data_X5X
# 
_chem_comp.id                                    X5X 
_chem_comp.name                                  "(2R,4S)-2-[(1R)-2-[[(5S)-5-acetamido-6-oxidanyl-6-oxidanylidene-hexyl]amino]-2-oxidanylidene-1-(2-phenylethanoylamino)ethyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C24 H34 N4 O7 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         PenG-Lys 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-10-23 
_chem_comp.pdbx_modified_date                    2024-07-26 
_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                        522.614 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     X5X 
_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        8QXC 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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 
X5X C4  C1  C 0 1 N N N N N N -57.033 -6.841 -20.921 5.692  0.182  0.979  C4  X5X 1  
X5X C14 C2  C 0 1 Y N N N N N -49.346 -4.774 -29.576 -7.711 3.339  1.314  C14 X5X 2  
X5X C5  C3  C 0 1 N N N N N N -57.203 -6.348 -22.365 4.627  0.942  0.186  C5  X5X 3  
X5X C6  C4  C 0 1 N N N N N N -57.159 -4.842 -22.622 3.238  0.439  0.585  C6  X5X 4  
X5X C11 C5  C 0 1 N N N N N N -53.085 -4.132 -29.627 -4.941 2.349  -1.052 C11 X5X 5  
X5X C7  C6  C 0 1 N N N N N N -57.346 -4.509 -24.094 2.173  1.199  -0.207 C7  X5X 6  
X5X C8  C7  C 0 1 N N N N N N -55.421 -4.431 -25.594 -0.256 1.247  -0.399 C8  X5X 7  
X5X C9  C8  C 0 1 N N R N N N -54.282 -5.221 -26.238 -1.624 0.751  -0.006 C9  X5X 8  
X5X C10 C9  C 0 1 N N N N N N -53.428 -5.030 -28.453 -3.892 1.600  -0.272 C10 X5X 9  
X5X C12 C10 C 0 1 Y N N N N N -51.596 -3.925 -29.752 -6.240 2.338  -0.287 C12 X5X 10 
X5X C13 C11 C 0 1 Y N N N N N -50.712 -4.963 -29.474 -6.520 3.349  0.613  C13 X5X 11 
X5X N1  N1  N 0 1 N N N N N N -59.238 -5.724 -20.599 7.334  0.356  -0.825 N1  X5X 12 
X5X N2  N2  N 0 1 N N N N N N -56.324 -5.142 -24.913 0.843  0.717  0.175  N2  X5X 13 
X5X C3  C12 C 0 1 N N S N N N -58.271 -6.644 -20.030 7.080  0.685  0.580  C3  X5X 14 
X5X N3  N3  N 0 1 N N N N N N -53.664 -4.421 -27.287 -2.644 1.479  -0.765 N3  X5X 15 
X5X C1  C13 C 0 1 N N N N N N -61.270 -5.029 -21.703 8.469  0.750  -2.987 C1  X5X 16 
X5X C15 C14 C 0 1 Y N N N N N -48.850 -3.543 -29.952 -8.622 2.319  1.115  C15 X5X 17 
X5X C16 C15 C 0 1 Y N N N N N -49.713 -2.502 -30.225 -8.344 1.311  0.211  C16 X5X 18 
X5X C17 C16 C 0 1 Y N N N N N -51.081 -2.690 -30.125 -7.156 1.324  -0.495 C17 X5X 19 
X5X C18 C17 C 0 1 N N R N N N -53.367 -6.013 -25.258 -1.732 -0.744 -0.311 C18 X5X 20 
X5X C19 C18 C 0 1 N N S N N N -51.933 -6.098 -23.286 -3.111 -2.705 0.114  C19 X5X 21 
X5X C2  C19 C 0 1 N N N N N N -60.410 -6.118 -21.087 8.209  1.089  -1.542 C2  X5X 22 
X5X C20 C20 C 0 1 N N N N N N -52.328 -6.819 -21.987 -3.299 -3.345 -1.237 C20 X5X 23 
X5X C21 C21 C 0 1 N N N N N N -51.171 -7.055 -24.270 -1.809 -3.240 0.741  C21 X5X 24 
X5X C22 C22 C 0 1 N N N N N N -51.655 -8.490 -24.262 -1.149 -4.266 -0.182 C22 X5X 25 
X5X C23 C23 C 0 1 N N N N N N -49.667 -7.022 -24.093 -2.085 -3.853 2.115  C23 X5X 26 
X5X C24 C24 C 0 1 N N N N N N -57.768 -6.067 -18.699 8.122  0.025  1.446  C24 X5X 27 
X5X N4  N4  N 0 1 N N N N N N -53.107 -5.470 -23.912 -3.109 -1.248 -0.048 N4  X5X 28 
X5X O1  O1  O 0 1 N N N N N N -60.778 -7.306 -21.044 8.786  2.022  -1.024 O1  X5X 29 
X5X O2  O2  O 0 1 N N N N N N -55.438 -3.197 -25.663 -0.144 2.122  -1.231 O2  X5X 30 
X5X O3  O3  O 0 1 N N N N N N -53.547 -6.254 -28.599 -4.171 1.106  0.800  O3  X5X 31 
X5X O4  O4  O 0 1 N N N N N N -51.469 -6.900 -21.079 -3.001 -2.738 -2.239 O4  X5X 32 
X5X O5  O5  O 0 1 N N N N N N -53.487 -7.290 -21.937 -3.795 -4.588 -1.329 O5  X5X 33 
X5X O6  O6  O 0 1 N N N N N N -57.991 -6.686 -17.630 8.987  -0.650 0.942  O6  X5X 34 
X5X O7  O7  O 0 1 N N N N N N -57.144 -4.987 -18.804 8.088  0.189  2.778  O7  X5X 35 
X5X S1  S1  S 0 1 N N N N N N -51.671 -6.300 -25.823 -0.761 -1.740 0.896  S1  X5X 36 
X5X H7  H1  H 0 1 N N N N N N -56.193 -6.294 -20.468 5.538  0.347  2.045  H7  X5X 37 
X5X H6  H2  H 0 1 N N N N N N -56.798 -7.915 -20.950 5.615  -0.883 0.762  H6  X5X 38 
X5X H20 H3  H 0 1 N N N N N N -48.669 -5.588 -29.362 -7.928 4.127  2.021  H20 X5X 39 
X5X H9  H4  H 0 1 N N N N N N -56.400 -6.805 -22.963 4.703  2.007  0.403  H9  X5X 40 
X5X H8  H5  H 0 1 N N N N N N -58.178 -6.712 -22.722 4.780  0.777  -0.880 H8  X5X 41 
X5X H10 H6  H 0 1 N N N N N N -57.961 -4.360 -22.044 3.161  -0.626 0.368  H10 X5X 42 
X5X H11 H7  H 0 1 N N N N N N -56.184 -4.454 -22.291 3.084  0.604  1.652  H11 X5X 43 
X5X H17 H8  H 0 1 N N N N N N -53.460 -4.595 -30.552 -4.617 3.378  -1.203 H17 X5X 44 
X5X H18 H9  H 0 1 N N N N N N -53.570 -3.155 -29.483 -5.086 1.868  -2.020 H18 X5X 45 
X5X H12 H10 H 0 1 N N N N N N -58.336 -4.863 -24.419 2.249  2.264  0.010  H12 X5X 46 
X5X H13 H11 H 0 1 N N N N N N -57.286 -3.419 -24.225 2.326  1.034  -1.274 H13 X5X 47 
X5X H15 H12 H 0 1 N N N N N N -54.806 -6.018 -26.786 -1.778 0.916  1.061  H15 X5X 48 
X5X H19 H13 H 0 1 N N N N N N -51.097 -5.927 -29.175 -5.808 4.146  0.768  H19 X5X 49 
X5X H4  H14 H 0 1 N N N N N N -59.013 -4.750 -20.625 6.872  -0.390 -1.239 H4  X5X 50 
X5X H14 H15 H 0 1 N N N N N N -56.297 -6.140 -24.968 0.753  0.018  0.840  H14 X5X 51 
X5X H5  H16 H 0 1 N N N N N N -58.739 -7.622 -19.844 7.128  1.766  0.714  H5  X5X 52 
X5X H16 H17 H 0 1 N N N N N N -53.427 -3.460 -27.141 -2.421 1.874  -1.622 H16 X5X 53 
X5X H3  H18 H 0 1 N N N N N N -62.208 -5.468 -22.074 9.200  1.447  -3.397 H3  X5X 54 
X5X H1  H19 H 0 1 N N N N N N -61.497 -4.267 -20.943 8.858  -0.266 -3.057 H1  X5X 55 
X5X H2  H20 H 0 1 N N N N N N -60.728 -4.563 -22.539 7.540  0.824  -3.551 H2  X5X 56 
X5X H21 H21 H 0 1 N N N N N N -47.783 -3.394 -30.033 -9.551 2.309  1.666  H21 X5X 57 
X5X H22 H22 H 0 1 N N N N N N -49.321 -1.539 -30.517 -9.056 0.513  0.056  H22 X5X 58 
X5X H23 H23 H 0 1 N N N N N N -51.752 -1.871 -30.338 -6.937 0.534  -1.198 H23 X5X 59 
X5X H24 H24 H 0 1 N N N N N N -53.800 -7.018 -25.147 -1.424 -0.957 -1.334 H24 X5X 60 
X5X H26 H25 H 0 1 N N N N N N -51.228 -5.299 -23.011 -3.949 -2.984 0.753  H26 X5X 61 
X5X H27 H26 H 0 1 N N N N N N -51.065 -9.080 -24.978 -0.914 -3.796 -1.138 H27 X5X 62 
X5X H28 H27 H 0 1 N N N N N N -51.535 -8.912 -23.253 -0.231 -4.631 0.278  H28 X5X 63 
X5X H29 H28 H 0 1 N N N N N N -52.717 -8.520 -24.548 -1.831 -5.100 -0.345 H29 X5X 64 
X5X H30 H29 H 0 1 N N N N N N -49.198 -7.712 -24.810 -2.791 -4.678 2.010  H30 X5X 65 
X5X H31 H30 H 0 1 N N N N N N -49.299 -6.001 -24.272 -1.153 -4.225 2.541  H31 X5X 66 
X5X H32 H31 H 0 1 N N N N N N -49.412 -7.329 -23.068 -2.508 -3.095 2.773  H32 X5X 67 
X5X H33 H32 H 0 1 N N N N N N -52.947 -4.486 -23.986 -3.513 -0.794 0.757  H33 X5X 68 
X5X H34 H34 H 0 1 N N N N N N -53.618 -7.721 -21.101 -3.897 -4.956 -2.217 H34 X5X 69 
X5X H35 H35 H 0 1 N N N N N N -56.860 -4.700 -17.944 8.777  -0.254 3.292  H35 X5X 70 
# 
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 
X5X C1  C2  SING N N 1  
X5X C2  O1  DOUB N N 2  
X5X C2  N1  SING N N 3  
X5X N1  C3  SING N N 4  
X5X C3  C4  SING N N 5  
X5X C4  C5  SING N N 6  
X5X C5  C6  SING N N 7  
X5X C6  C7  SING N N 8  
X5X C7  N2  SING N N 9  
X5X N2  C8  SING N N 10 
X5X C8  O2  DOUB N N 11 
X5X C8  C9  SING N N 12 
X5X C9  N3  SING N N 13 
X5X N3  C10 SING N N 14 
X5X C10 O3  DOUB N N 15 
X5X C10 C11 SING N N 16 
X5X C11 C12 SING N N 17 
X5X C12 C13 DOUB Y N 18 
X5X C13 C14 SING Y N 19 
X5X C14 C15 DOUB Y N 20 
X5X C15 C16 SING Y N 21 
X5X C16 C17 DOUB Y N 22 
X5X C9  C18 SING N N 23 
X5X C18 N4  SING N N 24 
X5X N4  C19 SING N N 25 
X5X C19 C20 SING N N 26 
X5X C20 O4  DOUB N N 27 
X5X C20 O5  SING N N 28 
X5X C19 C21 SING N N 29 
X5X C21 C22 SING N N 30 
X5X C21 C23 SING N N 31 
X5X C21 S1  SING N N 32 
X5X C3  C24 SING N N 33 
X5X C24 O6  DOUB N N 34 
X5X C24 O7  SING N N 35 
X5X C12 C17 SING Y N 36 
X5X C18 S1  SING N N 37 
X5X C4  H7  SING N N 38 
X5X C4  H6  SING N N 39 
X5X C14 H20 SING N N 40 
X5X C5  H9  SING N N 41 
X5X C5  H8  SING N N 42 
X5X C6  H10 SING N N 43 
X5X C6  H11 SING N N 44 
X5X C11 H17 SING N N 45 
X5X C11 H18 SING N N 46 
X5X C7  H12 SING N N 47 
X5X C7  H13 SING N N 48 
X5X C9  H15 SING N N 49 
X5X C13 H19 SING N N 50 
X5X N1  H4  SING N N 51 
X5X N2  H14 SING N N 52 
X5X C3  H5  SING N N 53 
X5X N3  H16 SING N N 54 
X5X C1  H3  SING N N 55 
X5X C1  H1  SING N N 56 
X5X C1  H2  SING N N 57 
X5X C15 H21 SING N N 58 
X5X C16 H22 SING N N 59 
X5X C17 H23 SING N N 60 
X5X C18 H24 SING N N 61 
X5X C19 H26 SING N N 62 
X5X C22 H27 SING N N 63 
X5X C22 H28 SING N N 64 
X5X C22 H29 SING N N 65 
X5X C23 H30 SING N N 66 
X5X C23 H31 SING N N 67 
X5X C23 H32 SING N N 68 
X5X N4  H33 SING N N 69 
X5X O5  H34 SING N N 70 
X5X O7  H35 SING N N 71 
# 
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 
X5X InChI            InChI                1.06  "InChI=1S/C24H34N4O7S/c1-14(29)26-16(22(32)33)11-7-8-12-25-20(31)18(21-28-19(23(34)35)24(2,3)36-21)27-17(30)13-15-9-5-4-6-10-15/h4-6,9-10,16,18-19,21,28H,7-8,11-13H2,1-3H3,(H,25,31)(H,26,29)(H,27,30)(H,32,33)(H,34,35)/t16-,18+,19-,21+/m0/s1" 
X5X InChIKey         InChI                1.06  JXFMICAVKFQPRG-GZMOKQHVSA-N                                                                                                                                                                                                                       
X5X SMILES_CANONICAL CACTVS               3.385 "CC(=O)N[C@@H](CCCCNC(=O)[C@@H](NC(=O)Cc1ccccc1)[C@@H]2N[C@@H](C(O)=O)C(C)(C)S2)C(O)=O"                                                                                                                                                           
X5X SMILES           CACTVS               3.385 "CC(=O)N[CH](CCCCNC(=O)[CH](NC(=O)Cc1ccccc1)[CH]2N[CH](C(O)=O)C(C)(C)S2)C(O)=O"                                                                                                                                                                   
X5X SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)N[C@@H](CCCCNC(=O)[C@H]([C@@H]1N[C@H](C(S1)(C)C)C(=O)O)NC(=O)Cc2ccccc2)C(=O)O"                                                                                                                                                             
X5X SMILES           "OpenEye OEToolkits" 2.0.7 "CC(=O)NC(CCCCNC(=O)C(C1NC(C(S1)(C)C)C(=O)O)NC(=O)Cc2ccccc2)C(=O)O"                                                                                                                                                                               
# 
_pdbx_chem_comp_identifier.comp_id           X5X 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.7 
_pdbx_chem_comp_identifier.identifier        "(2~{R},4~{S})-2-[(1~{R})-2-[[(5~{S})-5-acetamido-6-oxidanyl-6-oxidanylidene-hexyl]amino]-2-oxidanylidene-1-(2-phenylethanoylamino)ethyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic 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 
X5X "Create component" 2023-10-25 PDBE 
X5X "Initial release"  2024-07-31 RCSB 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      X5X 
_pdbx_chem_comp_synonyms.name         PenG-Lys 
_pdbx_chem_comp_synonyms.provenance   AUTHOR 
_pdbx_chem_comp_synonyms.type         ? 
# 
