data_8VG
# 
_chem_comp.id                                    8VG 
_chem_comp.name                                  "5-[[(5~{S})-6-[[(1~{S})-1-(4-hydroxyphenyl)-2-oxidanylidene-2-(prop-2-ynylamino)ethyl]amino]-6-oxidanylidene-5-[[4-[3-(trifluoromethyl)-1,2-diazirin-3-yl]phenyl]carbonylamino]hexyl]amino]-5-sulfanylidene-pentanoic acid" 
_chem_comp.type                                  peptide-like 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C31 H33 F3 N6 O6 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-03-09 
_chem_comp.pdbx_modified_date                    2023-09-01 
_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                        674.691 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     8VG 
_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        7X3P 
_chem_comp.pdbx_subcomponent_list                "8KT 8QA D4P RRA" 
_chem_comp.pdbx_processing_site                  PDBJ 
# 
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 
8VG C33 C23 C 0 1 N N N 8.775  -14.477 52.368 -1.447 1.434  -0.950 C33  8KT 1  
8VG O34 O6  O 0 1 N N N 8.705  -14.734 53.530 -1.987 1.020  -1.958 O34  8KT 2  
8VG C35 C24 C 0 1 Y N N 9.306  -15.502 51.375 -1.498 2.875  -0.623 C35  8KT 3  
8VG C36 C25 C 0 1 Y N N 10.271 -16.395 51.774 -2.166 3.763  -1.469 C36  8KT 4  
8VG C37 C26 C 0 1 Y N N 10.735 -17.352 50.888 -2.210 5.106  -1.157 C37  8KT 5  
8VG C38 C27 C 0 1 Y N N 10.244 -17.367 49.593 -1.595 5.574  -0.010 C38  8KT 6  
8VG C39 C28 C 0 1 Y N N 9.283  -16.463 49.180 -0.932 4.700  0.833  C39  8KT 7  
8VG C40 C29 C 0 1 Y N N 8.806  -15.526 50.085 -0.885 3.353  0.536  C40  8KT 8  
8VG C41 C30 C 0 1 N N N 10.667 -18.357 48.539 -1.647 7.043  0.323  C41  8KT 9  
8VG C42 C31 C 0 1 N N N 11.754 -19.344 48.972 -2.831 7.501  1.177  C42  8KT 10 
8VG F43 F1  F 0 1 N N N 12.039 -20.152 47.907 -2.740 8.879  1.400  F43  8KT 11 
8VG F44 F2  F 0 1 N N N 11.374 -20.094 50.027 -4.026 7.214  0.509  F44  8KT 12 
8VG F45 F3  F 0 1 N N N 12.867 -18.674 49.331 -2.809 6.827  2.404  F45  8KT 13 
8VG N46 N5  N 0 1 N N N 10.724 -18.152 47.069 -1.049 7.996  -0.615 N46  8KT 14 
8VG N47 N6  N 0 1 N N N 9.767  -18.932 47.495 -0.387 7.786  0.415  N47  8KT 15 
8VG N01 N1  N 0 1 N N N 8.320  -13.222 51.826 -0.807 0.579  -0.129 N01  8QA 16 
8VG C02 C1  C 0 1 N N S 7.773  -12.271 52.753 -0.761 -0.850 -0.450 C02  8QA 17 
8VG C03 C2  C 0 1 N N N 6.371  -12.745 53.094 -2.010 -1.520 0.062  C03  8QA 18 
8VG O04 O1  O 0 1 N N N 5.540  -13.092 52.289 -2.855 -0.868 0.639  O04  8QA 19 
8VG C20 C14 C 0 1 N N N 7.756  -10.929 52.069 0.465  -1.482 0.212  C20  8QA 20 
8VG C21 C15 C 0 1 N N N 7.199  -9.862  53.029 1.737  -0.889 -0.398 C21  8QA 21 
8VG C22 C16 C 0 1 N N N 7.319  -8.472  52.376 2.963  -1.521 0.263  C22  8QA 22 
8VG C23 C17 C 0 1 N N N 6.755  -7.422  53.348 4.235  -0.928 -0.347 C23  8QA 23 
8VG N24 N4  N 0 1 N N N 6.832  -6.122  52.680 5.409  -1.534 0.286  N24  8QA 24 
8VG C25 C18 C 0 1 N N N 6.700  -4.940  53.445 6.647  -1.162 -0.094 C25  8QA 25 
8VG S26 S1  S 0 1 N N N 6.342  -4.961  55.008 6.834  -0.060 -1.237 S26  8QA 26 
8VG C27 C19 C 0 1 N N N 7.006  -3.665  52.671 7.854  -1.785 0.557  C27  8QA 27 
8VG C28 C20 C 0 1 N N N 5.845  -2.690  52.740 9.126  -1.192 -0.053 C28  8QA 28 
8VG C29 C21 C 0 1 N N N 4.602  -3.306  52.088 10.352 -1.824 0.609  C29  8QA 29 
8VG C30 C22 C 0 1 N N N 3.642  -2.137  52.044 11.604 -1.240 0.008  C30  8QA 30 
8VG O31 O4  O 0 1 N N N 3.358  -1.554  53.136 12.809 -1.649 0.437  O31  8QA 31 
8VG O32 O5  O 0 1 N N N 3.241  -1.750  50.915 11.525 -0.404 -0.861 O32  8QA 32 
8VG N05 N2  N 0 1 N N N 6.069  -12.795 54.503 -2.187 -2.843 -0.120 N    D4P 33 
8VG C06 C3  C 0 1 N N S 4.787  -13.288 54.929 -3.343 -3.517 0.478  CA   D4P 34 
8VG C07 C4  C 0 1 N N N 4.538  -12.750 56.311 -3.002 -4.961 0.740  C    D4P 35 
8VG O08 O2  O 0 1 N N N 5.455  -12.561 57.045 -2.079 -5.483 0.151  O    D4P 36 
8VG C13 C8  C 0 1 Y N N 4.810  -14.814 55.072 -4.514 -3.440 -0.468 C1   D4P 37 
8VG C14 C9  C 0 1 Y N N 6.013  -15.472 55.279 -5.765 -3.096 0.010  C2   D4P 38 
8VG C15 C10 C 0 1 Y N N 6.032  -16.858 55.411 -6.840 -3.025 -0.855 C3   D4P 39 
8VG C16 C11 C 0 1 Y N N 4.836  -17.554 55.319 -6.664 -3.300 -2.203 C4   D4P 40 
8VG O19 O3  O 0 1 N N N 4.830  -18.956 55.447 -7.720 -3.231 -3.056 O4   D4P 41 
8VG C17 C12 C 0 1 Y N N 3.633  -16.889 55.102 -5.407 -3.645 -2.680 C5   D4P 42 
8VG C18 C13 C 0 1 Y N N 3.616  -15.507 54.969 -4.334 -3.709 -1.812 C6   D4P 43 
8VG N09 N3  N 0 1 N N N 3.167  -12.508 56.662 -3.723 -5.673 1.629  N03  RRA 44 
8VG C10 C5  C 0 1 N N N 2.872  -12.009 58.022 -3.392 -7.077 1.883  C37  RRA 45 
8VG C11 C6  C 0 1 N N N 2.448  -10.540 58.016 -4.319 -7.626 2.886  C38  RRA 46 
8VG C12 C7  C 0 1 N N N 2.115  -9.398  58.013 -5.059 -8.063 3.686  C39  RRA 47 
8VG H30 H30 H 0 1 N N N 10.667 -16.350 52.778 -2.646 3.399  -2.365 H30  8KT 48 
8VG H31 H31 H 0 1 N N N 11.470 -18.078 51.202 -2.726 5.794  -1.811 H31  8KT 49 
8VG H32 H32 H 0 1 N N N 8.909  -16.486 48.167 -0.453 5.071  1.727  H32  8KT 50 
8VG H33 H33 H 0 1 N N N 8.048  -14.818 49.784 -0.367 2.671  1.195  H33  8KT 51 
8VG H1  H1  H 0 1 N N N 8.382  -13.022 50.848 -0.376 0.910  0.675  H1   8QA 52 
8VG H2  H2  H 0 1 N N N 8.381  -12.218 53.668 -0.697 -0.977 -1.531 H2   8QA 53 
8VG H14 H14 H 0 1 N N N 8.780  -10.656 51.774 0.447  -1.278 1.282  H14  8QA 54 
8VG H15 H15 H 0 1 N N N 7.119  -10.983 51.174 0.452  -2.559 0.047  H15  8QA 55 
8VG H16 H16 H 0 1 N N N 6.142  -10.077 53.243 1.756  -1.093 -1.469 H16  8QA 56 
8VG H17 H17 H 0 1 N N N 7.773  -9.877  53.967 1.751  0.189  -0.234 H17  8QA 57 
8VG H18 H18 H 0 1 N N N 8.376  -8.252  52.165 2.944  -1.317 1.334  H18  8QA 58 
8VG H19 H19 H 0 1 N N N 6.746  -8.453  51.437 2.949  -2.599 0.099  H19  8QA 59 
8VG H20 H20 H 0 1 N N N 5.709  -7.658  53.591 4.253  -1.133 -1.418 H20  8QA 60 
8VG H21 H21 H 0 1 N N N 7.352  -7.406  54.272 4.248  0.149  -0.183 H21  8QA 61 
8VG H22 H22 H 0 1 N N N 6.977  -6.070  51.692 5.295  -2.202 0.980  H22  8QA 62 
8VG H23 H23 H 0 1 N N N 7.198  -3.921  51.619 7.836  -1.581 1.628  H23  8QA 63 
8VG H24 H24 H 0 1 N N N 7.900  -3.190  53.101 7.841  -2.862 0.393  H24  8QA 64 
8VG H25 H25 H 0 1 N N N 6.114  -1.765  52.209 9.145  -1.396 -1.123 H25  8QA 65 
8VG H26 H26 H 0 1 N N N 5.627  -2.458  53.793 9.140  -0.114 0.112  H26  8QA 66 
8VG H27 H27 H 0 1 N N N 4.199  -4.128  52.698 10.333 -1.620 1.679  H27  8QA 67 
8VG H28 H28 H 0 1 N N N 4.825  -3.675  51.076 10.339 -2.902 0.444  H28  8QA 68 
8VG H29 H29 H 0 1 N N N 2.808  -0.800  52.959 13.583 -1.245 0.022  H29  8QA 69 
8VG H3  H3  H 0 1 N N N 6.743  -12.490 55.176 -1.550 -3.350 -0.648 HN2  D4P 70 
8VG H4  H4  H 0 1 N N N 3.985  -12.981 54.242 -3.602 -3.028 1.417  HA   D4P 71 
8VG H9  H9  H 0 1 N N N 6.934  -14.910 55.338 -5.902 -2.882 1.060  H2   D4P 72 
8VG H10 H10 H 0 1 N N N 6.961  -17.381 55.582 -7.817 -2.757 -0.481 H3   D4P 73 
8VG H13 H13 H 0 1 N N N 5.717  -19.265 55.590 -7.848 -2.359 -3.453 H4   D4P 74 
8VG H11 H11 H 0 1 N N N 2.712  -17.448 55.037 -5.267 -3.860 -3.729 H5   D4P 75 
8VG H12 H12 H 0 1 N N N 2.689  -14.983 54.789 -3.355 -3.973 -2.183 H6   D4P 76 
8VG H5  H5  H 0 1 N N N 2.432  -12.672 56.004 -4.461 -5.255 2.100  HN03 RRA 77 
8VG H6  H6  H 0 1 N N N 2.058  -12.611 58.452 -3.481 -7.645 0.957  H37  RRA 78 
8VG H7  H7  H 0 1 N N N 3.774  -12.115 58.642 -2.370 -7.148 2.256  H37A RRA 79 
8VG H8  H8  H 0 1 N N N 1.818  -8.380  58.010 -5.720 -8.455 4.401  H39  RRA 80 
# 
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 
8VG N46 N47 DOUB N N 1  
8VG N46 C41 SING N N 2  
8VG N47 C41 SING N N 3  
8VG F43 C42 SING N N 4  
8VG C41 C42 SING N N 5  
8VG C41 C38 SING N N 6  
8VG C42 F45 SING N N 7  
8VG C42 F44 SING N N 8  
8VG C39 C38 DOUB Y N 9  
8VG C39 C40 SING Y N 10 
8VG C38 C37 SING Y N 11 
8VG C40 C35 DOUB Y N 12 
8VG C37 C36 DOUB Y N 13 
8VG O32 C30 DOUB N N 14 
8VG C35 C36 SING Y N 15 
8VG C35 C33 SING N N 16 
8VG N01 C33 SING N N 17 
8VG N01 C02 SING N N 18 
8VG C30 C29 SING N N 19 
8VG C30 O31 SING N N 20 
8VG C20 C02 SING N N 21 
8VG C20 C21 SING N N 22 
8VG C29 C28 SING N N 23 
8VG O04 C03 DOUB N N 24 
8VG C33 O34 DOUB N N 25 
8VG C22 C21 SING N N 26 
8VG C22 C23 SING N N 27 
8VG C27 C28 SING N N 28 
8VG C27 C25 SING N N 29 
8VG N24 C23 SING N N 30 
8VG N24 C25 SING N N 31 
8VG C02 C03 SING N N 32 
8VG C03 N05 SING N N 33 
8VG C25 S26 DOUB N N 34 
8VG N05 C06 SING N N 35 
8VG C06 C13 SING N N 36 
8VG C06 C07 SING N N 37 
8VG C18 C13 DOUB Y N 38 
8VG C18 C17 SING Y N 39 
8VG C13 C14 SING Y N 40 
8VG C17 C16 DOUB Y N 41 
8VG C14 C15 DOUB Y N 42 
8VG C16 C15 SING Y N 43 
8VG C16 O19 SING N N 44 
8VG C07 N09 SING N N 45 
8VG C07 O08 DOUB N N 46 
8VG N09 C10 SING N N 47 
8VG C12 C11 TRIP N N 48 
8VG C11 C10 SING N N 49 
8VG N01 H1  SING N N 50 
8VG C02 H2  SING N N 51 
8VG N05 H3  SING N N 52 
8VG C06 H4  SING N N 53 
8VG N09 H5  SING N N 54 
8VG C10 H6  SING N N 55 
8VG C10 H7  SING N N 56 
8VG C12 H8  SING N N 57 
8VG C14 H9  SING N N 58 
8VG C15 H10 SING N N 59 
8VG C17 H11 SING N N 60 
8VG C18 H12 SING N N 61 
8VG O19 H13 SING N N 62 
8VG C20 H14 SING N N 63 
8VG C20 H15 SING N N 64 
8VG C21 H16 SING N N 65 
8VG C21 H17 SING N N 66 
8VG C22 H18 SING N N 67 
8VG C22 H19 SING N N 68 
8VG C23 H20 SING N N 69 
8VG C23 H21 SING N N 70 
8VG N24 H22 SING N N 71 
8VG C27 H23 SING N N 72 
8VG C27 H24 SING N N 73 
8VG C28 H25 SING N N 74 
8VG C28 H26 SING N N 75 
8VG C29 H27 SING N N 76 
8VG C29 H28 SING N N 77 
8VG O31 H29 SING N N 78 
8VG C36 H30 SING N N 79 
8VG C37 H31 SING N N 80 
8VG C39 H32 SING N N 81 
8VG C40 H33 SING N N 82 
# 
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 
8VG InChI            InChI                1.03  "InChI=1S/C31H33F3N6O6S/c1-2-17-36-29(46)26(19-11-15-22(41)16-12-19)38-28(45)23(6-3-4-18-35-24(47)7-5-8-25(42)43)37-27(44)20-9-13-21(14-10-20)30(39-40-30)31(32,33)34/h1,9-16,23,26,41H,3-8,17-18H2,(H,35,47)(H,36,46)(H,37,44)(H,38,45)(H,42,43)/t23-,26-/m0/s1" 
8VG InChIKey         InChI                1.03  BSPJSERNTAGWAV-OZXSUGGESA-N                                                                                                                                                                                                                                       
8VG SMILES_CANONICAL CACTVS               3.385 "OC(=O)CCCC(=S)NCCCC[C@H](NC(=O)c1ccc(cc1)C2(N=N2)C(F)(F)F)C(=O)N[C@H](C(=O)NCC#C)c3ccc(O)cc3"                                                                                                                                                                    
8VG SMILES           CACTVS               3.385 "OC(=O)CCCC(=S)NCCCC[CH](NC(=O)c1ccc(cc1)C2(N=N2)C(F)(F)F)C(=O)N[CH](C(=O)NCC#C)c3ccc(O)cc3"                                                                                                                                                                      
8VG SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C#CCNC(=O)[C@H](c1ccc(cc1)O)NC(=O)[C@H](CCCCNC(=S)CCCC(=O)O)NC(=O)c2ccc(cc2)C3(N=N3)C(F)(F)F"                                                                                                                                                                    
8VG SMILES           "OpenEye OEToolkits" 2.0.7 "C#CCNC(=O)C(c1ccc(cc1)O)NC(=O)C(CCCCNC(=S)CCCC(=O)O)NC(=O)c2ccc(cc2)C3(N=N3)C(F)(F)F"                                                                                                                                                                            
# 
_pdbx_chem_comp_identifier.comp_id           8VG 
_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        "5-[[(5~{S})-6-[[(1~{S})-1-(4-hydroxyphenyl)-2-oxidanylidene-2-(prop-2-ynylamino)ethyl]amino]-6-oxidanylidene-5-[[4-[3-(trifluoromethyl)-1,2-diazirin-3-yl]phenyl]carbonylamino]hexyl]amino]-5-sulfanylidene-pentanoic 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 
8VG "Create component" 2022-03-09 PDBJ 
8VG "Initial release"  2023-09-06 RCSB 
# 
