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      ? 
# 
