data_6VG
# 
_chem_comp.id                                    6VG 
_chem_comp.name                                  "~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] ethanethioate" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C13 H25 N2 O8 P S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2016-07-05 
_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                        400.385 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     6VG 
_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        5KP8 
_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 
6VG P24 P1  P 0 1 N N N N N N 33.841 41.943 26.548 -4.904 2.420  -0.238 P24 6VG 1  
6VG O26 O1  O 0 1 N N N N N N 34.547 41.225 27.672 -3.531 2.959  -0.883 O26 6VG 2  
6VG O23 O2  O 0 1 N N N N N N 33.669 43.446 26.491 -5.878 2.135  -1.317 O23 6VG 3  
6VG O27 O3  O 0 1 N N N N N N 34.560 41.488 25.171 -4.614 1.072  0.593  O27 6VG 4  
6VG C28 C1  C 0 1 N N N N N N 33.793 41.358 23.976 -4.171 -0.140 -0.021 C28 6VG 5  
6VG C29 C2  C 0 1 N N N N N N 34.678 40.824 22.860 -3.994 -1.218 1.050  C29 6VG 6  
6VG C30 C3  C 0 1 N N N N N N 36.096 41.337 23.065 -2.955 -0.755 2.073  C30 6VG 7  
6VG C31 C4  C 0 1 N N N N N N 34.675 39.303 22.851 -5.330 -1.462 1.755  C31 6VG 8  
6VG C32 C5  C 0 1 N N R N N N 34.147 41.322 21.520 -3.519 -2.516 0.393  C32 6VG 9  
6VG O33 O4  O 0 1 N N N N N N 35.119 41.009 20.516 -4.547 -3.020 -0.463 O33 6VG 10 
6VG C34 C6  C 0 1 N N N N N N 32.807 40.695 21.211 -2.278 -2.244 -0.417 C34 6VG 11 
6VG O35 O5  O 0 1 N N N N N N 31.939 40.707 22.067 -2.316 -2.319 -1.627 O35 6VG 12 
6VG N36 N1  N 0 1 N N N N N N 32.609 40.146 20.007 -1.127 -1.919 0.203  N36 6VG 13 
6VG C37 C7  C 0 1 N N N N N N 31.360 39.488 19.656 0.054  -1.560 -0.587 C37 6VG 14 
6VG C38 C8  C 0 1 N N N N N N 30.422 40.302 18.754 1.217  -1.237 0.353  C38 6VG 15 
6VG C39 C9  C 0 1 N N N N N N 29.825 39.394 17.686 2.432  -0.868 -0.460 C39 6VG 16 
6VG O40 O6  O 0 1 N N N N N N 30.358 39.325 16.589 2.373  -0.864 -1.671 O40 6VG 17 
6VG N41 N2  N 0 1 N N N N N N 28.771 38.637 18.029 3.584  -0.543 0.160  N41 6VG 18 
6VG C42 C10 C 0 1 N N N N N N 28.307 37.501 17.224 4.765  -0.184 -0.630 C42 6VG 19 
6VG C43 C11 C 0 1 N N N N N N 27.559 37.792 15.931 5.928  0.139  0.310  C43 6VG 20 
6VG S1  S1  S 0 1 N N N N N N 28.077 36.760 14.578 7.386  0.582  -0.666 S1  6VG 21 
6VG C1  C12 C 0 1 N N N N N N 27.003 37.536 13.622 8.505  0.887  0.594  C1  6VG 22 
6VG O1  O7  O 0 1 N N N N N N 25.899 37.098 13.637 8.163  0.767  1.752  O1  6VG 23 
6VG C2  C13 C 0 1 N N N N N N 27.415 38.666 12.762 9.915  1.304  0.264  C2  6VG 24 
6VG O2  O8  O 0 1 N Y N N N N 34.409 40.956 27.228 -5.509 3.539  0.748  O2  6VG 25 
6VG H1  H1  H 0 1 N N N N N N 34.852 41.858 28.311 -2.846 3.166  -0.233 H1  6VG 26 
6VG H2  H2  H 0 1 N N N N N N 33.393 42.342 23.688 -4.911 -0.470 -0.750 H2  6VG 27 
6VG H3  H3  H 0 1 N N N N N N 32.960 40.660 24.149 -3.219 0.034  -0.523 H3  6VG 28 
6VG H4  H4  H 0 1 N N N N N N 36.480 40.978 24.031 -3.342 0.104  2.621  H4  6VG 29 
6VG H5  H5  H 0 1 N N N N N N 36.741 40.967 22.254 -2.744 -1.566 2.770  H5  6VG 30 
6VG H6  H6  H 0 1 N N N N N N 36.093 42.437 23.057 -2.037 -0.472 1.557  H6  6VG 31 
6VG H7  H7  H 0 1 N N N N N N 35.056 38.929 23.813 -5.698 -0.524 2.171  H7  6VG 32 
6VG H8  H8  H 0 1 N N N N N N 33.648 38.939 22.697 -6.053 -1.850 1.038  H8  6VG 33 
6VG H9  H9  H 0 1 N N N N N N 35.318 38.940 22.036 -5.190 -2.186 2.558  H9  6VG 34 
6VG H10 H10 H 0 1 N N N N N N 34.017 42.413 21.582 -3.295 -3.253 1.165  H10 6VG 35 
6VG H11 H11 H 0 1 N N N N N N 35.948 41.417 20.739 -4.797 -2.415 -1.174 H11 6VG 36 
6VG H12 H12 H 0 1 N N N N N N 33.342 40.189 19.328 -1.079 -1.922 1.171  H12 6VG 37 
6VG H13 H13 H 0 1 N N N N N N 30.822 39.260 20.588 0.329  -2.397 -1.231 H13 6VG 38 
6VG H14 H14 H 0 1 N N N N N N 31.604 38.551 19.135 -0.170 -0.688 -1.201 H14 6VG 39 
6VG H15 H15 H 0 1 N N N N N N 30.989 41.111 18.271 0.943  -0.401 0.996  H15 6VG 40 
6VG H16 H16 H 0 1 N N N N N N 29.613 40.734 19.362 1.442  -2.109 0.966  H16 6VG 41 
6VG H17 H17 H 0 1 N N N N N N 28.279 38.857 18.872 3.631  -0.546 1.129  H17 6VG 42 
6VG H18 H18 H 0 1 N N N N N N 27.638 36.903 17.860 5.039  -1.020 -1.273 H18 6VG 43 
6VG H19 H19 H 0 1 N N N N N N 29.193 36.905 16.961 4.540  0.688  -1.244 H19 6VG 44 
6VG H20 H20 H 0 1 N N N N N N 27.731 38.843 15.656 5.653  0.975  0.953  H20 6VG 45 
6VG H21 H21 H 0 1 N N N N N N 26.485 37.630 16.104 6.152  -0.733 0.924  H21 6VG 46 
6VG H22 H22 H 0 1 N N N N N N 26.554 39.009 12.169 10.543 0.419  0.168  H22 6VG 47 
6VG H23 H23 H 0 1 N N N N N N 27.779 39.492 13.391 9.920  1.857  -0.675 H23 6VG 48 
6VG H24 H24 H 0 1 N N N N N N 28.219 38.338 12.086 10.302 1.939  1.062  H24 6VG 49 
6VG H25 H25 H 0 1 N N N N N N 34.896 41.315 27.960 -5.708 4.380  0.315  H25 6VG 50 
# 
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 
6VG C2  C1  SING N N 1  
6VG C1  O1  DOUB N N 2  
6VG C1  S1  SING N N 3  
6VG S1  C43 SING N N 4  
6VG C43 C42 SING N N 5  
6VG O40 C39 DOUB N N 6  
6VG C42 N41 SING N N 7  
6VG C39 N41 SING N N 8  
6VG C39 C38 SING N N 9  
6VG C38 C37 SING N N 10 
6VG C37 N36 SING N N 11 
6VG N36 C34 SING N N 12 
6VG O33 C32 SING N N 13 
6VG C34 C32 SING N N 14 
6VG C34 O35 DOUB N N 15 
6VG C32 C29 SING N N 16 
6VG C31 C29 SING N N 17 
6VG C29 C30 SING N N 18 
6VG C29 C28 SING N N 19 
6VG C28 O27 SING N N 20 
6VG O27 P24 SING N N 21 
6VG O23 P24 DOUB N N 22 
6VG P24 O26 SING N N 23 
6VG P24 O2  SING N N 24 
6VG O26 H1  SING N N 25 
6VG C28 H2  SING N N 26 
6VG C28 H3  SING N N 27 
6VG C30 H4  SING N N 28 
6VG C30 H5  SING N N 29 
6VG C30 H6  SING N N 30 
6VG C31 H7  SING N N 31 
6VG C31 H8  SING N N 32 
6VG C31 H9  SING N N 33 
6VG C32 H10 SING N N 34 
6VG O33 H11 SING N N 35 
6VG N36 H12 SING N N 36 
6VG C37 H13 SING N N 37 
6VG C37 H14 SING N N 38 
6VG C38 H15 SING N N 39 
6VG C38 H16 SING N N 40 
6VG N41 H17 SING N N 41 
6VG C42 H18 SING N N 42 
6VG C42 H19 SING N N 43 
6VG C43 H20 SING N N 44 
6VG C43 H21 SING N N 45 
6VG C2  H22 SING N N 46 
6VG C2  H23 SING N N 47 
6VG C2  H24 SING N N 48 
6VG O2  H25 SING N N 49 
# 
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 
6VG InChI            InChI                1.03  "InChI=1S/C13H25N2O8PS/c1-9(16)25-7-6-14-10(17)4-5-15-12(19)11(18)13(2,3)8-23-24(20,21)22/h11,18H,4-8H2,1-3H3,(H,14,17)(H,15,19)(H2,20,21,22)/t11-/m0/s1" 
6VG InChIKey         InChI                1.03  AJFWMDFTVVFMHY-NSHDSACASA-N                                                                                                                               
6VG SMILES_CANONICAL CACTVS               3.385 "CC(=O)SCCNC(=O)CCNC(=O)[C@H](O)C(C)(C)CO[P](O)(O)=O"                                                                                                     
6VG SMILES           CACTVS               3.385 "CC(=O)SCCNC(=O)CCNC(=O)[CH](O)C(C)(C)CO[P](O)(O)=O"                                                                                                      
6VG SMILES_CANONICAL "OpenEye OEToolkits" 2.0.5 "CC(=O)SCCNC(=O)CCNC(=O)[C@@H](C(C)(C)COP(=O)(O)O)O"                                                                                                      
6VG SMILES           "OpenEye OEToolkits" 2.0.5 "CC(=O)SCCNC(=O)CCNC(=O)C(C(C)(C)COP(=O)(O)O)O"                                                                                                           
# 
_pdbx_chem_comp_identifier.comp_id           6VG 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.5 
_pdbx_chem_comp_identifier.identifier        "~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] ethanethioate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
6VG "Create component" 2016-07-05 RCSB 
6VG "Initial release"  2016-08-31 RCSB 
6VG "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            6VG 
_pdbx_chem_comp_pcm.modified_residue_id                SER 
_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               P24 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
