data_PRDCC_001093 # _chem_comp.id PRD_001093 _chem_comp.name "D-phenylalanyl-L-prolyl-N~5~-[amino(iminio)methyl]-D-ornithyl-L-isoleucinamide" _chem_comp.formula "C26 H43 N8 O4" _chem_comp.formula_weight 531.671 _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_001093 N1 N1 N 0 1 N N N 16.576 -24.714 -20.376 4.692 1.579 0.721 DPN 1 N polymer 1 1 1 ? ? ? PRD_001093 C1 C1 C 0 1 N N R 17.893 -24.075 -20.526 4.526 0.209 0.217 DPN 1 CA polymer 1 1 2 ? ? ? PRD_001093 C2 C2 C 0 1 N N N 17.786 -22.590 -20.401 3.177 0.076 -0.441 DPN 1 C polymer 1 1 3 ? ? ? PRD_001093 O1 O1 O 0 1 N N N 17.280 -22.081 -19.403 2.582 1.065 -0.812 DPN 1 O polymer 1 1 4 ? ? ? PRD_001093 C3 C3 C 0 1 N N N 18.848 -24.718 -19.503 5.623 -0.094 -0.805 DPN 1 CB polymer 1 1 5 ? ? ? PRD_001093 C4 C4 C 0 1 Y N N 20.206 -24.079 -19.631 6.966 -0.081 -0.120 DPN 1 CG polymer 1 1 6 ? ? ? PRD_001093 C5 C5 C 0 1 Y N N 20.740 -23.349 -18.573 7.474 -1.244 0.426 DPN 1 CD1 polymer 1 1 7 ? ? ? PRD_001093 C6 C6 C 0 1 Y N N 20.931 -24.203 -20.813 7.691 1.094 -0.043 DPN 1 CD2 polymer 1 1 8 ? ? ? PRD_001093 C7 C7 C 0 1 Y N N 22.003 -22.759 -18.713 8.705 -1.232 1.055 DPN 1 CE1 polymer 1 1 9 ? ? ? PRD_001093 C8 C8 C 0 1 Y N N 22.176 -23.617 -20.951 8.922 1.106 0.586 DPN 1 CE2 polymer 1 1 10 ? ? ? PRD_001093 C9 C9 C 0 1 Y N N 22.728 -22.900 -19.902 9.428 -0.057 1.137 DPN 1 CZ polymer 1 1 11 ? ? ? PRD_001093 N2 N2 N 0 1 N N N 18.247 -21.820 -21.400 2.630 -1.144 -0.615 PRO 2 N polymer 1 1 12 ? ? ? PRD_001093 C10 C10 C 0 1 N N S 18.142 -20.358 -21.235 1.327 -1.418 -1.239 PRO 2 CA polymer 1 1 13 ? ? ? PRD_001093 C11 C11 C 0 1 N N N 16.706 -19.877 -21.158 0.234 -0.724 -0.468 PRO 2 C polymer 1 1 14 ? ? ? PRD_001093 O2 O2 O 0 1 N N N 15.779 -20.523 -21.709 0.509 -0.061 0.511 PRO 2 O polymer 1 1 15 ? ? ? PRD_001093 C12 C12 C 0 1 N N N 18.809 -19.819 -22.515 1.110 -2.945 -1.196 PRO 2 CB polymer 1 1 16 ? ? ? PRD_001093 C13 C13 C 0 1 N N N 18.673 -20.916 -23.507 2.046 -3.397 -0.044 PRO 2 CG polymer 1 1 17 ? ? ? PRD_001093 C14 C14 C 0 1 N N N 18.862 -22.166 -22.710 3.243 -2.425 -0.219 PRO 2 CD polymer 1 1 18 ? ? ? PRD_001093 N3 N3 N 0 1 N N N 16.547 -18.756 -20.455 -1.049 -0.839 -0.865 DAR 3 N polymer 1 1 19 ? ? ? PRD_001093 C15 C15 C 0 1 N N R 15.267 -18.148 -20.265 -2.111 -0.164 -0.115 DAR 3 CA polymer 1 1 20 ? ? ? PRD_001093 C16 C16 C 0 1 N N N 14.502 -18.928 -19.209 -3.435 -0.899 -0.333 DAR 3 CB polymer 1 1 21 ? ? ? PRD_001093 C17 C17 C 0 1 N N N 13.532 -18.104 -18.419 -3.344 -2.303 0.268 DAR 3 CG polymer 1 1 22 ? ? ? PRD_001093 C18 C18 C 0 1 N N N 13.482 -18.445 -16.933 -4.668 -3.038 0.049 DAR 3 CD polymer 1 1 23 ? ? ? PRD_001093 N4 N4 N 0 1 N N N 12.810 -19.721 -16.804 -4.581 -4.382 0.625 DAR 3 NE polymer 1 1 24 ? ? ? PRD_001093 C19 C19 C 0 1 N N N 12.200 -20.103 -15.600 -5.653 -5.229 0.550 DAR 3 CZ polymer 1 1 25 ? ? ? PRD_001093 N5 N5 N 0 1 N N N 12.243 -19.357 -14.547 -6.775 -4.831 -0.046 DAR 3 NH1 polymer 1 1 26 ? ? ? PRD_001093 N6 N6 N 1 1 N N N 11.560 -21.288 -15.607 -5.574 -6.451 1.074 DAR 3 NH2 polymer 1 1 27 ? ? ? PRD_001093 C20 C20 C 0 1 N N N 14.500 -18.021 -21.573 -2.241 1.258 -0.597 DAR 3 C polymer 1 1 28 ? ? ? PRD_001093 O3 O3 O 0 1 N N N 13.279 -18.260 -21.588 -1.517 1.668 -1.480 DAR 3 O polymer 1 1 29 ? ? ? PRD_001093 N7 N7 N 0 1 N N N 15.187 -17.670 -22.673 -3.161 2.075 -0.047 ILE 4 N polymer 1 1 30 ? ? ? PRD_001093 C21 C21 C 0 1 N N S 14.549 -17.498 -24.018 -3.287 3.457 -0.515 ILE 4 CA polymer 1 1 31 ? ? ? PRD_001093 C22 C22 C 0 1 N N N 13.906 -18.783 -24.541 -2.293 4.326 0.211 ILE 4 C polymer 1 1 32 ? ? ? PRD_001093 O4 O4 O 0 1 N N N 13.065 -18.724 -25.461 -1.819 3.956 1.265 ILE 4 O polymer 1 1 33 ? ? ? PRD_001093 C23 C23 C 0 1 N N S 15.506 -16.855 -25.033 -4.704 3.963 -0.238 ILE 4 CB polymer 1 1 34 ? ? ? PRD_001093 C24 C24 C 0 1 N N N 16.789 -17.705 -25.146 -5.011 3.827 1.255 ILE 4 CG1 polymer 1 1 35 ? ? ? PRD_001093 C25 C25 C 0 1 N N N 15.756 -15.409 -24.696 -5.708 3.134 -1.042 ILE 4 CG2 polymer 1 1 36 ? ? ? PRD_001093 C26 C26 C 0 1 N N N 17.721 -17.354 -26.304 -6.369 4.464 1.557 ILE 4 CD1 polymer 1 1 37 ? ? ? PRD_001093 N8 N8 N 0 1 N N N 14.266 -20.072 -24.004 -1.929 5.515 -0.310 NH2 5 N polymer 1 1 38 ? ? ? PRD_001093 H1 H1 H 0 1 N N N 16.674 -25.705 -20.463 5.562 1.677 1.223 DPN 1 H polymer 1 1 39 ? ? ? PRD_001093 H2 H2 H 0 1 N Y N 16.200 -24.494 -19.476 4.629 2.251 -0.030 DPN 1 H2 polymer 1 1 40 ? ? ? PRD_001093 H3 H3 H 0 1 N N N 18.278 -24.306 -21.530 4.597 -0.494 1.046 DPN 1 HA polymer 1 1 41 ? ? ? PRD_001093 H4 H4 H 0 1 N N N 18.460 -24.559 -18.486 5.450 -1.076 -1.245 DPN 1 HB2 polymer 1 1 42 ? ? ? PRD_001093 H5 H5 H 0 1 N N N 18.928 -25.797 -19.701 5.609 0.663 -1.590 DPN 1 HB3 polymer 1 1 43 ? ? ? PRD_001093 H6 H6 H 0 1 N N N 20.186 -23.238 -17.653 6.910 -2.163 0.363 DPN 1 HD1 polymer 1 1 44 ? ? ? PRD_001093 H7 H7 H 0 1 N N N 20.514 -24.766 -21.635 7.296 2.001 -0.474 DPN 1 HD2 polymer 1 1 45 ? ? ? PRD_001093 H8 H8 H 0 1 N N N 22.421 -22.190 -17.896 9.102 -2.141 1.483 DPN 1 HE1 polymer 1 1 46 ? ? ? PRD_001093 H9 H9 H 0 1 N N N 22.719 -23.719 -21.879 9.489 2.023 0.646 DPN 1 HE2 polymer 1 1 47 ? ? ? PRD_001093 H10 H10 H 0 1 N N N 23.707 -22.455 -20.001 10.390 -0.047 1.628 DPN 1 HZ polymer 1 1 48 ? ? ? PRD_001093 H11 H11 H 0 1 N N N 18.704 -20.023 -20.350 1.330 -1.070 -2.272 PRO 2 HA polymer 1 1 49 ? ? ? PRD_001093 H12 H12 H 0 1 N N N 18.295 -18.913 -22.867 0.072 -3.181 -0.965 PRO 2 HB2 polymer 1 1 50 ? ? ? PRD_001093 H13 H13 H 0 1 N N N 19.870 -19.591 -22.332 1.410 -3.403 -2.139 PRO 2 HB3 polymer 1 1 51 ? ? ? PRD_001093 H14 H14 H 0 1 N N N 17.676 -20.898 -23.972 1.566 -3.261 0.925 PRO 2 HG2 polymer 1 1 52 ? ? ? PRD_001093 H15 H15 H 0 1 N N N 19.444 -20.832 -24.288 2.362 -4.431 -0.180 PRO 2 HG3 polymer 1 1 53 ? ? ? PRD_001093 H16 H16 H 0 1 N N N 19.930 -22.405 -22.595 3.914 -2.782 -1.000 PRO 2 HD2 polymer 1 1 54 ? ? ? PRD_001093 H17 H17 H 0 1 N N N 18.344 -23.016 -23.178 3.780 -2.313 0.723 PRO 2 HD3 polymer 1 1 55 ? ? ? PRD_001093 H18 H18 H 0 1 N N N 17.351 -18.325 -20.046 -1.268 -1.368 -1.647 DAR 3 H polymer 1 1 56 ? ? ? PRD_001093 H19 H19 H 0 1 N N N 15.419 -17.131 -19.875 -1.865 -0.167 0.947 DAR 3 HA polymer 1 1 57 ? ? ? PRD_001093 H20 H20 H 0 1 N N N 13.943 -19.732 -19.711 -4.241 -0.347 0.151 DAR 3 HB2 polymer 1 1 58 ? ? ? PRD_001093 H21 H21 H 0 1 N N N 15.229 -19.368 -18.511 -3.637 -0.974 -1.402 DAR 3 HB3 polymer 1 1 59 ? ? ? PRD_001093 H22 H22 H 0 1 N N N 13.816 -17.046 -18.520 -2.539 -2.854 -0.217 DAR 3 HG2 polymer 1 1 60 ? ? ? PRD_001093 H23 H23 H 0 1 N N N 12.528 -18.256 -18.841 -3.142 -2.228 1.336 DAR 3 HG3 polymer 1 1 61 ? ? ? PRD_001093 H24 H24 H 0 1 N N N 14.503 -18.515 -16.529 -5.474 -2.486 0.534 DAR 3 HD2 polymer 1 1 62 ? ? ? PRD_001093 H25 H25 H 0 1 N N N 12.924 -17.669 -16.388 -4.871 -3.112 -1.019 DAR 3 HD3 polymer 1 1 63 ? ? ? PRD_001093 H26 H26 H 0 1 N N N 12.780 -20.341 -17.588 -3.764 -4.672 1.060 DAR 3 HE polymer 1 1 64 ? ? ? PRD_001093 H27 H27 H 0 0 N N N 11.793 -19.654 -13.705 -6.833 -3.941 -0.428 DAR 3 HH11 polymer 1 1 65 ? ? ? PRD_001093 H28 H28 H 0 0 N N N 12.726 -18.482 -14.574 -7.535 -5.432 -0.100 DAR 3 HH12 polymer 1 1 66 ? ? ? PRD_001093 H29 H29 H 0 0 N N N 11.100 -21.613 -14.781 -6.334 -7.052 1.020 DAR 3 HH21 polymer 1 1 67 ? ? ? PRD_001093 H30 H30 H 0 0 N N N 11.545 -21.843 -16.439 -4.756 -6.741 1.508 DAR 3 HH22 polymer 1 1 68 ? ? ? PRD_001093 H31 H31 H 0 1 N N N 16.172 -17.516 -22.590 -3.740 1.747 0.659 ILE 4 H polymer 1 1 69 ? ? ? PRD_001093 H32 H32 H 0 1 N N N 13.726 -16.781 -23.881 -3.090 3.497 -1.587 ILE 4 HA polymer 1 1 70 ? ? ? PRD_001093 H33 H33 H 0 1 N N N 15.009 -16.886 -26.014 -4.780 5.010 -0.530 ILE 4 HB polymer 1 1 71 ? ? ? PRD_001093 H34 H34 H 0 0 N N N 17.355 -17.587 -24.210 -5.037 2.771 1.526 ILE 4 HG12 polymer 1 1 72 ? ? ? PRD_001093 H35 H35 H 0 0 N N N 16.488 -18.756 -25.263 -4.236 4.331 1.833 ILE 4 HG13 polymer 1 1 73 ? ? ? PRD_001093 H36 H36 H 0 0 N N N 16.443 -14.973 -25.436 -5.631 2.087 -0.749 ILE 4 HG21 polymer 1 1 74 ? ? ? PRD_001093 H37 H37 H 0 0 N N N 14.803 -14.859 -24.711 -6.717 3.494 -0.845 ILE 4 HG22 polymer 1 1 75 ? ? ? PRD_001093 H38 H38 H 0 0 N N N 16.204 -15.338 -23.694 -5.489 3.231 -2.106 ILE 4 HG23 polymer 1 1 76 ? ? ? PRD_001093 H39 H39 H 0 0 N N N 18.596 -18.020 -26.286 -6.587 4.367 2.620 ILE 4 HD11 polymer 1 1 77 ? ? ? PRD_001093 H40 H40 H 0 0 N N N 17.185 -17.479 -27.257 -6.343 5.520 1.286 ILE 4 HD12 polymer 1 1 78 ? ? ? PRD_001093 H41 H41 H 0 0 N N N 18.053 -16.310 -26.204 -7.143 3.960 0.979 ILE 4 HD13 polymer 1 1 79 ? ? ? PRD_001093 H42 H42 H 0 1 N N N 13.843 -20.901 -24.369 -2.361 5.844 -1.114 NH2 5 HN1 polymer 1 1 80 ? ? ? PRD_001093 H43 H43 H 0 1 N N N 14.938 -20.136 -23.267 -1.236 6.041 0.118 NH2 5 HN2 polymer 1 1 81 ? ? ? # 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_001093 N1 C1 SING N N 1 PRD_001093 N1 H1 SING N N 2 PRD_001093 N1 H2 SING N N 3 PRD_001093 C1 C2 SING N N 4 PRD_001093 C1 C3 SING N N 5 PRD_001093 C1 H3 SING N N 6 PRD_001093 C2 O1 DOUB N N 7 PRD_001093 C3 C4 SING N N 8 PRD_001093 C3 H4 SING N N 9 PRD_001093 C3 H5 SING N N 10 PRD_001093 C4 C5 DOUB Y N 11 PRD_001093 C4 C6 SING Y N 12 PRD_001093 C5 C7 SING Y N 13 PRD_001093 C5 H6 SING N N 14 PRD_001093 C6 C8 DOUB Y N 15 PRD_001093 C6 H7 SING N N 16 PRD_001093 C7 C9 DOUB Y N 17 PRD_001093 C7 H8 SING N N 18 PRD_001093 C8 C9 SING Y N 19 PRD_001093 C8 H9 SING N N 20 PRD_001093 C9 H10 SING N N 21 PRD_001093 N2 C10 SING N N 22 PRD_001093 N2 C14 SING N N 23 PRD_001093 C10 C11 SING N N 24 PRD_001093 C10 C12 SING N N 25 PRD_001093 C10 H11 SING N N 26 PRD_001093 C11 O2 DOUB N N 27 PRD_001093 C12 C13 SING N N 28 PRD_001093 C12 H12 SING N N 29 PRD_001093 C12 H13 SING N N 30 PRD_001093 C13 C14 SING N N 31 PRD_001093 C13 H14 SING N N 32 PRD_001093 C13 H15 SING N N 33 PRD_001093 C14 H16 SING N N 34 PRD_001093 C14 H17 SING N N 35 PRD_001093 N3 C15 SING N N 36 PRD_001093 N3 H18 SING N N 37 PRD_001093 C15 C16 SING N N 38 PRD_001093 C15 C20 SING N N 39 PRD_001093 C15 H19 SING N N 40 PRD_001093 C16 C17 SING N N 41 PRD_001093 C16 H20 SING N N 42 PRD_001093 C16 H21 SING N N 43 PRD_001093 C17 C18 SING N N 44 PRD_001093 C17 H22 SING N N 45 PRD_001093 C17 H23 SING N N 46 PRD_001093 C18 N4 SING N N 47 PRD_001093 C18 H24 SING N N 48 PRD_001093 C18 H25 SING N N 49 PRD_001093 N4 C19 SING N N 50 PRD_001093 N4 H26 SING N N 51 PRD_001093 C19 N5 SING N N 52 PRD_001093 C19 N6 DOUB N N 53 PRD_001093 N5 H27 SING N N 54 PRD_001093 N5 H28 SING N N 55 PRD_001093 N6 H29 SING N N 56 PRD_001093 N6 H30 SING N N 57 PRD_001093 C20 O3 DOUB N N 58 PRD_001093 N7 C21 SING N N 59 PRD_001093 N7 H31 SING N N 60 PRD_001093 C21 C22 SING N N 61 PRD_001093 C21 C23 SING N N 62 PRD_001093 C21 H32 SING N N 63 PRD_001093 C22 O4 DOUB N N 64 PRD_001093 C23 C24 SING N N 65 PRD_001093 C23 C25 SING N N 66 PRD_001093 C23 H33 SING N N 67 PRD_001093 C24 C26 SING N N 68 PRD_001093 C24 H34 SING N N 69 PRD_001093 C24 H35 SING N N 70 PRD_001093 C25 H36 SING N N 71 PRD_001093 C25 H37 SING N N 72 PRD_001093 C25 H38 SING N N 73 PRD_001093 C26 H39 SING N N 74 PRD_001093 C26 H40 SING N N 75 PRD_001093 C26 H41 SING N N 76 PRD_001093 N8 H42 SING N N 77 PRD_001093 N8 H43 SING N N 78 PRD_001093 C2 N2 SING N N 79 PRD_001093 C11 N3 SING N N 80 PRD_001093 C20 N7 SING N N 81 PRD_001093 C22 N8 SING N N 82 # 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_001093 SMILES ACDLabs 12.01 "O=C(NC(C(=O)NC(C(=O)N)C(C)CC)CCCNC(=[NH2+])\N)C2N(C(=O)C(N)Cc1ccccc1)CCC2" PRD_001093 InChI InChI 1.03 "InChI=1S/C26H42N8O4/c1-3-16(2)21(22(28)35)33-23(36)19(11-7-13-31-26(29)30)32-24(37)20-12-8-14-34(20)25(38)18(27)15-17-9-5-4-6-10-17/h4-6,9-10,16,18-21H,3,7-8,11-15,27H2,1-2H3,(H2,28,35)(H,32,37)(H,33,36)(H4,29,30,31)/p+1/t16-,18+,19+,20-,21-/m0/s1" PRD_001093 InChIKey InChI 1.03 VPNBFWCPRFMOSM-MYGYKHERSA-O PRD_001093 SMILES_CANONICAL CACTVS 3.370 "CC[C@H](C)[C@H](NC(=O)[C@@H](CCCNC(N)=[NH2+])NC(=O)[C@@H]1CCCN1C(=O)[C@H](N)Cc2ccccc2)C(N)=O" PRD_001093 SMILES CACTVS 3.370 "CC[CH](C)[CH](NC(=O)[CH](CCCNC(N)=[NH2+])NC(=O)[CH]1CCCN1C(=O)[CH](N)Cc2ccccc2)C(N)=O" PRD_001093 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CC[C@H](C)[C@@H](C(=O)N)NC(=O)[C@@H](CCCNC(=[NH2+])N)NC(=O)[C@@H]1CCCN1C(=O)[C@@H](Cc2ccccc2)N" PRD_001093 SMILES "OpenEye OEToolkits" 1.7.6 "CCC(C)C(C(=O)N)NC(=O)C(CCCNC(=[NH2+])N)NC(=O)C1CCCN1C(=O)C(Cc2ccccc2)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 PRD_001093 "SYSTEMATIC NAME" ACDLabs 12.01 "D-phenylalanyl-L-prolyl-N~5~-[amino(iminio)methyl]-D-ornithyl-L-isoleucinamide" PRD_001093 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[azanyl-[[(4R)-5-[[(2S,3S)-1-azanyl-3-methyl-1-oxidanylidene-pentan-2-yl]amino]-4-[[(2S)-1-[(2R)-2-azanyl-3-phenyl-propanoyl]pyrrolidin-2-yl]carbonylamino]-5-oxidanylidene-pentyl]amino]methylidene]azanium" #