data_D8R
# 
_chem_comp.id                                    D8R 
_chem_comp.name                                  "(2~{S})-2-azanyl-6-[[(2~{R})-2-oxidanylpropanoyl]amino]hexanoic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             ATOMP 
_chem_comp.formula                               "C9 H18 N2 O4" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-04-11 
_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                        218.250 
_chem_comp.one_letter_code                       K 
_chem_comp.three_letter_code                     D8R 
_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        7XF4 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
_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 
D8R N   N   N 0 1 N N N Y Y N 37.517 45.661 24.932 3.829  1.745  -0.199 N   D8R 1  
D8R CA  CA  C 0 1 N N S Y N N 38.195 46.092 26.152 3.730  0.399  0.382  CA  D8R 2  
D8R CB  CB  C 0 1 N N N N N N 39.031 47.363 25.956 2.483  -0.301 -0.163 CB  D8R 3  
D8R CG  CG  C 0 1 N N N N N N 40.026 47.347 24.799 1.232  0.440  0.315  CG  D8R 4  
D8R CD  CD  C 0 1 N N N N N N 40.792 48.651 24.615 -0.014 -0.259 -0.230 CD  D8R 5  
D8R CE  CE  C 0 1 N N N N N N 41.553 48.750 23.295 -1.265 0.481  0.248  CE  D8R 6  
D8R NZ  NZ  N 0 1 N N N N N N 42.468 49.942 23.134 -2.459 -0.189 -0.274 NZ  D8R 7  
D8R C   C   C 0 1 N N N Y N Y 37.132 46.409 27.208 4.954  -0.398 0.015  C   D8R 8  
D8R O   OXT O 0 1 N N N Y N Y 36.499 47.451 26.954 5.634  -0.063 -0.926 OXT D8R 9  
D8R C1  C1  C 0 1 N N N N N N 42.512 50.454 21.794 -3.683 0.291  0.020  C1  D8R 10 
D8R C2  C2  C 0 1 N N R N N N 42.938 51.891 21.525 -4.911 -0.398 -0.517 C2  D8R 11 
D8R C3  C3  C 0 1 N N N N N N 44.146 51.960 20.619 -5.015 -1.799 0.088  C3  D8R 12 
D8R O1  O1  O 0 1 N N N N N N 42.165 49.735 20.893 -3.797 1.278  0.716  O1  D8R 13 
D8R O2  O2  O 0 1 N N N N N N 41.872 52.629 20.947 -6.073 0.358  -0.169 O2  D8R 14 
D8R OXT O3  O 0 1 N Y N Y N Y 37.144 45.433 28.242 5.290  -1.482 0.733  O3  D8R 15 
D8R H   H1  H 0 1 N N N Y Y N 36.990 44.832 25.118 4.609  2.251  0.194  H1  D8R 16 
D8R H2  H2  H 0 1 N Y N Y Y N 36.901 46.384 24.620 3.897  1.700  -1.204 H2  D8R 17 
D8R HA  H4  H 0 1 N N N Y N N 38.846 45.288 26.526 3.658  0.476  1.467  H4  D8R 18 
D8R H5  H5  H 0 1 N N N N N N 39.597 47.538 26.883 2.512  -0.299 -1.252 H5  D8R 19 
D8R H6  H6  H 0 1 N N N N N N 38.336 48.199 25.788 2.456  -1.329 0.198  H6  D8R 20 
D8R H7  H7  H 0 1 N N N N N N 39.473 47.138 23.871 1.203  0.438  1.405  H7  D8R 21 
D8R H8  H8  H 0 1 N N N N N N 40.754 46.542 24.981 1.259  1.468  -0.046 H8  D8R 22 
D8R H9  H9  H 0 1 N N N N N N 41.516 48.745 25.438 0.015  -0.258 -1.319 H9  D8R 23 
D8R H10 H10 H 0 1 N N N N N N 40.073 49.483 24.662 -0.041 -1.288 0.131  H10 D8R 24 
D8R H11 H11 H 0 1 N N N N N N 40.812 48.785 22.483 -1.294 0.479  1.338  H11 D8R 25 
D8R H12 H12 H 0 1 N N N N N N 42.165 47.842 23.193 -1.238 1.510  -0.113 H12 D8R 26 
D8R H13 H13 H 0 1 N N N N N N 42.992 50.336 23.889 -2.368 -0.978 -0.831 H13 D8R 27 
D8R H14 H14 H 0 1 N N N N N N 43.211 52.346 22.488 -4.840 -0.475 -1.602 H14 D8R 28 
D8R H15 H15 H 0 1 N N N N N N 44.973 51.389 21.066 -5.087 -1.722 1.173  H15 D8R 29 
D8R H16 H16 H 0 1 N N N N N N 43.893 51.532 19.638 -5.903 -2.298 -0.300 H16 D8R 30 
D8R H17 H17 H 0 1 N N N N N N 44.451 53.009 20.494 -4.129 -2.376 -0.177 H17 D8R 31 
D8R H18 H18 H 0 1 N N N N N N 41.260 52.031 20.534 -6.902 -0.027 -0.483 H18 D8R 32 
D8R HXT H19 H 0 1 N Y N Y N Y 36.492 45.656 28.896 6.084  -1.961 0.459  H19 D8R 33 
# 
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 
D8R C3  C2  SING N N 1  
D8R O1  C1  DOUB N N 2  
D8R O2  C2  SING N N 3  
D8R C2  C1  SING N N 4  
D8R C1  NZ  SING N N 5  
D8R NZ  CE  SING N N 6  
D8R CE  CD  SING N N 7  
D8R CD  CG  SING N N 8  
D8R CG  CB  SING N N 9  
D8R N   CA  SING N N 10 
D8R CB  CA  SING N N 11 
D8R CA  C   SING N N 12 
D8R O   C   DOUB N N 13 
D8R C   OXT SING N N 14 
D8R N   H   SING N N 15 
D8R N   H2  SING N N 16 
D8R CA  HA  SING N N 17 
D8R CB  H5  SING N N 18 
D8R CB  H6  SING N N 19 
D8R CG  H7  SING N N 20 
D8R CG  H8  SING N N 21 
D8R CD  H9  SING N N 22 
D8R CD  H10 SING N N 23 
D8R CE  H11 SING N N 24 
D8R CE  H12 SING N N 25 
D8R NZ  H13 SING N N 26 
D8R C2  H14 SING N N 27 
D8R C3  H15 SING N N 28 
D8R C3  H16 SING N N 29 
D8R C3  H17 SING N N 30 
D8R O2  H18 SING N N 31 
D8R OXT HXT SING N N 32 
# 
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 
D8R InChI            InChI                1.03  "InChI=1S/C9H18N2O4/c1-6(12)8(13)11-5-3-2-4-7(10)9(14)15/h6-7,12H,2-5,10H2,1H3,(H,11,13)(H,14,15)/t6-,7+/m1/s1" 
D8R InChIKey         InChI                1.03  TVFTZQHBUQYHFH-RQJHMYQMSA-N                                                                                     
D8R SMILES_CANONICAL CACTVS               3.385 "C[C@@H](O)C(=O)NCCCC[C@H](N)C(O)=O"                                                                            
D8R SMILES           CACTVS               3.385 "C[CH](O)C(=O)NCCCC[CH](N)C(O)=O"                                                                               
D8R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H](C(=O)NCCCC[C@@H](C(=O)O)N)O"                                                                            
D8R SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C(=O)NCCCCC(C(=O)O)N)O"                                                                                     
# 
_pdbx_chem_comp_identifier.comp_id           D8R 
_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~{S})-2-azanyl-6-[[(2~{R})-2-oxidanylpropanoyl]amino]hexanoic 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 
D8R "Create component" 2022-04-11 PDBJ 
D8R "Initial release"  2023-05-10 RCSB 
D8R "Modify backbone"  2023-11-03 PDBE 
D8R "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            D8R 
_pdbx_chem_comp_pcm.modified_residue_id                LYS 
_pdbx_chem_comp_pcm.type                               Lactoylation 
_pdbx_chem_comp_pcm.category                           "Named protein 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               ? 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   ? 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      PTM-0682 
# 
