data_XM2 # _chem_comp.id XM2 _chem_comp.name "N-[(benzyloxy)carbonyl]-O-tert-butyl-L-threonyl-N-{(2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-phenylalaninamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C32 H44 N4 O7" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-08-13 _chem_comp.pdbx_modified_date 2024-09-27 _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 596.714 _chem_comp.one_letter_code ? _chem_comp.three_letter_code XM2 _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 7JQ4 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm Y # 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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 XM2 C1 C1 C 0 1 Y N N N N N 45.341 9.229 -18.106 9.457 -1.137 -1.662 C1 XM2 1 XM2 C10 C2 C 0 1 N N N N N N 44.148 8.411 -13.518 -1.132 3.295 -0.366 C10 XM2 2 XM2 C11 C3 C 0 1 N N S N N N 42.566 4.160 -14.806 1.532 0.885 0.966 C11 XM2 3 XM2 C12 C4 C 0 1 N N N N N N 41.919 2.831 -14.533 0.313 0.206 0.397 C12 XM2 4 XM2 C13 C5 C 0 1 N N N N N N 42.315 7.374 -12.201 0.243 4.130 -2.277 C13 XM2 5 XM2 C14 C6 C 0 1 N N S N N N 42.068 0.396 -14.782 -2.013 -0.501 0.570 C14 XM2 6 XM2 C15 C7 C 0 1 N N N N N N 42.075 0.145 -13.304 -3.282 0.149 1.058 C15 XM2 7 XM2 C16 C8 C 0 1 N N N N N N 42.061 7.657 -14.656 0.644 5.007 0.028 C16 XM2 8 XM2 C17 C9 C 0 1 N N S N N N 40.754 -0.803 -11.428 -5.712 0.256 1.200 C17 XM2 9 XM2 C18 C10 C 0 1 Y N N N N N 43.156 -0.605 -16.856 -0.738 -2.626 0.503 C18 XM2 10 XM2 C19 C11 C 0 1 N N N N N N 39.717 -0.015 -10.623 -6.860 -0.089 0.249 C19 XM2 11 XM2 C2 C12 C 0 1 Y N N N N N 45.309 7.915 -17.701 9.158 0.191 -1.417 C2 XM2 12 XM2 C20 C13 C 0 1 N N S N N N 40.067 1.470 -10.696 -6.589 0.533 -1.123 C20 XM2 13 XM2 C21 C14 C 0 1 N N N N N N 41.284 1.785 -9.840 -7.751 0.224 -2.096 C21 XM2 14 XM2 C22 C15 C 0 1 N N N N N N 40.852 2.886 -8.879 -7.240 -1.051 -2.803 C22 XM2 15 XM2 C23 C16 C 0 1 Y N N N N N 42.231 0.069 -17.637 0.476 -2.575 1.161 C23 XM2 16 XM2 C24 C17 C 0 1 N N N N N N 38.979 2.331 -10.129 -5.383 -0.115 -1.768 C24 XM2 17 XM2 C25 C18 C 0 1 Y N N N N N 42.361 0.004 -19.016 1.582 -3.206 0.623 C25 XM2 18 XM2 C26 C19 C 0 1 Y N N N N N 43.391 -0.727 -19.600 1.474 -3.888 -0.574 C26 XM2 19 XM2 C28 C20 C 0 1 Y N N N N N 44.314 -1.405 -18.829 0.259 -3.940 -1.233 C28 XM2 20 XM2 C29 C21 C 0 1 Y N N N N N 44.177 -1.334 -17.457 -0.848 -3.314 -0.692 C29 XM2 21 XM2 C3 C22 C 0 1 Y N N N N N 44.175 7.147 -17.933 8.118 0.519 -0.567 C3 XM2 22 XM2 C30 C23 C 0 1 N N R N N N 42.767 4.921 -13.506 1.387 2.401 0.820 C30 XM2 23 XM2 C31 C24 C 0 1 N N N N N N 43.421 4.050 -12.452 2.646 3.087 1.352 C31 XM2 24 XM2 C32 C25 C 0 1 N N N N N N 40.448 -2.300 -11.559 -6.042 -0.258 2.603 C32 XM2 25 XM2 C34 C26 C 0 1 N N N N N N 43.087 -0.583 -15.348 -1.943 -1.938 1.089 C34 XM2 26 XM2 C4 C27 C 0 1 Y N N N N N 43.071 7.688 -18.578 7.378 -0.479 0.038 C4 XM2 27 XM2 C5 C28 C 0 1 Y N N N N N 43.107 9.002 -18.988 7.677 -1.806 -0.208 C5 XM2 28 XM2 C6 C29 C 0 1 Y N N N N N 44.244 9.764 -18.760 8.713 -2.135 -1.062 C6 XM2 29 XM2 C7 C30 C 0 1 N N N N N N 41.846 6.842 -18.835 6.245 -0.121 0.965 C7 XM2 30 XM2 C8 C31 C 0 1 N N N N N N 43.034 7.368 -13.533 0.258 3.773 -0.789 C8 XM2 31 XM2 C9 C32 C 0 1 N N N N N N 42.114 5.276 -16.906 3.899 0.313 0.888 C9 XM2 32 XM2 N10 N1 N 0 1 N N N N N N 41.742 4.966 -15.678 2.723 0.436 0.241 N10 XM2 33 XM2 N13 N2 N 0 1 N N N N N N 42.440 1.758 -15.129 -0.858 0.253 1.064 N13 XM2 34 XM2 N16 N3 N 0 1 N N N N N N 40.912 -0.129 -12.718 -4.478 -0.376 0.726 N16 XM2 35 XM2 N23 N4 N 0 1 N N N N N N 39.445 3.104 -9.148 -5.777 -0.992 -2.708 N23 XM2 36 XM2 O26 O1 O 0 1 N N N N N N 37.838 2.285 -10.517 -4.229 0.124 -1.481 O26 XM2 37 XM2 O29 O2 O 0 1 N N N N N N 43.044 4.739 -17.456 3.953 0.488 2.089 O29 XM2 38 XM2 O32 O3 O 0 1 N N N N N N 43.571 6.072 -13.748 1.210 2.732 -0.559 O32 XM2 39 XM2 O33 O4 O 0 1 N N N N N N 40.965 2.773 -13.796 0.384 -0.382 -0.661 O33 XM2 40 XM2 O34 O5 O 0 1 N N N N N N 40.333 -2.992 -10.315 -6.331 -1.656 2.542 O34 XM2 41 XM2 O38 O6 O 0 1 N N N N N N 43.129 0.188 -12.701 -3.227 1.143 1.750 O38 XM2 42 XM2 O8 O7 O 0 1 N N N N N N 41.370 6.300 -17.611 5.014 -0.005 0.203 O8 XM2 43 XM2 H1 H1 H 0 1 N N N N N N 46.213 9.837 -17.916 10.269 -1.393 -2.326 H1 XM2 44 XM2 H2 H2 H 0 1 N N N N N N 44.847 8.190 -12.698 -1.853 4.099 -0.514 H2 XM2 45 XM2 H3 H3 H 0 1 N N N N N N 44.687 8.385 -14.477 -1.420 2.434 -0.969 H3 XM2 46 XM2 H4 H4 H 0 1 N N N N N N 43.713 9.410 -13.369 -1.115 3.012 0.687 H4 XM2 47 XM2 H5 H5 H 0 1 N N N N N N 43.548 3.991 -15.273 1.631 0.629 2.021 H5 XM2 48 XM2 H6 H6 H 0 1 N N N N N N 43.033 7.163 -11.395 1.234 4.470 -2.579 H6 XM2 49 XM2 H7 H7 H 0 1 N N N N N N 41.858 8.361 -12.036 -0.032 3.251 -2.859 H7 XM2 50 XM2 H8 H8 H 0 1 N N N N N N 41.531 6.603 -12.204 -0.482 4.924 -2.453 H8 XM2 51 XM2 H9 H9 H 0 1 N N N N N N 41.074 0.159 -15.190 -2.004 -0.507 -0.520 H9 XM2 52 XM2 H10 H10 H 0 1 N N N N N N 41.627 8.658 -14.517 0.579 4.774 1.091 H10 XM2 53 XM2 H11 H11 H 0 1 N N N N N N 42.591 7.618 -15.619 1.665 5.300 -0.217 H11 XM2 54 XM2 H12 H12 H 0 1 N N N N N N 41.258 6.905 -14.648 -0.036 5.826 -0.207 H12 XM2 55 XM2 H13 H13 H 0 1 N N N N N N 41.709 -0.719 -10.888 -5.578 1.337 1.231 H13 XM2 56 XM2 H14 H14 H 0 1 N N N N N N 38.715 -0.181 -11.047 -6.936 -1.171 0.148 H14 XM2 57 XM2 H15 H15 H 0 1 N N N N N N 39.731 -0.348 -9.575 -7.794 0.306 0.648 H15 XM2 58 XM2 H16 H16 H 0 1 N N N N N N 46.164 7.481 -17.204 9.736 0.971 -1.889 H16 XM2 59 XM2 H17 H17 H 0 1 N N N N N N 40.265 1.752 -11.741 -6.441 1.609 -1.031 H17 XM2 60 XM2 H18 H18 H 0 1 N N N N N N 41.599 0.892 -9.280 -8.673 0.025 -1.551 H18 XM2 61 XM2 H19 H19 H 0 1 N N N N N N 42.115 2.134 -10.471 -7.888 1.037 -2.809 H19 XM2 62 XM2 H20 H20 H 0 1 N N N N N N 40.999 2.566 -7.837 -7.615 -1.939 -2.295 H20 XM2 63 XM2 H21 H21 H 0 1 N N N N N N 41.428 0.631 -17.183 0.561 -2.042 2.097 H21 XM2 64 XM2 H22 H22 H 0 1 N N N N N N 41.655 0.527 -19.644 2.531 -3.165 1.137 H22 XM2 65 XM2 H23 H23 H 0 1 N N N N N N 43.470 -0.765 -20.676 2.338 -4.380 -0.996 H23 XM2 66 XM2 H24 H24 H 0 1 N N N N N N 45.114 -1.971 -19.283 0.175 -4.473 -2.169 H24 XM2 67 XM2 H25 H25 H 0 1 N N N N N N 44.883 -1.860 -16.832 -1.796 -3.354 -1.206 H25 XM2 68 XM2 H26 H26 H 0 1 N N N N N N 44.152 6.117 -17.608 7.884 1.556 -0.376 H26 XM2 69 XM2 H27 H27 H 0 1 N N N N N N 41.780 5.233 -13.133 0.521 2.739 1.389 H27 XM2 70 XM2 H28 H28 H 0 1 N N N N N N 43.552 4.630 -11.526 3.495 2.832 0.716 H28 XM2 71 XM2 H29 H29 H 0 1 N N N N N N 42.783 3.177 -12.251 2.501 4.167 1.347 H29 XM2 72 XM2 H30 H30 H 0 1 N N N N N N 44.403 3.711 -12.814 2.841 2.751 2.370 H30 XM2 73 XM2 H31 H31 H 0 1 N N N N N N 39.498 -2.410 -12.103 -5.188 -0.092 3.260 H31 XM2 74 XM2 H32 H32 H 0 1 N N N N N N 41.258 -2.767 -12.138 -6.909 0.276 2.992 H32 XM2 75 XM2 H33 H33 H 0 1 N N N N N N 42.824 -1.593 -15.000 -1.863 -1.928 2.176 H33 XM2 76 XM2 H34 H34 H 0 1 N N N N N N 44.080 -0.309 -14.962 -2.846 -2.474 0.797 H34 XM2 77 XM2 H35 H35 H 0 1 N N N N N N 42.253 9.438 -19.485 7.095 -2.586 0.261 H35 XM2 78 XM2 H36 H36 H 0 1 N N N N N N 44.274 10.789 -19.098 8.946 -3.172 -1.253 H36 XM2 79 XM2 H37 H37 H 0 1 N N N N N N 41.061 7.465 -19.289 6.133 -0.899 1.720 H37 XM2 80 XM2 H38 H38 H 0 1 N N N N N N 42.106 6.022 -19.521 6.461 0.830 1.452 H38 XM2 81 XM2 H39 H39 H 0 1 N N N N N N 40.862 5.300 -15.340 2.666 0.228 -0.705 H39 XM2 82 XM2 H40 H40 H 0 1 N N N N N N 43.119 1.897 -15.849 -0.935 0.786 1.870 H40 XM2 83 XM2 H41 H41 H 0 1 N N N N N N 40.079 0.148 -13.197 -4.522 -1.171 0.172 H41 XM2 84 XM2 H42 H42 H 0 1 N N N N N N 40.144 -3.909 -10.478 -6.549 -2.050 3.398 H42 XM2 85 XM2 H43 H43 H 0 1 N N N N N N 41.426 3.806 -9.065 -7.552 -1.054 -3.847 H43 XM2 86 XM2 H44 H44 H 0 1 N N N N N N 38.883 3.765 -8.650 -5.171 -1.518 -3.253 H44 XM2 87 # 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 XM2 C26 C25 DOUB Y N 1 XM2 C26 C28 SING Y N 2 XM2 C25 C23 SING Y N 3 XM2 C5 C6 DOUB Y N 4 XM2 C5 C4 SING Y N 5 XM2 C7 C4 SING N N 6 XM2 C7 O8 SING N N 7 XM2 C28 C29 DOUB Y N 8 XM2 C6 C1 SING Y N 9 XM2 C4 C3 DOUB Y N 10 XM2 C1 C2 DOUB Y N 11 XM2 C3 C2 SING Y N 12 XM2 C23 C18 DOUB Y N 13 XM2 O8 C9 SING N N 14 XM2 C29 C18 SING Y N 15 XM2 O29 C9 DOUB N N 16 XM2 C9 N10 SING N N 17 XM2 C18 C34 SING N N 18 XM2 N10 C11 SING N N 19 XM2 C34 C14 SING N N 20 XM2 N13 C14 SING N N 21 XM2 N13 C12 SING N N 22 XM2 C11 C12 SING N N 23 XM2 C11 C30 SING N N 24 XM2 C14 C15 SING N N 25 XM2 C16 C8 SING N N 26 XM2 C12 O33 DOUB N N 27 XM2 O32 C8 SING N N 28 XM2 O32 C30 SING N N 29 XM2 C8 C10 SING N N 30 XM2 C8 C13 SING N N 31 XM2 C30 C31 SING N N 32 XM2 C15 N16 SING N N 33 XM2 C15 O38 DOUB N N 34 XM2 N16 C17 SING N N 35 XM2 C32 C17 SING N N 36 XM2 C32 O34 SING N N 37 XM2 C17 C19 SING N N 38 XM2 C20 C19 SING N N 39 XM2 C20 C24 SING N N 40 XM2 C20 C21 SING N N 41 XM2 O26 C24 DOUB N N 42 XM2 C24 N23 SING N N 43 XM2 C21 C22 SING N N 44 XM2 N23 C22 SING N N 45 XM2 C1 H1 SING N N 46 XM2 C10 H2 SING N N 47 XM2 C10 H3 SING N N 48 XM2 C10 H4 SING N N 49 XM2 C11 H5 SING N N 50 XM2 C13 H6 SING N N 51 XM2 C13 H7 SING N N 52 XM2 C13 H8 SING N N 53 XM2 C14 H9 SING N N 54 XM2 C16 H10 SING N N 55 XM2 C16 H11 SING N N 56 XM2 C16 H12 SING N N 57 XM2 C17 H13 SING N N 58 XM2 C19 H14 SING N N 59 XM2 C19 H15 SING N N 60 XM2 C2 H16 SING N N 61 XM2 C20 H17 SING N N 62 XM2 C21 H18 SING N N 63 XM2 C21 H19 SING N N 64 XM2 C22 H20 SING N N 65 XM2 C23 H21 SING N N 66 XM2 C25 H22 SING N N 67 XM2 C26 H23 SING N N 68 XM2 C28 H24 SING N N 69 XM2 C29 H25 SING N N 70 XM2 C3 H26 SING N N 71 XM2 C30 H27 SING N N 72 XM2 C31 H28 SING N N 73 XM2 C31 H29 SING N N 74 XM2 C31 H30 SING N N 75 XM2 C32 H31 SING N N 76 XM2 C32 H32 SING N N 77 XM2 C34 H33 SING N N 78 XM2 C34 H34 SING N N 79 XM2 C5 H35 SING N N 80 XM2 C6 H36 SING N N 81 XM2 C7 H37 SING N N 82 XM2 C7 H38 SING N N 83 XM2 N10 H39 SING N N 84 XM2 N13 H40 SING N N 85 XM2 N16 H41 SING N N 86 XM2 O34 H42 SING N N 87 XM2 C22 H43 SING N N 88 XM2 N23 H44 SING N N 89 # 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 XM2 SMILES ACDLabs 12.01 "c1ccc(cc1)COC(NC(C(=O)NC(C(NC(CC2C(NCC2)=O)CO)=O)Cc3ccccc3)C(C)OC(C)(C)C)=O" XM2 InChI InChI 1.03 "InChI=1S/C32H44N4O7/c1-21(43-32(2,3)4)27(36-31(41)42-20-23-13-9-6-10-14-23)30(40)35-26(17-22-11-7-5-8-12-22)29(39)34-25(19-37)18-24-15-16-33-28(24)38/h5-14,21,24-27,37H,15-20H2,1-4H3,(H,33,38)(H,34,39)(H,35,40)(H,36,41)/t21-,24+,25+,26+,27+/m1/s1" XM2 InChIKey InChI 1.03 QJOPPFBQFHKESK-FFXRMZKPSA-N XM2 SMILES_CANONICAL CACTVS 3.385 "C[C@@H](OC(C)(C)C)[C@H](NC(=O)OCc1ccccc1)C(=O)N[C@@H](Cc2ccccc2)C(=O)N[C@H](CO)C[C@@H]3CCNC3=O" XM2 SMILES CACTVS 3.385 "C[CH](OC(C)(C)C)[CH](NC(=O)OCc1ccccc1)C(=O)N[CH](Cc2ccccc2)C(=O)N[CH](CO)C[CH]3CCNC3=O" XM2 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]([C@@H](C(=O)N[C@@H](Cc1ccccc1)C(=O)N[C@@H](C[C@@H]2CCNC2=O)CO)NC(=O)OCc3ccccc3)OC(C)(C)C" XM2 SMILES "OpenEye OEToolkits" 2.0.7 "CC(C(C(=O)NC(Cc1ccccc1)C(=O)NC(CC2CCNC2=O)CO)NC(=O)OCc3ccccc3)OC(C)(C)C" # 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 XM2 "SYSTEMATIC NAME" ACDLabs 12.01 "N-[(benzyloxy)carbonyl]-O-tert-butyl-L-threonyl-N-{(2S)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-phenylalaninamide" XM2 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(phenylmethyl) ~{N}-[(2~{S},3~{R})-3-[(2-methylpropan-2-yl)oxy]-1-oxidanylidene-1-[[(2~{S})-1-oxidanylidene-1-[[(2~{S})-1-oxidanyl-3-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]propan-2-yl]amino]-3-phenyl-propan-2-yl]amino]butan-2-yl]carbamate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site XM2 "Create component" 2020-08-13 RCSB XM2 "Initial release" 2020-12-23 RCSB XM2 "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id XM2 _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C32 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #