3 polymer 1 1 64 ? ? ? PRD_002309 H26 H26 H 0 1 N N N -3.271 -2.061 -17.202 -1.449 -4.908 -0.292 DLY 3 HD2 polymer 1 1 65 ? ? ? PRD_002309 H27 H27 H 0 1 N N N -1.963 -3.234 -16.826 -0.162 -4.572 -1.475 DLY 3 HD3 polymer 1 1 66 ? ? ? PRD_002309 H28 H28 H 0 1 N N N -3.355 -5.101 -17.211 1.548 -4.900 0.291 DLY 3 HE2 polymer 1 1 67 ? ? ? PRD_002309 H29 H29 H 0 1 N N N -4.861 -4.143 -17.007 0.261 -5.235 1.474 DLY 3 HE3 polymer 1 1 68 ? ? ? PRD_002309 H30 H30 H 0 1 N N N -4.382 -4.587 -19.290 1.169 -7.262 0.549 DLY 3 HZ1 polymer 1 1 69 ? ? ? PRD_002309 H31 H31 H 0 1 N N N -4.296 -2.983 -18.998 -0.410 -7.091 0.055 DLY 3 HZ2 polymer 1 1 70 ? ? ? PRD_002309 H32 H32 H 0 1 N N N -2.010 -3.471 -11.673 -3.996 -1.109 -0.466 DAR 4 H polymer 1 1 71 ? ? ? PRD_002309 H33 H33 H 0 1 N N N -0.448 -3.937 -10.107 -4.500 1.435 -1.808 DAR 4 HA polymer 1 1 72 ? ? ? PRD_002309 H34 H34 H 0 1 N N N 0.304 -2.082 -8.612 -6.901 0.716 -1.625 DAR 4 HB2 polymer 1 1 73 ? ? ? PRD_002309 H35 H35 H 0 1 N N N -0.564 -0.924 -9.676 -6.351 -0.819 -0.910 DAR 4 HB3 polymer 1 1 74 ? ? ? PRD_002309 H36 H36 H 0 1 N N N -2.685 -2.229 -9.300 -5.246 0.431 0.924 DAR 4 HG2 polymer 1 1 75 ? ? ? PRD_002309 H37 H37 H 0 1 N N N -1.796 -3.289 -8.154 -5.796 1.966 0.210 DAR 4 HG3 polymer 1 1 76 ? ? ? PRD_002309 H38 H38 H 0 1 N N N -2.009 -1.757 -6.519 -8.154 1.243 0.472 DAR 4 HD2 polymer 1 1 77 ? ? ? PRD_002309 H39 H39 H 0 1 N N N -1.195 -0.527 -7.544 -7.604 -0.292 1.186 DAR 4 HD3 polymer 1 1 78 ? ? ? PRD_002309 H40 H40 H 0 1 N N N -3.693 -0.348 -8.501 -6.461 1.833 2.655 DAR 4 HE polymer 1 1 79 ? ? ? PRD_002309 H41 H41 H 0 0 N N N -3.612 -0.042 -4.443 -9.561 0.396 1.952 DAR 4 HH11 polymer 1 1 80 ? ? ? PRD_002309 H42 H42 H 0 0 N N N -2.329 -0.880 -5.250 -10.275 0.819 3.412 DAR 4 HH12 polymer 1 1 81 ? ? ? PRD_002309 H43 H43 H 0 0 N N N -5.475 0.964 -5.762 -7.470 2.414 4.682 DAR 4 HH21 polymer 1 1 82 ? ? ? PRD_002309 H44 H44 H 0 0 N N N -5.491 0.828 -7.489 -9.065 1.987 4.992 DAR 4 HH22 polymer 1 1 83 ? ? ? PRD_002309 H45 H45 H 0 1 N Y N 2.101 -2.501 -12.549 -5.830 -0.024 -4.898 DAR 4 HXT polymer 1 1 84 ? ? ? # 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 PRD_002309 C1 C2 SING N N 1 PRD_002309 C1 O1 DOUB N N 2 PRD_002309 C2 C3 SING N N 3 PRD_002309 C2 H1 SING N N 4 PRD_002309 C2 H2 SING N N 5 PRD_002309 C3 C4 DOUB Y N 6 PRD_002309 C3 C8 SING Y N 7 PRD_002309 C4 C5 SING Y N 8 PRD_002309 C4 H3 SING N N 9 PRD_002309 C5 C6 DOUB Y N 10 PRD_002309 C5 H4 SING N N 11 PRD_002309 C6 C7 SING Y N 12 PRD_002309 C6 H5 SING N N 13 PRD_002309 C7 C8 DOUB Y N 14 PRD_002309 C7 H6 SING N N 15 PRD_002309 C8 H7 SING N N 16 PRD_002309 N1 C9 SING N N 17 PRD_002309 N1 H8 SING N N 18 PRD_002309 C9 C10 SING N N 19 PRD_002309 C9 C11 SING N N 20 PRD_002309 C9 H9 SING N N 21 PRD_002309 C10 O2 DOUB N N 22 PRD_002309 C11 C12 SING N N 23 PRD_002309 C11 H10 SING N N 24 PRD_002309 C11 H11 SING N N 25 PRD_002309 C12 C13 SING N N 26 PRD_002309 C12 H12 SING N N 27 PRD_002309 C12 H13 SING N N 28 PRD_002309 C13 C14 SING N N 29 PRD_002309 C13 H14 SING N N 30 PRD_002309 C13 H15 SING N N 31 PRD_002309 C14 N2 SING N N 32 PRD_002309 C14 H16 SING N N 33 PRD_002309 C14 H17 SING N N 34 PRD_002309 N2 H18 SING N N 35 PRD_002309 N2 H19 SING N N 36 PRD_002309 N3 C15 SING N N 37 PRD_002309 N3 H20 SING N N 38 PRD_002309 C15 C16 SING N N 39 PRD_002309 C15 C17 SING N N 40 PRD_002309 C15 H21 SING N N 41 PRD_002309 C16 O3 DOUB N N 42 PRD_002309 C17 C18 SING N N 43 PRD_002309 C17 H22 SING N N 44 PRD_002309 C17 H23 SING N N 45 PRD_002309 C18 C19 SING N N 46 PRD_002309 C18 H24 SING N N 47 PRD_002309 C18 H25 SING N N 48 PRD_002309 C19 C20 SING N N 49 PRD_002309 C19 H26 SING N N 50 PRD_002309 C19 H27 SING N N 51 PRD_002309 C20 N4 SING N N 52 PRD_002309 C20 H28 SING N N 53 PRD_002309 C20 H29 SING N N 54 PRD_002309 N4 H30 SING N N 55 PRD_002309 N4 H31 SING N N 56 PRD_002309 N5 C21 SING N N 57 PRD_002309 N5 H32 SING N N 58 PRD_002309 C21 C22 SING N N 59 PRD_002309 C21 C26 SING N N 60 PRD_002309 C21 H33 SING N N 61 PRD_002309 C22 C23 SING N N 62 PRD_002309 C22 H34 SING N N 63 PRD_002309 C22 H35 SING N N 64 PRD_002309 C23 C24 SING N N 65 PRD_002309 C23 H36 SING N N 66 PRD_002309 C23 H37 SING N N 67 PRD_002309 C24 N6 SING N N 68 PRD_002309 C24 H38 SING N N 69 PRD_002309 C24 H39 SING N N 70 PRD_002309 N6 C25 SING N N 71 PRD_002309 N6 H40 SING N N 72 PRD_002309 C25 N7 SING N N 73 PRD_002309 C25 N8 DOUB N N 74 PRD_002309 N7 H41 SING N N 75 PRD_002309 N7 H42 SING N N 76 PRD_002309 N8 H43 SING N N 77 PRD_002309 N8 H44 SING N N 78 PRD_002309 C26 O4 DOUB N N 79 PRD_002309 C26 O5 SING N N 80 PRD_002309 O5 H45 SING N N 81 PRD_002309 C1 N1 SING N N 82 PRD_002309 C10 N3 SING N N 83 PRD_002309 C16 N5 SING N N 84 # 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 PRD_002309 InChI InChI 1.06 "InChI=1S/C26H44N8O5/c27-14-6-4-11-19(32-22(35)17-18-9-2-1-3-10-18)23(36)33-20(12-5-7-15-28)24(37)34-21(25(38)39)13-8-16-31-26(29)30/h1-3,9-10,19-21H,4-8,11-17,27-28H2,(H,32,35)(H,33,36)(H,34,37)(H,38,39)(H4,29,30,31)/p+1/t19-,20-,21-/m1/s1" PRD_002309 InChIKey InChI 1.06 XHVGUCXLWRVFJQ-NJDAHSKKSA-O PRD_002309 SMILES_CANONICAL CACTVS 3.385 "NCCCC[C@@H](NC(=O)Cc1ccccc1)C(=O)N[C@H](CCCCN)C(=O)N[C@H](CCCNC(N)=[NH2+])C(O)=O" PRD_002309 SMILES CACTVS 3.385 "NCCCC[CH](NC(=O)Cc1ccccc1)C(=O)N[CH](CCCCN)C(=O)N[CH](CCCNC(N)=[NH2+])C(O)=O" PRD_002309 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC(=O)N[C@H](CCCCN)C(=O)N[C@H](CCCCN)C(=O)N[C@H](CCCNC(=[NH2+])N)C(=O)O" PRD_002309 SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC(=O)NC(CCCCN)C(=O)NC(CCCCN)C(=O)NC(CCCNC(=[NH2+])N)C(=O)O" # _pdbx_chem_comp_identifier.comp_id PRD_002309 _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 "[azanyl-[[(4~{R})-4-[[(2~{R})-6-azanyl-2-[[(2~{R})-6-azanyl-2-(2-phenylethanoylamino)hexanoyl]amino]hexanoyl]amino]-5-oxidanyl-5-oxidanylidene-pentyl]amino]methylidene]azanium" #