data_7V9
# 
_chem_comp.id                                    7V9 
_chem_comp.name                                  "~{S}-[2-[3-[[(2~{S})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] pyridine-3-carbothioate" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C17 H26 N3 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                     2017-01-19 
_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                        463.442 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     7V9 
_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        5WPX 
_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 
7V9 O8  O1  O 0 1 N N N N N N -6.198  -3.608 8.059  0.873  -1.180 1.654  O8   7V9 1  
7V9 P   P1  P 0 1 N N N N N N -12.944 3.718  7.345  -6.713 2.477  0.251  P    7V9 2  
7V9 C4  C1  C 0 1 N N N N N N -10.038 -0.347 9.087  -3.898 -2.081 0.412  C4   7V9 3  
7V9 C2  C2  C 0 1 N N N N N N -10.412 2.062  9.634  -5.651 -1.115 -1.052 C2   7V9 4  
7V9 O1P O2  O 0 1 N N N N N N -13.140 2.506  6.518  -5.365 3.067  0.906  O1P  7V9 5  
7V9 O2P O3  O 0 1 N N N N N N -13.963 4.087  8.354  -7.357 3.576  -0.733 O2P  7V9 6  
7V9 O3P O4  O 0 1 N N N N N N -11.525 3.577  8.097  -6.365 1.146  -0.585 O3P  7V9 7  
7V9 C1  C3  C 0 1 N N N N N N -11.365 2.195  8.440  -5.877 -0.051 0.024  C1   7V9 8  
7V9 CE1 C4  C 0 1 N N N N N N -10.833 3.039  10.734 -6.973 -1.408 -1.764 CE1  7V9 9  
7V9 CE2 C5  C 0 1 N N N N N N -8.974  2.374  9.203  -4.627 -0.605 -2.067 CE2  7V9 10 
7V9 C3  C6  C 0 1 N N S N N N -10.477 0.634  10.175 -5.128 -2.397 -0.399 C3   7V9 11 
7V9 O3  O5  O 0 1 N N N N N N -9.607  0.515  11.294 -6.135 -2.941 0.455  O3   7V9 12 
7V9 O4  O6  O 0 1 N N N N N N -10.826 -0.769 8.265  -3.954 -2.078 1.623  O4   7V9 13 
7V9 N5  N1  N 0 1 N N N N N N -8.775  -0.668 9.041  -2.734 -1.803 -0.209 N5   7V9 14 
7V9 C6  C7  C 0 1 N N N N N N -8.012  -0.518 7.769  -1.514 -1.602 0.577  C6   7V9 15 
7V9 C7  C8  C 0 1 N N N N N N -6.682  -1.269 7.884  -0.345 -1.302 -0.363 C7   7V9 16 
7V9 C8  C9  C 0 1 N N N N N N -6.886  -2.748 7.546  0.909  -1.095 0.445  C8   7V9 17 
7V9 N9  N2  N 0 1 N N N N N N -7.731  -3.040 6.597  2.073  -0.817 -0.176 N9   7V9 18 
7V9 C10 C10 C 0 1 N N N N N N -7.238  -3.321 5.220  3.293  -0.616 0.610  C10  7V9 19 
7V9 C11 C11 C 0 1 N N N N N N -6.958  -4.819 5.074  4.462  -0.316 -0.331 C11  7V9 20 
7V9 S12 S1  S 0 1 N N N N N N -5.474  -5.065 4.070  5.969  -0.068 0.641  S12  7V9 21 
7V9 C13 C12 C 0 1 N N N N N N -6.304  -5.675 2.581  7.119  0.251  -0.656 C13  7V9 22 
7V9 O13 O7  O 0 1 N N N N N N -6.976  -6.685 2.633  6.747  0.248  -1.813 O13  7V9 23 
7V9 C14 C13 C 0 1 Y N N N N N -5.196  -5.613 1.727  8.536  0.522  -0.336 C14  7V9 24 
7V9 C15 C14 C 0 1 Y N N N N N -4.005  -6.260 2.078  8.976  0.529  0.988  C15  7V9 25 
7V9 N16 N3  N 0 1 Y N N N N N -2.900  -6.103 1.331  10.239 0.770  1.273  N16  7V9 26 
7V9 C17 C15 C 0 1 Y N N N N N -2.903  -5.329 0.235  11.132 1.013  0.332  C17  7V9 27 
7V9 C18 C16 C 0 1 Y N N N N N -4.068  -4.660 -0.162 10.775 1.025  -1.005 C18  7V9 28 
7V9 C19 C17 C 0 1 Y N N N N N -5.213  -4.762 0.625  9.462  0.771  -1.357 C19  7V9 29 
7V9 H1  H1  H 0 1 N N N N N N -12.854 2.679  5.629  -4.686 3.305  0.260  H1   7V9 30 
7V9 H2  H2  H 0 1 N N N N N N -14.384 4.899  8.097  -7.592 4.406  -0.295 H2   7V9 31 
7V9 H3  H3  H 0 1 N N N N N N -10.949 1.651  7.579  -6.607 -0.414 0.748  2H1  7V9 32 
7V9 H4  H4  H 0 1 N N N N N N -12.344 1.769  8.705  -4.935 0.158  0.532  1H1  7V9 33 
7V9 H5  H5  H 0 1 N N N N N N -10.150 2.944  11.591 -7.299 -0.520 -2.305 2HE1 7V9 34 
7V9 H6  H6  H 0 1 N N N N N N -10.793 4.067  10.346 -6.833 -2.230 -2.467 3HE1 7V9 35 
7V9 H7  H7  H 0 1 N N N N N N -11.859 2.808  11.056 -7.729 -1.684 -1.028 1HE1 7V9 36 
7V9 H8  H8  H 0 1 N N N N N N -8.302  2.275  10.068 -3.728 -0.277 -1.544 1HE2 7V9 37 
7V9 H9  H9  H 0 1 N N N N N N -8.666  1.669  8.417  -4.371 -1.407 -2.760 2HE2 7V9 38 
7V9 H10 H10 H 0 1 N N N N N N -8.923  3.402  8.815  -5.050 0.233  -2.621 3HE2 7V9 39 
7V9 H11 H11 H 0 1 N N N N N N -11.513 0.407  10.466 -4.877 -3.122 -1.173 3H   7V9 40 
7V9 H12 H12 H 0 1 N N N N N N -9.877  1.123  11.972 -6.408 -2.349 1.169  3HO  7V9 41 
7V9 H13 H13 H 0 1 N N N N N N -8.318  -1.015 9.860  -2.705 -1.735 -1.176 5H   7V9 42 
7V9 H14 H14 H 0 1 N N N N N N -8.599  -0.935 6.937  -1.656 -0.764 1.260  2H6  7V9 43 
7V9 H15 H15 H 0 1 N N N N N N -7.817  0.548  7.581  -1.298 -2.504 1.149  1H6  7V9 44 
7V9 H16 H16 H 0 1 N N N N N N -5.955  -0.832 7.184  -0.204 -2.140 -1.046 1H7  7V9 45 
7V9 H17 H17 H 0 1 N N N N N N -6.301  -1.179 8.912  -0.562 -0.400 -0.936 2H7  7V9 46 
7V9 H18 H18 H 0 1 N N N N N N -8.711  -3.075 6.794  2.102  -0.749 -1.143 9H   7V9 47 
7V9 H19 H19 H 0 1 N N N N N N -8.001  -3.018 4.488  3.151  0.222  1.293  2H10 7V9 48 
7V9 H20 H20 H 0 1 N N N N N N -6.312  -2.756 5.040  3.509  -1.518 1.182  1H10 7V9 49 
7V9 H21 H21 H 0 1 N N N N N N -6.804  -5.261 6.069  4.603  -1.153 -1.013 1H11 7V9 50 
7V9 H22 H22 H 0 1 N N N N N N -7.815  -5.306 4.585  4.245  0.587  -0.902 2H11 7V9 51 
7V9 H25 H25 H 0 1 N N N N N N -3.975  -6.889 2.955  8.275  0.335  1.786  5H1  7V9 52 
7V9 H26 H26 H 0 1 N N N N N N -1.999  -5.221 -0.346 12.158 1.205  0.610  7H1  7V9 53 
7V9 H27 H27 H 0 1 N N N N N N -4.078  -4.072 -1.068 11.515 1.225  -1.765 8H1  7V9 54 
7V9 H28 H28 H 0 1 N N N N N N -6.098  -4.191 0.385  9.157  0.770  -2.393 9H1  7V9 55 
7V9 O1  O8  O 0 1 N Y N N N N -12.635 4.054  6.581  -7.679 2.148  1.323  O1   7V9 56 
# 
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 
7V9 O8  C8  DOUB N N 1  
7V9 P   O1P SING N N 2  
7V9 P   O2P SING N N 3  
7V9 P   O3P SING N N 4  
7V9 C4  C3  SING N N 5  
7V9 C4  O4  DOUB N N 6  
7V9 C4  N5  SING N N 7  
7V9 C2  C1  SING N N 8  
7V9 C2  CE1 SING N N 9  
7V9 C2  CE2 SING N N 10 
7V9 C2  C3  SING N N 11 
7V9 O3P C1  SING N N 12 
7V9 C3  O3  SING N N 13 
7V9 N5  C6  SING N N 14 
7V9 C6  C7  SING N N 15 
7V9 C7  C8  SING N N 16 
7V9 C8  N9  SING N N 17 
7V9 N9  C10 SING N N 18 
7V9 C10 C11 SING N N 19 
7V9 C11 S12 SING N N 20 
7V9 S12 C13 SING N N 21 
7V9 C13 O13 DOUB N N 22 
7V9 C13 C14 SING N N 23 
7V9 C14 C15 DOUB Y N 24 
7V9 C14 C19 SING Y N 25 
7V9 C15 N16 SING Y N 26 
7V9 N16 C17 DOUB Y N 27 
7V9 C17 C18 SING Y N 28 
7V9 C18 C19 DOUB Y N 29 
7V9 O1P H1  SING N N 30 
7V9 O2P H2  SING N N 31 
7V9 C1  H3  SING N N 32 
7V9 C1  H4  SING N N 33 
7V9 CE1 H5  SING N N 34 
7V9 CE1 H6  SING N N 35 
7V9 CE1 H7  SING N N 36 
7V9 CE2 H8  SING N N 37 
7V9 CE2 H9  SING N N 38 
7V9 CE2 H10 SING N N 39 
7V9 C3  H11 SING N N 40 
7V9 O3  H12 SING N N 41 
7V9 N5  H13 SING N N 42 
7V9 C6  H14 SING N N 43 
7V9 C6  H15 SING N N 44 
7V9 C7  H16 SING N N 45 
7V9 C7  H17 SING N N 46 
7V9 N9  H18 SING N N 47 
7V9 C10 H19 SING N N 48 
7V9 C10 H20 SING N N 49 
7V9 C11 H21 SING N N 50 
7V9 C11 H22 SING N N 51 
7V9 C15 H25 SING N N 52 
7V9 C17 H26 SING N N 53 
7V9 C18 H27 SING N N 54 
7V9 C19 H28 SING N N 55 
7V9 P   O1  DOUB N N 56 
# 
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 
7V9 InChI            InChI                1.03  "InChI=1S/C17H26N3O8PS/c1-17(2,11-28-29(25,26)27)14(22)15(23)20-7-5-13(21)19-8-9-30-16(24)12-4-3-6-18-10-12/h3-4,6,10,14,22H,5,7-9,11H2,1-2H3,(H,19,21)(H,20,23)(H2,25,26,27)/t14-/m1/s1" 
7V9 InChIKey         InChI                1.03  WOIGSQAUIGDQKV-CQSZACIVSA-N                                                                                                                                                               
7V9 SMILES_CANONICAL CACTVS               3.385 "CC(C)(CO[P](O)(O)=O)[C@H](O)C(=O)NCCC(=O)NCCSC(=O)c1cccnc1"                                                                                                                              
7V9 SMILES           CACTVS               3.385 "CC(C)(CO[P](O)(O)=O)[CH](O)C(=O)NCCC(=O)NCCSC(=O)c1cccnc1"                                                                                                                               
7V9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "CC(C)(COP(=O)(O)O)[C@@H](C(=O)NCCC(=O)NCCSC(=O)c1cccnc1)O"                                                                                                                               
7V9 SMILES           "OpenEye OEToolkits" 2.0.6 "CC(C)(COP(=O)(O)O)C(C(=O)NCCC(=O)NCCSC(=O)c1cccnc1)O"                                                                                                                                    
# 
_pdbx_chem_comp_identifier.comp_id           7V9 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.6 
_pdbx_chem_comp_identifier.identifier        "~{S}-[2-[3-[[(2~{S})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] pyridine-3-carbothioate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
7V9 "Create component" 2017-01-19 RCSB 
7V9 "Initial release"  2018-02-07 RCSB 
7V9 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            7V9 
_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               P 
_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      ? 
# 
