data_0EM # _chem_comp.id 0EM _chem_comp.name "N-(tert-butoxycarbonyl)-L-phenylalanyl-N-{(1S)-1-[(R)-hydroxy(2-{[(2S)-2-methylbutyl]amino}-2-oxoethyl)phosphoryl]-3-methylbutyl}-3-(1H-imidazol-3-ium-4-yl)-L-alaninamide" _chem_comp.type peptide-like _chem_comp.pdbx_type HETAIN _chem_comp.formula "C32 H52 N6 O7 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "PD-130,328" _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2008-09-14 _chem_comp.pdbx_modified_date 2021-03-13 _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 663.765 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 0EM _chem_comp.pdbx_model_coordinates_details "not provided" _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 1GVW _chem_comp.pdbx_subcomponent_list "BOC PHE HIS PTA DCI" _chem_comp.pdbx_processing_site RCSB # # 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 0EM O1 O1 O 0 1 N N N 1.553 27.394 20.280 6.225 0.145 1.352 O1 BOC 1 0EM C C1 C 0 1 N N N 2.352 26.592 19.795 6.201 -0.469 0.304 C BOC 2 0EM O2 O2 O 0 1 N N N 2.128 25.182 19.839 7.304 -1.112 -0.125 O2 BOC 3 0EM CT C2 C 0 1 N N N 1.010 24.518 20.458 8.485 -1.028 0.716 CT BOC 4 0EM C1 C3 C 0 1 N N N 0.990 24.725 21.970 8.174 -1.619 2.092 C1 BOC 5 0EM C2 C4 C 0 1 N N N 1.251 23.018 20.228 9.628 -1.813 0.070 C2 BOC 6 0EM C3 C5 C 0 1 N N N -0.251 24.963 19.717 8.897 0.437 0.872 C3 BOC 7 0EM N N1 N 0 1 N N N 3.520 26.824 19.178 5.070 -0.512 -0.427 N PHE 8 0EM CA C6 C 0 1 N N S 3.984 28.208 18.846 3.868 0.182 0.043 CA PHE 9 0EM C4 C7 C 0 1 N N N 3.109 28.759 17.692 2.646 -0.474 -0.547 C PHE 10 0EM O O4 O 0 1 N N N 2.809 27.939 16.771 2.767 -1.427 -1.286 O PHE 11 0EM CB C8 C 0 1 N N N 5.464 28.224 18.511 3.922 1.647 -0.394 CB PHE 12 0EM CG C9 C 0 1 Y N N 6.542 28.050 19.541 5.073 2.335 0.293 CG PHE 13 0EM CD1 C10 C 0 1 Y N N 6.693 26.897 20.301 6.321 2.353 -0.301 CD1 PHE 14 0EM CD2 C11 C 0 1 Y N N 7.493 29.052 19.778 4.880 2.953 1.514 CD2 PHE 15 0EM CE1 C12 C 0 1 Y N N 7.680 26.720 21.236 7.378 2.984 0.329 CE1 PHE 16 0EM CE2 C13 C 0 1 Y N N 8.465 28.895 20.745 5.937 3.583 2.144 CE2 PHE 17 0EM CZ C14 C 0 1 Y N N 8.579 27.735 21.493 7.186 3.597 1.553 CZ PHE 18 0EM N1 N2 N 0 1 N N N 2.783 30.075 17.731 1.419 -0.001 -0.252 N HIS 19 0EM CA1 C15 C 0 1 N N S 2.125 30.749 16.592 0.231 -0.639 -0.825 CA HIS 20 0EM C5 C16 C 0 1 N N N 2.897 32.056 16.347 -0.898 0.358 -0.877 C HIS 21 0EM O3 O6 O 0 1 N N N 2.462 33.096 16.871 -0.728 1.489 -0.475 O HIS 22 0EM CB1 C17 C 0 1 N N N 0.645 31.091 16.739 -0.179 -1.829 0.045 CB HIS 23 0EM CG1 C18 C 0 1 Y N N -0.019 31.711 15.538 0.900 -2.880 -0.002 CG HIS 24 0EM ND1 N3 N 1 1 Y N N -1.317 32.281 15.569 1.896 -3.028 0.885 ND1 HIS 25 0EM CD21 C19 C 0 0 Y N N 0.382 31.843 14.245 1.030 -3.840 -0.937 CD2 HIS 26 0EM CE11 C20 C 0 0 Y N N -1.640 32.738 14.365 2.641 -4.039 0.531 CE1 HIS 27 0EM NE2 N4 N 0 1 Y N N -0.609 32.486 13.536 2.135 -4.574 -0.601 NE2 HIS 28 0EM N2 N5 N 0 1 N N N 3.968 32.001 15.546 -2.098 -0.009 -1.371 N PTA 29 0EM CA2 C21 C 0 1 N N R 4.882 33.078 15.209 -3.195 0.960 -1.422 CA PTA 30 0EM CB2 C22 C 0 1 N N N 6.335 32.923 15.776 -3.888 0.875 -2.783 CB PTA 31 0EM CG2 C23 C 0 1 N N N 6.484 32.550 17.274 -2.925 1.344 -3.876 CG PTA 32 0EM CD11 C24 C 0 0 N N N 7.985 32.304 17.585 -1.768 0.352 -3.997 CD1 PTA 33 0EM CD22 C25 C 0 0 N N N 5.846 33.550 18.221 -3.669 1.425 -5.211 CD2 PTA 34 0EM P P1 P 0 1 N N R 4.891 33.407 13.415 -4.398 0.586 -0.104 P PTA 35 0EM O1P O8 O 0 1 N N N 5.130 32.110 12.755 -3.758 0.779 1.217 O1P PTA 36 0EM O2P O9 O 0 1 N N N 5.926 34.477 13.094 -4.890 -0.941 -0.244 O2P PTA 37 0EM CM C26 C 0 1 N N N 3.315 34.115 12.912 -5.831 1.702 -0.254 CM PTA 38 0EM C6 C27 C 0 1 N N N 3.136 35.561 13.324 -6.764 1.481 0.909 C PTA 39 0EM O4 O10 O 0 1 N N N 2.601 35.798 14.407 -6.523 1.985 1.985 O PTA 40 0EM N3 N6 N 0 1 N N N 3.583 36.537 12.491 -7.867 0.722 0.752 N DCI 41 0EM CA3 C28 C 0 1 N N N 3.621 37.904 12.979 -8.774 0.507 1.882 CA DCI 42 0EM CB3 C29 C 0 1 N N S 3.791 38.992 11.956 -9.938 -0.383 1.440 CB DCI 43 0EM CG11 C30 C 0 0 N N N 3.997 40.375 12.599 -10.948 -0.506 2.582 CG1 DCI 44 0EM CG21 C31 C 0 0 N N N 2.577 38.986 11.055 -9.408 -1.771 1.076 CG2 DCI 45 0EM CD12 C32 C 0 0 N N N 4.716 41.288 11.666 -12.170 -1.291 2.100 CD1 DCI 46 0EM H11 H1 H 0 1 N N N 0.985 23.747 22.474 7.880 -2.663 1.981 H11 BOC 47 0EM H12 H2 H 0 1 N N N 1.883 25.290 22.274 9.060 -1.557 2.723 H12 BOC 48 0EM H13 H3 H 0 1 N N N 0.087 25.287 22.251 7.360 -1.060 2.553 H13 BOC 49 0EM H21 H4 H 0 1 N N N 1.309 22.817 19.148 9.850 -1.392 -0.911 H21 BOC 50 0EM H22 H5 H 0 1 N N N 2.196 22.721 20.707 10.514 -1.750 0.701 H22 BOC 51 0EM H23 H6 H 0 1 N N N 0.421 22.442 20.664 9.334 -2.857 -0.041 H23 BOC 52 0EM H31 H7 H 0 1 N N N -1.079 25.070 20.433 8.083 0.997 1.332 H31 BOC 53 0EM H32 H8 H 0 1 N N N -0.065 25.929 19.225 9.784 0.500 1.503 H32 BOC 54 0EM H33 H9 H 0 1 N N N -0.516 24.210 18.960 9.119 0.859 -0.109 H33 BOC 55 0EM H H11 H 0 1 N N N 4.100 26.047 18.932 5.051 -1.002 -1.264 H PHE 56 0EM HA H13 H 0 1 N N N 3.866 28.865 19.721 3.820 0.129 1.131 HA PHE 57 0EM HB2 H14 H 0 1 N N N 5.607 27.394 17.803 4.059 1.699 -1.474 HB2 PHE 58 0EM HB3 H15 H 0 1 N N N 5.615 29.268 18.199 2.989 2.142 -0.123 HB3 PHE 59 0EM HD1 H16 H 0 1 N N N 5.991 26.091 20.146 6.471 1.874 -1.258 HD1 PHE 60 0EM HD2 H17 H 0 1 N N N 7.465 29.961 19.195 3.904 2.943 1.976 HD2 PHE 61 0EM HE1 H18 H 0 1 N N N 7.754 25.785 21.772 8.353 2.997 -0.135 HE1 PHE 62 0EM HE2 H19 H 0 1 N N N 9.159 29.703 20.924 5.786 4.067 3.099 HE2 PHE 63 0EM HZ H20 H 0 1 N N N 9.343 27.629 22.249 8.012 4.089 2.045 HZ PHE 64 0EM H1 H22 H 0 1 N N N 2.994 30.604 18.553 1.322 0.761 0.340 H HIS 65 0EM HA1 H24 H 0 1 N N N 2.151 30.026 15.764 0.456 -0.986 -1.833 HA HIS 66 0EM HB21 H25 H 0 0 N N N 0.114 30.153 16.958 -0.318 -1.496 1.074 HB2 HIS 67 0EM HB31 H26 H 0 0 N N N 0.593 31.851 17.533 -1.112 -2.249 -0.331 HB3 HIS 68 0EM HD11 H27 H 0 0 N N N -1.903 32.331 16.378 2.040 -2.470 1.665 HD1 HIS 69 0EM HD21 H28 H 0 0 N N N 1.323 31.500 13.840 0.385 -4.000 -1.789 HD2 HIS 70 0EM HE11 H29 H 0 0 N N N -2.566 33.226 14.098 3.515 -4.392 1.058 HE1 HIS 71 0EM HE21 H30 H 0 0 N N N -0.569 32.726 12.566 2.488 -5.338 -1.084 HE2 HIS 72 0EM H2 H32 H 0 1 N N N 4.162 31.112 15.130 -2.234 -0.914 -1.692 H PTA 73 0EM HA2 H34 H 0 1 N N N 4.478 33.959 15.729 -2.800 1.966 -1.278 HA PTA 74 0EM HB22 H35 H 0 0 N N N 6.819 32.122 15.198 -4.182 -0.157 -2.977 HB2 PTA 75 0EM HB32 H36 H 0 0 N N N 6.784 33.923 15.686 -4.773 1.511 -2.781 HB3 PTA 76 0EM HG H37 H 0 1 N N N 5.920 31.622 17.451 -2.535 2.329 -3.617 HG PTA 77 0EM HD12 H38 H 0 0 N N N 8.550 32.246 16.643 -1.143 0.412 -3.105 HD11 PTA 78 0EM HD13 H39 H 0 0 N N N 8.373 33.133 18.195 -2.164 -0.659 -4.095 HD12 PTA 79 0EM HD14 H40 H 0 0 N N N 8.095 31.359 18.137 -1.170 0.595 -4.876 HD13 PTA 80 0EM HD22 H41 H 0 0 N N N 5.692 33.079 19.203 -4.494 2.133 -5.125 HD21 PTA 81 0EM HD23 H42 H 0 0 N N N 6.507 34.422 18.333 -2.983 1.760 -5.989 HD22 PTA 82 0EM HD24 H43 H 0 0 N N N 4.877 33.874 17.814 -4.060 0.441 -5.469 HD23 PTA 83 0EM HOP2 H44 H 0 0 N N N 6.142 34.957 13.885 -5.319 -1.140 -1.087 HOP2 PTA 84 0EM HM1 H45 H 0 1 N N N 3.252 34.063 11.815 -5.488 2.737 -0.252 HM1 PTA 85 0EM HM2 H46 H 0 1 N N N 2.526 33.536 13.414 -6.357 1.495 -1.186 HM2 PTA 86 0EM HN2 H49 H 0 1 N N N 3.880 36.318 11.561 -8.061 0.319 -0.109 HN2 DCI 87 0EM HA11 H50 H 0 0 N N N 2.665 38.090 13.490 -8.234 0.021 2.695 HA1 DCI 88 0EM HA21 H51 H 0 0 N N N 4.519 37.960 13.612 -9.161 1.466 2.226 HA2 DCI 89 0EM HB H52 H 0 1 N N N 4.701 38.793 11.371 -10.424 0.060 0.571 HB DCI 90 0EM HG11 H53 H 0 0 N N N 3.015 40.809 12.841 -10.488 -1.029 3.420 HG11 DCI 91 0EM HG12 H54 H 0 0 N N N 4.599 40.255 13.512 -11.259 0.489 2.901 HG12 DCI 92 0EM HG21 H55 H 0 0 N N N 1.664 38.985 11.669 -8.922 -2.214 1.945 HG21 DCI 93 0EM HG22 H56 H 0 0 N N N 2.589 39.883 10.418 -10.237 -2.405 0.761 HG22 DCI 94 0EM HG23 H57 H 0 0 N N N 2.595 38.086 10.422 -8.688 -1.684 0.262 HG23 DCI 95 0EM HD15 H58 H 0 0 N N N 4.893 42.254 12.161 -12.890 -1.379 2.913 HD1 DCI 96 0EM HD25 H59 H 0 0 N N N 5.680 40.839 11.384 -12.630 -0.769 1.262 HD2 DCI 97 0EM HD3 H60 H 0 1 N N N 4.106 41.445 10.764 -11.859 -2.286 1.781 HD3 DCI 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 0EM O1 C DOUB N N 1 0EM C O2 SING N N 2 0EM O2 CT SING N N 3 0EM CT C1 SING N N 4 0EM CT C2 SING N N 5 0EM CT C3 SING N N 6 0EM C1 H11 SING N N 7 0EM C1 H12 SING N N 8 0EM C1 H13 SING N N 9 0EM C2 H21 SING N N 10 0EM C2 H22 SING N N 11 0EM C2 H23 SING N N 12 0EM C3 H31 SING N N 13 0EM C3 H32 SING N N 14 0EM C3 H33 SING N N 15 0EM N CA SING N N 16 0EM N H SING N N 17 0EM CA C4 SING N N 18 0EM CA CB SING N N 19 0EM CA HA SING N N 20 0EM C4 O DOUB N N 21 0EM CB CG SING N N 22 0EM CB HB2 SING N N 23 0EM CB HB3 SING N N 24 0EM CG CD1 DOUB Y N 25 0EM CG CD2 SING Y N 26 0EM CD1 CE1 SING Y N 27 0EM CD1 HD1 SING N N 28 0EM CD2 CE2 DOUB Y N 29 0EM CD2 HD2 SING N N 30 0EM CE1 CZ DOUB Y N 31 0EM CE1 HE1 SING N N 32 0EM CE2 CZ SING Y N 33 0EM CE2 HE2 SING N N 34 0EM CZ HZ SING N N 35 0EM N1 CA1 SING N N 36 0EM N1 H1 SING N N 37 0EM CA1 C5 SING N N 38 0EM CA1 CB1 SING N N 39 0EM CA1 HA1 SING N N 40 0EM C5 O3 DOUB N N 41 0EM CB1 CG1 SING N N 42 0EM CB1 HB21 SING N N 43 0EM CB1 HB31 SING N N 44 0EM CG1 ND1 SING Y N 45 0EM CG1 CD21 DOUB Y N 46 0EM ND1 CE11 DOUB Y N 47 0EM ND1 HD11 SING N N 48 0EM CD21 NE2 SING Y N 49 0EM CD21 HD21 SING N N 50 0EM CE11 NE2 SING Y N 51 0EM CE11 HE11 SING N N 52 0EM NE2 HE21 SING N N 53 0EM N2 CA2 SING N N 54 0EM N2 H2 SING N N 55 0EM CA2 CB2 SING N N 56 0EM CA2 P SING N N 57 0EM CA2 HA2 SING N N 58 0EM CB2 CG2 SING N N 59 0EM CB2 HB22 SING N N 60 0EM CB2 HB32 SING N N 61 0EM CG2 CD11 SING N N 62 0EM CG2 CD22 SING N N 63 0EM CG2 HG SING N N 64 0EM CD11 HD12 SING N N 65 0EM CD11 HD13 SING N N 66 0EM CD11 HD14 SING N N 67 0EM CD22 HD22 SING N N 68 0EM CD22 HD23 SING N N 69 0EM CD22 HD24 SING N N 70 0EM P O1P DOUB N N 71 0EM P O2P SING N N 72 0EM P CM SING N N 73 0EM O2P HOP2 SING N N 74 0EM CM C6 SING N N 75 0EM CM HM1 SING N N 76 0EM CM HM2 SING N N 77 0EM C6 O4 DOUB N N 78 0EM N3 CA3 SING N N 79 0EM N3 HN2 SING N N 80 0EM CA3 CB3 SING N N 81 0EM CA3 HA11 SING N N 82 0EM CA3 HA21 SING N N 83 0EM CB3 CG11 SING N N 84 0EM CB3 CG21 SING N N 85 0EM CB3 HB SING N N 86 0EM CG11 CD12 SING N N 87 0EM CG11 HG11 SING N N 88 0EM CG11 HG12 SING N N 89 0EM CG21 HG21 SING N N 90 0EM CG21 HG22 SING N N 91 0EM CG21 HG23 SING N N 92 0EM CD12 HD15 SING N N 93 0EM CD12 HD25 SING N N 94 0EM CD12 HD3 SING N N 95 0EM C N SING N N 96 0EM C4 N1 SING N N 97 0EM C5 N2 SING N N 98 0EM C6 N3 SING N N 99 # # 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 0EM SMILES ACDLabs 10.04 "O=C(NCC(C)CC)CP(=O)(O)C(NC(=O)C(NC(=O)C(NC(=O)OC(C)(C)C)Cc1ccccc1)Cc2cnc[nH+]2)CC(C)C" 0EM SMILES_CANONICAL CACTVS 3.341 "CC[C@H](C)CNC(=O)C[P@](O)(=O)[C@H](CC(C)C)NC(=O)[C@H](Cc1c[nH]c[nH+]1)NC(=O)[C@H](Cc2ccccc2)NC(=O)OC(C)(C)C" 0EM SMILES CACTVS 3.341 "CC[CH](C)CNC(=O)C[P](O)(=O)[CH](CC(C)C)NC(=O)[CH](Cc1c[nH]c[nH+]1)NC(=O)[CH](Cc2ccccc2)NC(=O)OC(C)(C)C" 0EM InChI InChI 1.03 "InChI=1S/C32H51N6O7P/c1-8-22(4)17-34-27(39)19-46(43,44)28(14-21(2)3)38-30(41)26(16-24-18-33-20-35-24)36-29(40)25(15-23-12-10-9-11-13-23)37-31(42)45-32(5,6)7/h9-13,18,20-22,25-26,28H,8,14-17,19H2,1-7H3,(H,33,35)(H,34,39)(H,36,40)(H,37,42)(H,38,41)(H,43,44)/p+1/t22-,25-,26-,28+/m0/s1" 0EM InChIKey InChI 1.03 ZQDBBPUTYSTPQE-DYYCDWSUSA-O # # 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 0EM "SYSTEMATIC NAME" ACDLabs 10.04 "N-(tert-butoxycarbonyl)-L-phenylalanyl-N-{(1S)-1-[(R)-hydroxy(2-{[(2S)-2-methylbutyl]amino}-2-oxoethyl)phosphoryl]-3-methylbutyl}-3-(1H-imidazol-3-ium-4-yl)-L-alaninamide" 0EM "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(1R)-1-[[(2S)-3-(1H-imidazol-3-ium-4-yl)-2-[[(2S)-2-[(2-methylpropan-2-yl)oxycarbonylamino]-3-phenyl-propanoyl]amino]propanoyl]amino]-3-methyl-butyl]-[2-[[(2S)-2-methylbutyl]amino]-2-oxo-ethyl]phosphinic acid" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site 0EM "Create component" 2008-09-14 RCSB 0EM "Modify aromatic_flag" 2011-06-04 RCSB 0EM "Modify descriptor" 2011-06-04 RCSB 0EM "Modify synonyms" 2021-03-13 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id 0EM _pdbx_chem_comp_synonyms.name "PD-130,328" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? ##