data_P9R
# 
_chem_comp.id                                    P9R 
_chem_comp.name                                  "[(1~{S},2~{S})-2-(cyclohexylmethyl)cyclopropyl]methyl ~{N}-[(2~{S})-1-[[(2~{S})-1-[bis(oxidanyl)-oxidanylidene-$l^{5}-sulfanyl]-1-oxidanyl-3-[(3~{R})-2-oxidanylidene-3,4-dihydropyrrol-3-yl]propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-2-yl]carbamate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C25 H42 N3 O8 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    1 
_chem_comp.pdbx_initial_date                     2022-05-26 
_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                        544.681 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     P9R 
_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        8CZU 
_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 
P9R C14 C1  C 0 1 N N N N N N -20.336 23.807 7.659  3.194   3.123  0.334  C14 P9R 1  
P9R C16 C2  C 0 1 N N N N N N -22.653 23.553 8.040  4.203   5.100  0.447  C16 P9R 2  
P9R C17 C3  C 0 1 N N N N N N -22.477 24.559 6.887  4.990   4.375  -0.623 C17 P9R 3  
P9R C19 C4  C 0 1 N N R N N N -20.690 28.428 5.739  5.639   -0.592 -0.460 C19 P9R 4  
P9R C13 C5  C 0 1 N N R N N N -20.969 24.626 6.562  4.289   3.001  -0.706 C13 P9R 5  
P9R C12 C6  C 0 1 N N N N N N -20.368 26.022 6.464  5.259   1.875  -0.343 C12 P9R 6  
P9R C11 C7  C 0 1 N N S N N N -21.041 26.939 5.417  4.611   0.524  -0.655 C11 P9R 7  
P9R C02 C8  C 0 1 N N N N N N -21.261 23.524 2.370  -1.268  -0.354 0.455  C02 P9R 8  
P9R C04 C9  C 0 1 N N S N N N -20.799 25.818 1.665  1.156   -0.424 0.692  C04 P9R 9  
P9R C05 C10 C 0 1 N N N N N N -21.386 26.738 0.558  1.465   -1.678 1.513  C05 P9R 10 
P9R C06 C11 C 0 1 N N N N N N -20.966 26.330 -0.875 2.680   -1.417 2.405  C06 P9R 11 
P9R C07 C12 C 0 1 N N N N N N -19.474 25.975 -0.975 2.327   -0.358 3.451  C07 P9R 12 
P9R C08 C13 C 0 1 N N N N N N -21.234 27.434 -1.900 3.083   -2.714 3.109  C08 P9R 13 
P9R C09 C14 C 0 1 N N N N N N -21.411 26.140 3.038  2.303   -0.141 -0.243 C09 P9R 14 
P9R C23 C15 C 0 1 N N N N N N -22.455 21.605 3.085  -3.654  -0.311 0.424  C23 P9R 15 
P9R C24 C16 C 0 1 N N S N N N -21.937 20.365 2.437  -4.815  -0.713 -0.488 C24 P9R 16 
P9R C25 C17 C 0 1 N N R N N N -22.964 19.248 2.165  -6.229  -0.336 -0.039 C25 P9R 17 
P9R C26 C18 C 0 1 N N N N N N -23.077 18.741 0.753  -7.237  0.045  -1.125 C26 P9R 18 
P9R C27 C19 C 0 1 N N N N N N -23.090 17.225 0.561  -8.541  0.505  -0.471 C27 P9R 19 
P9R C28 C20 C 0 1 N N N N N N -24.068 16.739 -0.518 -9.505  1.003  -1.551 C28 P9R 20 
P9R C29 C21 C 0 1 N N N N N N -23.875 15.298 -0.955 -10.809 1.463  -0.897 C29 P9R 21 
P9R C30 C22 C 0 1 N N N N N N -22.442 15.033 -1.340 -11.445 0.291  -0.147 C30 P9R 22 
P9R C31 C23 C 0 1 N N N N N N -21.532 15.333 -0.178 -10.482 -0.207 0.932  C31 P9R 23 
P9R C32 C24 C 0 1 N N N N N N -21.649 16.777 0.232  -9.177  -0.667 0.279  C32 P9R 24 
P9R C33 C25 C 0 1 N N N N N N -21.770 19.003 3.075  -5.771  -1.795 0.020  C33 P9R 25 
P9R N03 N1  N 0 1 N N N N N N -21.183 24.436 1.339  -0.067  -0.638 -0.086 N03 P9R 26 
P9R N10 N2  N 0 1 N N N N N N -20.603 26.604 4.060  3.477   0.307  0.247  N10 P9R 27 
P9R N15 N3  N 0 1 N N N N N N -21.304 23.222 8.462  3.264   4.340  0.891  N15 P9R 28 
P9R O01 O1  O 0 1 N N N N N N -20.502 23.423 3.306  -1.333  0.164  1.552  O01 P9R 29 
P9R O18 O2  O 0 1 N N N N N N -19.133 23.635 7.870  2.384   2.264  0.612  O18 P9R 30 
P9R O20 O3  O 0 1 N N N N N N -21.624 29.209 5.062  6.828   -0.277 -1.187 O20 P9R 31 
P9R O21 O4  O 0 1 N N N N N N -22.636 25.954 3.223  2.171   -0.315 -1.436 O21 P9R 32 
P9R O22 O5  O 0 1 N N N N N N -22.349 22.732 2.217  -2.396  -0.645 -0.220 O22 P9R 33 
P9R H1  H1  H 0 1 N N N N N N -23.580 23.176 8.447  4.399   6.107  0.786  H1  P9R 34 
P9R H2  H2  H 0 1 N N N N N N -22.840 25.551 7.194  4.920   4.900  -1.575 H2  P9R 35 
P9R H3  H3  H 0 1 N N N N N N -23.038 24.221 6.003  6.032   4.261  -0.323 H3  P9R 36 
P9R H4  H4  H 0 1 N N N N N N -20.092 28.719 6.616  5.876   -0.686 0.600  H4  P9R 37 
P9R H6  H6  H 0 1 N N N N N N -20.804 24.111 5.604  3.865   2.843  -1.697 H6  P9R 38 
P9R H7  H7  H 0 1 N N N N N N -19.305 25.920 6.199  6.174   1.982  -0.924 H7  P9R 39 
P9R H8  H8  H 0 1 N N N N N N -20.456 26.504 7.449  5.495   1.927  0.720  H8  P9R 40 
P9R H9  H9  H 0 1 N N N N N N -22.131 26.816 5.494  4.261   0.519  -1.687 H9  P9R 41 
P9R H10 H10 H 0 1 N N N N N N -19.705 25.927 1.702  1.016   0.424  1.363  H10 P9R 42 
P9R H11 H11 H 0 1 N N N N N N -21.041 27.766 0.742  0.604   -1.926 2.135  H11 P9R 43 
P9R H12 H12 H 0 1 N N N N N N -22.484 26.702 0.622  1.679   -2.509 0.841  H12 P9R 44 
P9R H13 H13 H 0 1 N N N N N N -21.550 25.443 -1.162 3.510   -1.063 1.794  H13 P9R 45 
P9R H14 H14 H 0 1 N N N N N N -19.236 25.181 -0.252 3.212   -0.124 4.043  H14 P9R 46 
P9R H15 H15 H 0 1 N N N N N N -19.248 25.623 -1.993 1.977   0.545  2.950  H15 P9R 47 
P9R H16 H16 H 0 1 N N N N N N -18.869 26.867 -0.753 1.542   -0.739 4.104  H16 P9R 48 
P9R H17 H17 H 0 1 N N N N N N -22.295 27.720 -1.862 3.334   -3.470 2.365  H17 P9R 49 
P9R H18 H18 H 0 1 N N N N N N -20.610 28.309 -1.667 3.949   -2.529 3.745  H18 P9R 50 
P9R H19 H19 H 0 1 N N N N N N -20.989 27.066 -2.907 2.253   -3.069 3.721  H19 P9R 51 
P9R H20 H20 H 0 1 N N N N N N -21.873 21.801 3.998  -3.693  0.762  0.610  H20 P9R 52 
P9R H21 H21 H 0 1 N N N N N N -23.512 21.455 3.349  -3.732  -0.848 1.369  H21 P9R 53 
P9R H22 H22 H 0 1 N N N N N N -21.256 20.548 1.593  -4.604  -0.690 -1.557 H22 P9R 54 
P9R H23 H23 H 0 1 N N N N N N -23.922 19.376 2.690  -6.331  0.198  0.906  H23 P9R 55 
P9R H24 H24 H 0 1 N N N N N N -22.222 19.140 0.187  -6.830  0.853  -1.732 H24 P9R 56 
P9R H25 H25 H 0 1 N N N N N N -24.013 19.137 0.332  -7.433  -0.821 -1.758 H25 P9R 57 
P9R H26 H26 H 0 1 N N N N N N -23.379 16.762 1.516  -8.331  1.313  0.229  H26 P9R 58 
P9R H27 H27 H 0 1 N N N N N N -23.949 17.383 -1.402 -9.052  1.838  -2.085 H27 P9R 59 
P9R H28 H28 H 0 1 N N N N N N -25.090 16.842 -0.124 -9.715  0.194  -2.251 H28 P9R 60 
P9R H29 H29 H 0 1 N N N N N N -24.523 15.096 -1.821 -10.599 2.271  -0.197 H29 P9R 61 
P9R H30 H30 H 0 1 N N N N N N -24.153 14.631 -0.126 -11.496 1.818  -1.666 H30 P9R 62 
P9R H31 H31 H 0 1 N N N N N N -22.331 13.977 -1.626 -12.375 0.619  0.319  H31 P9R 63 
P9R H32 H32 H 0 1 N N N N N N -22.169 15.674 -2.191 -11.655 -0.518 -0.847 H32 P9R 64 
P9R H33 H33 H 0 1 N N N N N N -21.809 14.693 0.672  -10.272 0.601  1.633  H33 P9R 65 
P9R H34 H34 H 0 1 N N N N N N -20.492 15.124 -0.470 -10.935 -1.042 1.467  H34 P9R 66 
P9R H35 H35 H 0 1 N N N N N N -21.026 16.934 1.125  -9.387  -1.476 -0.422 H35 P9R 67 
P9R H36 H36 H 0 1 N N N N N N -21.273 17.401 -0.592 -8.491  -1.022 1.048  H36 P9R 68 
P9R H37 H37 H 0 1 N N N N N N -21.923 18.884 4.158  -6.188  -2.483 -0.715 H37 P9R 69 
P9R H38 H38 H 0 1 N N N N N N -20.957 18.340 2.744  -5.572  -2.220 1.004  H38 P9R 70 
P9R H39 H39 H 0 1 N N N N N N -21.382 24.166 0.397  -0.012  -0.984 -0.990 H39 P9R 71 
P9R H40 H40 H 0 1 N N N N N N -19.632 26.721 3.854  3.570   0.485  1.195  H40 P9R 72 
P9R H41 H41 H 0 1 N N N N N N -21.450 30.128 5.229  7.249   0.550  -0.914 H41 P9R 73 
P9R S1  S1  S 1 1 N Y N N N N ?       ?      ?      4.955   -2.158 -1.068 S1  P9R 74 
P9R O1  O6  O 0 1 N Y N N N N ?       ?      ?      5.863   -3.250 -1.044 O1  P9R 75 
P9R O2  O7  O 0 1 N Y N N N N ?       ?      ?      3.749   -2.518 -0.212 O2  P9R 76 
P9R O3  O8  O 0 1 N Y N N N N ?       ?      ?      4.491   -1.952 -2.503 O3  P9R 77 
P9R H5  H5  H 0 1 N Y N N N N ?       ?      ?      3.318   -3.345 -0.467 H5  P9R 78 
P9R H42 H42 H 0 1 N Y N N N N ?       ?      ?      3.865   -1.223 -2.613 H42 P9R 79 
# 
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 
P9R C08 C06 SING N N 1  
P9R C30 C29 SING N N 2  
P9R C30 C31 SING N N 3  
P9R C07 C06 SING N N 4  
P9R C29 C28 SING N N 5  
P9R C06 C05 SING N N 6  
P9R C28 C27 SING N N 7  
P9R C31 C32 SING N N 8  
P9R C32 C27 SING N N 9  
P9R C05 C04 SING N N 10 
P9R C27 C26 SING N N 11 
P9R C26 C25 SING N N 12 
P9R N03 C04 SING N N 13 
P9R N03 C02 SING N N 14 
P9R C04 C09 SING N N 15 
P9R C25 C24 SING N N 16 
P9R C25 C33 SING N N 17 
P9R O22 C02 SING N N 18 
P9R O22 C23 SING N N 19 
P9R C02 O01 DOUB N N 20 
P9R C24 C33 SING N N 21 
P9R C24 C23 SING N N 22 
P9R C09 O21 DOUB N N 23 
P9R C09 N10 SING N N 24 
P9R N10 C11 SING N N 25 
P9R O20 C19 SING N N 26 
P9R C11 C19 SING N N 27 
P9R C11 C12 SING N N 28 
P9R C12 C13 SING N N 29 
P9R C13 C17 SING N N 30 
P9R C13 C14 SING N N 31 
P9R C17 C16 SING N N 32 
P9R C14 O18 DOUB N N 33 
P9R C14 N15 SING N N 34 
P9R C16 N15 DOUB N N 35 
P9R C16 H1  SING N N 36 
P9R C17 H2  SING N N 37 
P9R C17 H3  SING N N 38 
P9R C19 H4  SING N N 39 
P9R C13 H6  SING N N 40 
P9R C12 H7  SING N N 41 
P9R C12 H8  SING N N 42 
P9R C11 H9  SING N N 43 
P9R C04 H10 SING N N 44 
P9R C05 H11 SING N N 45 
P9R C05 H12 SING N N 46 
P9R C06 H13 SING N N 47 
P9R C07 H14 SING N N 48 
P9R C07 H15 SING N N 49 
P9R C07 H16 SING N N 50 
P9R C08 H17 SING N N 51 
P9R C08 H18 SING N N 52 
P9R C08 H19 SING N N 53 
P9R C23 H20 SING N N 54 
P9R C23 H21 SING N N 55 
P9R C24 H22 SING N N 56 
P9R C25 H23 SING N N 57 
P9R C26 H24 SING N N 58 
P9R C26 H25 SING N N 59 
P9R C27 H26 SING N N 60 
P9R C28 H27 SING N N 61 
P9R C28 H28 SING N N 62 
P9R C29 H29 SING N N 63 
P9R C29 H30 SING N N 64 
P9R C30 H31 SING N N 65 
P9R C30 H32 SING N N 66 
P9R C31 H33 SING N N 67 
P9R C31 H34 SING N N 68 
P9R C32 H35 SING N N 69 
P9R C32 H36 SING N N 70 
P9R C33 H37 SING N N 71 
P9R C33 H38 SING N N 72 
P9R N03 H39 SING N N 73 
P9R N10 H40 SING N N 74 
P9R O20 H41 SING N N 75 
P9R C19 S1  SING N N 76 
P9R S1  O1  DOUB N N 77 
P9R S1  O2  SING N N 78 
P9R S1  O3  SING N N 79 
P9R O2  H5  SING N N 80 
P9R O3  H42 SING N N 81 
# 
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 
P9R InChI            InChI                1.03  "InChI=1S/C25H40N3O8S/c1-15(2)10-20(28-25(32)36-14-19-12-18(19)11-16-6-4-3-5-7-16)23(30)27-21(24(31)37(33,34)35)13-17-8-9-26-22(17)29/h9,15-21,24,31H,3-8,10-14H2,1-2H3,(H2-2,27,28,30,32,33,34,35)/q-1/p+2/t17-,18-,19+,20-,21-,24+/m0/s1" 
P9R InChIKey         InChI                1.03  UNYDBHQZGVQZAY-KAXVZBFOSA-P                                                                                                                                                                                                                 
P9R SMILES_CANONICAL CACTVS               3.385 "CC(C)C[C@H](NC(=O)OC[C@H]1C[C@@H]1CC2CCCCC2)C(=O)N[C@@H](C[C@@H]3CC=NC3=O)[C@H](O)[S+](O)(O)=O"                                                                                                                                            
P9R SMILES           CACTVS               3.385 "CC(C)C[CH](NC(=O)OC[CH]1C[CH]1CC2CCCCC2)C(=O)N[CH](C[CH]3CC=NC3=O)[CH](O)[S+](O)(O)=O"                                                                                                                                                     
P9R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)C[C@@H](C(=O)N[C@@H](C[C@@H]1CC=NC1=O)[C@H](O)[S+](=O)(O)O)NC(=O)OC[C@H]2C[C@@H]2CC3CCCCC3"                                                                                                                                           
P9R SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C)CC(C(=O)NC(CC1CC=NC1=O)C(O)[S+](=O)(O)O)NC(=O)OCC2CC2CC3CCCCC3"                                                                                                                                                                       
# 
_pdbx_chem_comp_identifier.comp_id           P9R 
_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        "[(1~{S},2~{S})-2-(cyclohexylmethyl)cyclopropyl]methyl ~{N}-[(2~{S})-1-[[(2~{S})-1-[bis(oxidanyl)-oxidanylidene-$l^{5}-sulfanyl]-1-oxidanyl-3-[(3~{R})-2-oxidanylidene-3,4-dihydropyrrol-3-yl]propan-2-yl]amino]-4-methyl-1-oxidanylidene-pentan-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 
P9R "Create component" 2022-05-26 RCSB 
P9R "Initial release"  2022-06-22 RCSB 
P9R "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            P9R 
_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      ? 
# 
