data_XF8
# 
_chem_comp.id                                    XF8 
_chem_comp.name                                  "(2-methyl-2-phenylsulfanyl-propyl) ~{N}-[(2~{S})-1-[[(2~{S},3~{S})-3-[bis(oxidanyl)-oxidanylidene-$l^{5}-sulfanyl]-4-(cyclopropylamino)-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]carbamate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C28 H42 N4 O9 S2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-11-14 
_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                        642.784 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XF8 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   Y 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        8F45 
_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 
XF8 C02 C1  C 0 1 N N N N N N 11.070 24.373 25.994 2.113  0.078  0.934  C02 XF8 1  
XF8 C04 C2  C 0 1 N N S N N N 11.716 22.355 27.127 -0.316 0.191  1.090  C04 XF8 2  
XF8 C05 C3  C 0 1 N N N N N N 12.783 21.919 28.150 -0.604 1.587  1.645  C05 XF8 3  
XF8 C06 C4  C 0 1 N N N N N N 14.203 22.138 27.611 0.489  1.975  2.643  C06 XF8 4  
XF8 C07 C5  C 0 1 N N N N N N 15.256 22.126 28.780 0.271  3.418  3.103  C07 XF8 5  
XF8 C08 C6  C 0 1 N N N N N N 14.494 21.117 26.528 0.431  1.040  3.852  C08 XF8 6  
XF8 C09 C7  C 0 1 N N N N N N 10.384 21.858 27.660 -1.455 -0.242 0.203  C09 XF8 7  
XF8 C11 C8  C 0 1 N N S N N N 8.635  20.167 27.870 -3.827 -0.644 -0.182 C11 XF8 8  
XF8 C12 C9  C 0 1 N N N N N N 7.588  19.925 26.748 -4.244 -2.105 0.003  C12 XF8 9  
XF8 C13 C10 C 0 1 N N S N N N 7.054  21.230 26.157 -3.122 -3.021 -0.488 C13 XF8 10 
XF8 C14 C11 C 0 1 N N N N N N 6.016  21.061 25.094 -2.063 -3.181 0.580  C14 XF8 11 
XF8 C16 C12 C 0 1 N N N N N N 5.187  22.807 26.346 -2.451 -5.312 -0.257 C16 XF8 12 
XF8 C17 C13 C 0 1 N N N N N N 6.296  22.098 27.161 -3.654 -4.455 -0.713 C17 XF8 13 
XF8 C19 C14 C 0 1 N N S N N N 9.106  18.885 28.552 -5.006 0.270  0.160  C19 XF8 14 
XF8 C21 C15 C 0 1 N N N N N N 8.115  18.423 29.607 -4.557 1.708  0.110  C21 XF8 15 
XF8 C23 C16 C 0 1 N N N N N N 7.493  18.125 32.033 -3.633 3.619  -1.085 C23 XF8 16 
XF8 C24 C17 C 0 1 N N N N N N 6.581  19.231 32.691 -3.648 4.317  -2.447 C24 XF8 17 
XF8 C25 C18 C 0 1 N N N N N N 7.787  18.701 33.490 -2.317 3.924  -1.803 C25 XF8 18 
XF8 C29 C19 C 0 1 N N N N N N 11.003 26.220 24.475 4.495  -0.061 0.954  C29 XF8 19 
XF8 C30 C20 C 0 1 N N N N N N 12.283 27.094 24.111 5.674  -0.010 -0.020 C30 XF8 20 
XF8 C31 C21 C 0 1 N N N N N N 12.658 28.047 25.228 5.539  -1.138 -1.044 C31 XF8 21 
XF8 C32 C22 C 0 1 N N N N N N 13.453 26.203 23.602 5.680  1.338  -0.744 C32 XF8 22 
XF8 C34 C23 C 0 1 Y N N N N N 10.296 29.262 23.025 8.450  -0.113 -0.365 C34 XF8 23 
XF8 C35 C24 C 0 1 Y N N N N N 8.980  28.736 22.936 8.069  0.050  -1.692 C35 XF8 24 
XF8 C36 C25 C 0 1 Y N N N N N 7.858  29.562 23.224 9.031  0.131  -2.679 C36 XF8 25 
XF8 C37 C26 C 0 1 Y N N N N N 8.039  30.916 23.604 10.372 0.049  -2.349 C37 XF8 26 
XF8 C38 C27 C 0 1 Y N N N N N 9.353  31.438 23.704 10.754 -0.112 -1.030 C38 XF8 27 
XF8 C39 C28 C 0 1 Y N N N N N 10.478 30.614 23.415 9.798  -0.194 -0.037 C39 XF8 28 
XF8 N03 N1  N 0 1 N N N N N N 11.686 23.773 27.006 0.925  0.220  0.313  N03 XF8 29 
XF8 N10 N2  N 0 1 N N N N N N 9.842  20.679 27.327 -2.701 -0.342 0.705  N10 XF8 30 
XF8 N15 N3  N 0 1 N N N N N N 4.944  21.947 25.167 -1.710 -4.474 0.692  N15 XF8 31 
XF8 N22 N4  N 0 1 N N N N N N 8.399  18.519 30.963 -4.069 2.222  -1.036 N22 XF8 32 
XF8 O01 O1  O 0 1 N N N N N N 10.433 23.697 25.136 2.154  -0.076 2.139  O01 XF8 33 
XF8 O18 O2  O 0 1 N N N N N N 6.141  20.201 24.194 -1.599 -2.275 1.240  O18 XF8 34 
XF8 O20 O3  O 0 1 N N N N N N 10.244 19.353 29.329 -5.480 -0.036 1.473  O20 XF8 35 
XF8 O26 O4  O 0 1 N N N N N N 6.971  18.030 29.234 -4.636 2.403  1.101  O26 XF8 36 
XF8 O27 O5  O 0 1 N N N N N N 9.757  22.631 28.446 -1.249 -0.500 -0.965 O27 XF8 37 
XF8 O28 O6  O 0 1 N N N N N N 11.102 25.710 25.794 3.253  0.099  0.219  O28 XF8 38 
XF8 S33 S1  S 0 1 N N N N N N 11.800 28.169 22.638 7.226  -0.209 0.899  S33 XF8 39 
XF8 H1  H1  H 0 1 N N N N N N 11.926 21.881 26.157 -0.212 -0.513 1.916  H1  XF8 40 
XF8 H2  H2  H 0 1 N N N N N N 12.656 22.507 29.071 -0.621 2.307  0.826  H2  XF8 41 
XF8 H3  H3  H 0 1 N N N N N N 12.647 20.851 28.375 -1.571 1.587  2.148  H3  XF8 42 
XF8 H4  H4  H 0 1 N N N N N N 14.236 23.137 27.152 1.464  1.890  2.164  H4  XF8 43 
XF8 H5  H5  H 0 1 N N N N N N 14.985 22.887 29.526 -0.705 3.503  3.582  H5  XF8 44 
XF8 H6  H6  H 0 1 N N N N N N 15.265 21.134 29.255 1.049  3.694  3.814  H6  XF8 45 
XF8 H7  H7  H 0 1 N N N N N N 16.255 22.348 28.376 0.312  4.084  2.241  H7  XF8 46 
XF8 H8  H8  H 0 1 N N N N N N 15.512 21.273 26.141 0.586  0.012  3.524  H8  XF8 47 
XF8 H9  H9  H 0 1 N N N N N N 14.413 20.104 26.948 1.210  1.316  4.563  H9  XF8 48 
XF8 H10 H10 H 0 1 N N N N N N 13.768 21.234 25.710 -0.545 1.125  4.331  H10 XF8 49 
XF8 H11 H11 H 0 1 N N N N N N 8.213  20.852 28.620 -3.528 -0.479 -1.217 H11 XF8 50 
XF8 H12 H12 H 0 1 N N N N N N 6.745  19.357 27.168 -4.435 -2.297 1.059  H12 XF8 51 
XF8 H13 H13 H 0 1 N N N N N N 8.060  19.341 25.945 -5.149 -2.299 -0.572 H13 XF8 52 
XF8 H14 H14 H 0 1 N N N N N N 7.898  21.808 25.752 -2.684 -2.628 -1.406 H14 XF8 53 
XF8 H15 H15 H 0 1 N N N N N N 5.523  23.806 26.030 -2.800 -6.220 0.234  H15 XF8 54 
XF8 H16 H16 H 0 1 N N N N N N 4.271  22.902 26.947 -1.822 -5.564 -1.111 H16 XF8 55 
XF8 H17 H17 H 0 1 N N N N N N 5.852  21.473 27.950 -4.528 -4.649 -0.092 H17 XF8 56 
XF8 H18 H18 H 0 1 N N N N N N 6.971  22.838 27.615 -3.879 -4.628 -1.765 H18 XF8 57 
XF8 H20 H20 H 0 1 N N N N N N 7.067  17.111 32.003 -3.880 4.220  -0.209 H20 XF8 58 
XF8 H21 H21 H 0 1 N N N N N N 6.597  20.257 32.296 -3.983 3.736  -3.306 H21 XF8 59 
XF8 H22 H22 H 0 1 N N N N N N 5.560  18.977 33.011 -3.905 5.376  -2.467 H22 XF8 60 
XF8 H23 H23 H 0 1 N N N N N N 7.624  18.067 34.374 -1.698 4.726  -1.400 H23 XF8 61 
XF8 H24 H24 H 0 1 N N N N N N 8.661  19.348 33.659 -1.775 3.085  -2.239 H24 XF8 62 
XF8 H25 H25 H 0 1 N N N N N N 10.103 26.848 24.397 4.491  -1.021 1.470  H25 XF8 63 
XF8 H26 H26 H 0 1 N N N N N N 10.926 25.381 23.768 4.591  0.743  1.684  H26 XF8 64 
XF8 H27 H27 H 0 1 N N N N N N 12.950 27.472 26.119 4.735  -0.902 -1.741 H27 XF8 65 
XF8 H28 H28 H 0 1 N N N N N N 13.500 28.677 24.905 6.475  -1.247 -1.591 H28 XF8 66 
XF8 H29 H29 H 0 1 N N N N N N 11.795 28.685 25.471 5.309  -2.071 -0.528 H29 XF8 67 
XF8 H30 H30 H 0 1 N N N N N N 13.791 25.542 24.414 5.743  2.143  -0.012 H30 XF8 68 
XF8 H31 H31 H 0 1 N N N N N N 13.108 25.594 22.754 6.539  1.387  -1.413 H31 XF8 69 
XF8 H32 H32 H 0 1 N N N N N N 14.287 26.843 23.278 4.762  1.444  -1.322 H32 XF8 70 
XF8 H33 H33 H 0 1 N N N N N N 8.830  27.706 22.649 7.023  0.112  -1.951 H33 XF8 71 
XF8 H34 H34 H 0 1 N N N N N N 6.860  29.154 23.153 8.737  0.257  -3.711 H34 XF8 72 
XF8 H35 H35 H 0 1 N N N N N N 7.185  31.543 23.815 11.122 0.112  -3.123 H35 XF8 73 
XF8 H36 H36 H 0 1 N N N N N N 9.502  32.466 24.001 11.802 -0.176 -0.776 H36 XF8 74 
XF8 H37 H37 H 0 1 N N N N N N 11.475 31.021 23.493 10.097 -0.320 0.993  H37 XF8 75 
XF8 H38 H38 H 0 1 N N N N N N 12.140 24.331 27.700 0.892  0.343  -0.649 H38 XF8 76 
XF8 H39 H39 H 0 1 N N N N N N 10.321 20.121 26.649 -2.853 -0.213 1.655  H39 XF8 77 
XF8 H40 H40 H 0 1 N N N N N N 4.163  21.993 24.544 -1.051 -4.809 1.320  H40 XF8 78 
XF8 H41 H41 H 0 1 N N N N N N 9.292  18.886 31.224 -4.006 1.666  -1.829 H41 XF8 79 
XF8 H42 H42 H 0 1 N N N N N N 10.624 18.624 29.805 -4.817 0.081  2.168  H42 XF8 80 
XF8 S1  S2  S 0 1 N Y N N N N ?      ?      ?      -6.340 0.010  -1.041 S1  XF8 81 
XF8 O3  O7  O 0 1 N Y N N N N ?      ?      ?      -5.704 0.318  -2.388 O3  XF8 82 
XF8 O2  O8  O 0 1 N Y N N N N ?      ?      ?      -6.679 -1.368 -1.120 O2  XF8 83 
XF8 O1  O9  O 0 1 N Y N N N N ?      ?      ?      -7.345 1.004  -0.892 O1  XF8 84 
XF8 H19 H19 H 0 1 N N N N N N ?      ?      ?      -6.306 0.221  -3.139 H19 XF8 85 
# 
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 
XF8 S33 C34 SING N N 1  
XF8 S33 C30 SING N N 2  
XF8 C35 C34 DOUB Y N 3  
XF8 C35 C36 SING Y N 4  
XF8 C34 C39 SING Y N 5  
XF8 C36 C37 DOUB Y N 6  
XF8 C39 C38 DOUB Y N 7  
XF8 C32 C30 SING N N 8  
XF8 C37 C38 SING Y N 9  
XF8 C30 C29 SING N N 10 
XF8 C30 C31 SING N N 11 
XF8 O18 C14 DOUB N N 12 
XF8 C29 O28 SING N N 13 
XF8 C14 N15 SING N N 14 
XF8 C14 C13 SING N N 15 
XF8 O01 C02 DOUB N N 16 
XF8 N15 C16 SING N N 17 
XF8 O28 C02 SING N N 18 
XF8 C02 N03 SING N N 19 
XF8 C13 C12 SING N N 20 
XF8 C13 C17 SING N N 21 
XF8 C16 C17 SING N N 22 
XF8 C08 C06 SING N N 23 
XF8 C12 C11 SING N N 24 
XF8 N03 C04 SING N N 25 
XF8 C04 C09 SING N N 26 
XF8 C04 C05 SING N N 27 
XF8 N10 C09 SING N N 28 
XF8 N10 C11 SING N N 29 
XF8 C06 C05 SING N N 30 
XF8 C06 C07 SING N N 31 
XF8 C09 O27 DOUB N N 32 
XF8 C11 C19 SING N N 33 
XF8 C19 O20 SING N N 34 
XF8 C19 C21 SING N N 35 
XF8 O26 C21 DOUB N N 36 
XF8 C21 N22 SING N N 37 
XF8 N22 C23 SING N N 38 
XF8 C23 C24 SING N N 39 
XF8 C23 C25 SING N N 40 
XF8 C24 C25 SING N N 41 
XF8 C04 H1  SING N N 42 
XF8 C05 H2  SING N N 43 
XF8 C05 H3  SING N N 44 
XF8 C06 H4  SING N N 45 
XF8 C07 H5  SING N N 46 
XF8 C07 H6  SING N N 47 
XF8 C07 H7  SING N N 48 
XF8 C08 H8  SING N N 49 
XF8 C08 H9  SING N N 50 
XF8 C08 H10 SING N N 51 
XF8 C11 H11 SING N N 52 
XF8 C12 H12 SING N N 53 
XF8 C12 H13 SING N N 54 
XF8 C13 H14 SING N N 55 
XF8 C16 H15 SING N N 56 
XF8 C16 H16 SING N N 57 
XF8 C17 H17 SING N N 58 
XF8 C17 H18 SING N N 59 
XF8 C23 H20 SING N N 60 
XF8 C24 H21 SING N N 61 
XF8 C24 H22 SING N N 62 
XF8 C25 H23 SING N N 63 
XF8 C25 H24 SING N N 64 
XF8 C29 H25 SING N N 65 
XF8 C29 H26 SING N N 66 
XF8 C31 H27 SING N N 67 
XF8 C31 H28 SING N N 68 
XF8 C31 H29 SING N N 69 
XF8 C32 H30 SING N N 70 
XF8 C32 H31 SING N N 71 
XF8 C32 H32 SING N N 72 
XF8 C35 H33 SING N N 73 
XF8 C36 H34 SING N N 74 
XF8 C37 H35 SING N N 75 
XF8 C38 H36 SING N N 76 
XF8 C39 H37 SING N N 77 
XF8 N03 H38 SING N N 78 
XF8 N10 H39 SING N N 79 
XF8 N15 H40 SING N N 80 
XF8 N22 H41 SING N N 81 
XF8 O20 H42 SING N N 82 
XF8 C19 S1  SING N N 83 
XF8 S1  O3  SING N N 84 
XF8 S1  O2  DOUB N N 85 
XF8 S1  O1  DOUB N N 86 
XF8 O3  H19 SING N N 87 
# 
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 
XF8 SMILES           ACDLabs              12.01 "CC(C)CC(NC(=O)OCC(C)(C)Sc1ccccc1)C(=O)NC(CC1CCNC1=O)C(O)(C(=O)NC1CC1)S(=O)(=O)O"                                                                                                                                                                                    
XF8 InChI            InChI                1.06  "InChI=1S/C28H42N4O9S2/c1-17(2)14-21(31-26(36)41-16-27(3,4)42-20-8-6-5-7-9-20)24(34)32-22(15-18-12-13-29-23(18)33)28(37,43(38,39)40)25(35)30-19-10-11-19/h5-9,17-19,21-22,37H,10-16H2,1-4H3,(H,29,33)(H,30,35)(H,31,36)(H,32,34)(H,38,39,40)/t18-,21-,22-,28-/m0/s1" 
XF8 InChIKey         InChI                1.06  MVHBODFTFWPKCE-ZYAAQSTJSA-N                                                                                                                                                                                                                                          
XF8 SMILES_CANONICAL CACTVS               3.385 "CC(C)C[C@H](NC(=O)OCC(C)(C)Sc1ccccc1)C(=O)N[C@@H](C[C@@H]2CCNC2=O)[C@@](O)(C(=O)NC3CC3)[S](O)(=O)=O"                                                                                                                                                                
XF8 SMILES           CACTVS               3.385 "CC(C)C[CH](NC(=O)OCC(C)(C)Sc1ccccc1)C(=O)N[CH](C[CH]2CCNC2=O)[C](O)(C(=O)NC3CC3)[S](O)(=O)=O"                                                                                                                                                                       
XF8 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CCNC1=O)[C@](C(=O)NC2CC2)(O)S(=O)(=O)O)NC(=O)OCC(C)(C)Sc3ccccc3"                                                                                                                                                                  
XF8 SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CCNC1=O)C(C(=O)NC2CC2)(O)S(=O)(=O)O)NC(=O)OCC(C)(C)Sc3ccccc3"                                                                                                                                                                                    
# 
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 
XF8 "SYSTEMATIC NAME" ACDLabs              12.01 "(2S,3S)-1-(cyclopropylamino)-2-hydroxy-3-[(N-{[2-methyl-2-(phenylsulfanyl)propoxy]carbonyl}-L-leucyl)amino]-1-oxo-4-[(3S)-2-oxopyrrolidin-3-yl]butane-2-sulfonic acid"                                                    
XF8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S},3~{S})-1-(cyclopropylamino)-3-[[(2~{S})-4-methyl-2-[(2-methyl-2-phenylsulfanyl-propoxy)carbonylamino]pentanoyl]amino]-2-oxidanyl-1-oxidanylidene-4-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]butane-2-sulfonic 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 
XF8 "Create component" 2022-11-14 RCSB 
XF8 "Initial release"  2022-11-23 RCSB 
XF8 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            XF8 
_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               C19 
_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      ? 
# 
