data_B8R
# 
_chem_comp.id                                    B8R 
_chem_comp.name                                  "(2S,10R)-2,10-diamino-11-(dimethylamino)-11-oxoundecanoic acid" 
_chem_comp.type                                  "L-peptide linking" 
_chem_comp.pdbx_type                             ATOMP 
_chem_comp.formula                               "C13 H27 N3 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2019-01-22 
_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                         ALA 
_chem_comp.formula_weight                        273.372 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     B8R 
_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        6J67 
_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 
B8R C   C   C 0 1 N N N Y N Y -1.510 -7.389 -22.612 6.887  -0.517 -0.170 C6  B8R 1  
B8R O   O   O 0 1 N N N Y N Y -0.678 -7.959 -21.906 7.576  0.101  -0.946 O1  B8R 2  
B8R N4  N4  N 0 1 N N N N N N 2.895  -2.801 -26.745 -4.262 2.181  0.345  N4  B8R 3  
B8R C16 C16 C 0 1 N N R N N N 3.755  -2.084 -25.776 -4.285 0.715  0.425  C16 B8R 4  
B8R C17 C17 C 0 1 N N N N N N 4.381  -0.956 -26.393 -5.541 0.195  -0.225 C17 B8R 5  
B8R O5  O5  O 0 1 N N N N N N 5.604  -0.882 -26.296 -6.150 0.891  -1.010 O5  B8R 6  
B8R N5  N5  N 0 1 N N N N N N 3.694  -0.044 -27.155 -5.988 -1.043 0.066  N5  B8R 7  
B8R C18 C18 C 0 1 N N N N N N 4.495  1.019  -27.777 -7.209 -1.548 -0.566 C18 B8R 8  
B8R C19 C19 C 0 1 N N N N N N 2.233  -0.043 -27.364 -5.252 -1.883 1.014  C19 B8R 9  
B8R C20 C20 C 0 1 N N N N N N 3.161  -1.873 -24.333 -3.063 0.145  -0.298 C20 B8R 10 
B8R C21 C21 C 0 1 N N N N N N 1.741  -1.325 -24.286 -1.791 0.572  0.436  C21 B8R 11 
B8R C22 C22 C 0 1 N N N N N N 1.213  -1.349 -22.847 -0.569 0.002  -0.287 C22 B8R 12 
B8R C23 C23 C 0 1 N N N N N N 1.039  -2.787 -22.360 0.704  0.429  0.447  C23 B8R 13 
B8R CG  CG  C 0 1 N N N N N N 0.053  -3.513 -23.265 1.926  -0.141 -0.276 C24 B8R 14 
B8R CD  CD  C 0 1 N N N N N N -0.030 -4.991 -22.895 3.198  0.286  0.458  C25 B8R 15 
B8R CB  CB  C 0 1 N N N N N N -0.991 -5.227 -21.734 4.420  -0.284 -0.265 C26 B8R 16 
B8R CA  CA  C 0 1 N N S Y N N -2.079 -6.184 -22.207 5.693  0.143  0.470  C27 B8R 17 
B8R N   N   N 0 1 N N N Y Y N -2.992 -6.510 -21.106 5.839  1.602  0.389  N6  B8R 18 
B8R OXT OXT O 0 1 N Y N Y N Y -1.789 -7.808 -23.513 7.182  -1.795 0.119  O2  B8R 19 
B8R H27 H27 H 0 1 N N N N N N 2.467  -3.585 -26.295 -4.282 2.491  -0.616 H2  B8R 20 
B8R H3  H3  H 0 1 N N N N N N 2.186  -2.182 -27.082 -5.024 2.584  0.870  H3  B8R 21 
B8R H5  H5  H 0 1 N N N N N N 4.583  -2.785 -25.598 -4.263 0.408  1.471  H5  B8R 22 
B8R H6  H6  H 0 1 N N N N N N 5.556  0.874  -27.525 -6.954 -2.056 -1.496 H6  B8R 23 
B8R H7  H7  H 0 1 N N N N N N 4.369  0.982  -28.869 -7.704 -2.249 0.107  H7  B8R 24 
B8R H8  H8  H 0 1 N N N N N N 4.160  1.997  -27.402 -7.879 -0.715 -0.780 H8  B8R 25 
B8R H9  H9  H 0 1 N N N N N N 1.786  -0.898 -26.836 -5.208 -1.385 1.982  H9  B8R 26 
B8R H10 H10 H 0 1 N N N N N N 1.807  0.893  -26.973 -5.761 -2.841 1.121  H10 B8R 27 
B8R H11 H11 H 0 1 N N N N N N 2.017  -0.123 -28.440 -4.240 -2.049 0.644  H11 B8R 28 
B8R H12 H12 H 0 1 N N N N N N 3.167  -2.845 -23.818 -3.125 -0.943 -0.316 H12 B8R 29 
B8R H13 H13 H 0 1 N N N N N N 3.814  -1.169 -23.796 -3.037 0.524  -1.320 H13 B8R 30 
B8R H14 H14 H 0 1 N N N N N N 1.738  -0.289 -24.657 -1.728 1.660  0.454  H14 B8R 31 
B8R H15 H15 H 0 1 N N N N N N 1.091  -1.944 -24.922 -1.817 0.193  1.458  H15 B8R 32 
B8R H16 H16 H 0 1 N N N N N N 1.927  -0.830 -22.191 -0.631 -1.086 -0.305 H16 B8R 33 
B8R H17 H17 H 0 1 N N N N N N 0.241  -0.835 -22.810 -0.543 0.381  -1.309 H17 B8R 34 
B8R H18 H18 H 0 1 N N N N N N 0.655  -2.781 -21.329 0.766  1.517  0.465  H18 B8R 35 
B8R H19 H19 H 0 1 N N N N N N 2.010  -3.303 -22.387 0.678  0.050  1.469  H19 B8R 36 
B8R H20 H20 H 0 1 N N N N N N 0.385  -3.420 -24.309 1.863  -1.229 -0.294 H20 B8R 37 
B8R H21 H21 H 0 1 N N N N N N -0.942 -3.057 -23.155 1.952  0.238  -1.298 H21 B8R 38 
B8R H22 H22 H 0 1 N N N N N N -0.381 -5.559 -23.770 3.260  1.374  0.476  H22 B8R 39 
B8R H23 H23 H 0 1 N N N N N N 0.971  -5.343 -22.607 3.172  -0.093 1.480  H23 B8R 40 
B8R H24 H24 H 0 1 N N N N N N -0.449 -5.669 -20.885 4.358  -1.372 -0.282 H24 B8R 41 
B8R H25 H25 H 0 1 N N N N N N -1.443 -4.273 -21.424 4.446  0.095  -1.287 H25 B8R 42 
B8R HA  H26 H 0 1 N N N Y N N -2.638 -5.715 -23.030 5.627  -0.159 1.515  H26 B8R 43 
B8R H   H2  H 0 1 N N N Y Y N -3.430 -5.673 -20.776 5.902  1.907  -0.571 H27 B8R 44 
B8R H2  H   H 0 1 N Y N Y Y N -3.692 -7.146 -21.431 5.082  2.068  0.868  H28 B8R 45 
B8R HXT HXT H 0 1 N Y N Y N Y -1.316 -8.621 -23.644 7.958  -2.175 -0.316 H1  B8R 46 
# 
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 
B8R C18 N5  SING N N 1  
B8R C19 N5  SING N N 2  
B8R N5  C17 SING N N 3  
B8R N4  C16 SING N N 4  
B8R C17 O5  DOUB N N 5  
B8R C17 C16 SING N N 6  
B8R C16 C20 SING N N 7  
B8R C20 C21 SING N N 8  
B8R C21 C22 SING N N 9  
B8R CG  CD  SING N N 10 
B8R CG  C23 SING N N 11 
B8R CD  CB  SING N N 12 
B8R C22 C23 SING N N 13 
B8R C   CA  SING N N 14 
B8R C   O   DOUB N N 15 
B8R CA  CB  SING N N 16 
B8R CA  N   SING N N 17 
B8R C   OXT SING N N 18 
B8R N4  H27 SING N N 19 
B8R N4  H3  SING N N 20 
B8R C16 H5  SING N N 21 
B8R C18 H6  SING N N 22 
B8R C18 H7  SING N N 23 
B8R C18 H8  SING N N 24 
B8R C19 H9  SING N N 25 
B8R C19 H10 SING N N 26 
B8R C19 H11 SING N N 27 
B8R C20 H12 SING N N 28 
B8R C20 H13 SING N N 29 
B8R C21 H14 SING N N 30 
B8R C21 H15 SING N N 31 
B8R C22 H16 SING N N 32 
B8R C22 H17 SING N N 33 
B8R C23 H18 SING N N 34 
B8R C23 H19 SING N N 35 
B8R CG  H20 SING N N 36 
B8R CG  H21 SING N N 37 
B8R CD  H22 SING N N 38 
B8R CD  H23 SING N N 39 
B8R CB  H24 SING N N 40 
B8R CB  H25 SING N N 41 
B8R CA  HA  SING N N 42 
B8R N   H   SING N N 43 
B8R N   H2  SING N N 44 
B8R OXT HXT SING N N 45 
# 
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 
B8R SMILES           ACDLabs              12.01 "C(C(CCCCCCCC(N)C(=O)N(C)C)N)(=O)O"                                                                                       
B8R InChI            InChI                1.03  "InChI=1S/C13H27N3O3/c1-16(2)12(17)10(14)8-6-4-3-5-7-9-11(15)13(18)19/h10-11H,3-9,14-15H2,1-2H3,(H,18,19)/t10-,11+/m1/s1" 
B8R InChIKey         InChI                1.03  DSPAEOWBCAUTMS-MNOVXSKESA-N                                                                                               
B8R SMILES_CANONICAL CACTVS               3.385 "CN(C)C(=O)[C@H](N)CCCCCCC[C@H](N)C(O)=O"                                                                                 
B8R SMILES           CACTVS               3.385 "CN(C)C(=O)[CH](N)CCCCCCC[CH](N)C(O)=O"                                                                                   
B8R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "CN(C)C(=O)[C@@H](CCCCCCC[C@@H](C(=O)O)N)N"                                                                               
B8R SMILES           "OpenEye OEToolkits" 2.0.6 "CN(C)C(=O)C(CCCCCCCC(C(=O)O)N)N"                                                                                         
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
B8R "SYSTEMATIC NAME" ACDLabs              12.01 "(2S,10R)-2,10-diamino-11-(dimethylamino)-11-oxoundecanoic acid"                      
B8R "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "(2~{S},10~{R})-2,10-bis(azanyl)-11-(dimethylamino)-11-oxidanylidene-undecanoic 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 
B8R "Create component"    2019-01-22 RCSB 
B8R "Modify linking type" 2019-01-30 PDBJ 
B8R "Initial release"     2019-02-13 RCSB 
B8R "Modify backbone"     2023-11-03 PDBE 
B8R "Modify PCM"          2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            B8R 
_pdbx_chem_comp_pcm.modified_residue_id                ? 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Non-standard residue" 
_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      ? 
# 
