data_JGO
# 
_chem_comp.id                                    JGO 
_chem_comp.name                                  "meso-2,6-diaminopimelic acid NH2" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C7 H15 N3 O3" 
_chem_comp.mon_nstd_parent_comp_id               LYS 
_chem_comp.pdbx_synonyms                         "(2S,6R)-2,6,7-tris(azanyl)-7-oxidanylidene-heptanoic acid; (2S,6R)-2,6,7-triamino-7-oxoheptanoic acid" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-08-07 
_chem_comp.pdbx_modified_date                    2024-08-02 
_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                        189.212 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     JGO 
_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        8PXY 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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 
JGO C   C1  C 0 1 N N N Y N Y 28.904 27.074 26.490 3.703  0.372  0.105  C   JGO 1  
JGO CA  C2  C 0 1 N N S Y N N 30.400 27.065 26.253 2.474  -0.267 -0.487 CA  JGO 2  
JGO CB  C3  C 0 1 N N N N N N 30.994 25.796 26.856 1.226  0.295  0.198  CB  JGO 3  
JGO CG  C4  C 0 1 N N N N N N 31.034 24.646 25.817 -0.025 -0.260 -0.486 CG  JGO 4  
JGO CD  C5  C 0 1 N N N N N N 32.060 23.546 26.210 -1.272 0.302  0.199  CD  JGO 5  
JGO CE  C6  C 0 1 N N R N N N 33.208 23.465 25.206 -2.523 -0.252 -0.485 CE  JGO 6  
JGO CZ  C7  C 0 1 N N N N N N 33.638 22.003 25.126 -3.749 0.394  0.108  CZ  JGO 7  
JGO O   O1  O 0 1 N N N Y N Y 28.455 27.555 27.477 4.351  -0.219 0.936  O   JGO 8  
JGO OH2 O2  O 0 1 N N N N N N 33.019 21.245 24.473 -4.401 -0.195 0.943  OH2 JGO 9  
JGO N   N1  N 0 1 N N N Y Y N 31.001 28.250 26.860 2.531  -1.721 -0.284 N   JGO 10 
JGO NZ  N2  N 0 1 N N N N N N 34.299 24.297 25.654 -2.590 -1.706 -0.282 NZ  JGO 11 
JGO NH1 N3  N 0 1 N N N N N N 34.804 21.554 25.865 -4.119 1.628  -0.289 NH1 JGO 12 
JGO HA  H2  H 0 1 N N N Y N N 30.590 27.066 25.170 2.430  -0.051 -1.555 HA  JGO 13 
JGO HB2 H3  H 0 1 N N N N N N 30.379 25.484 27.713 1.226  0.003  1.248  HB2 JGO 14 
JGO HB3 H4  H 0 1 N N N N N N 32.018 26.007 27.197 1.229  1.382  0.123  HB3 JGO 15 
JGO HG2 H5  H 0 1 N N N N N N 31.315 25.061 24.838 -0.025 0.033  -1.536 HG2 JGO 16 
JGO HG3 H6  H 0 1 N N N N N N 30.034 24.192 25.750 -0.028 -1.347 -0.412 HG3 JGO 17 
JGO HD2 H7  H 0 1 N N N N N N 31.546 22.574 26.244 -1.273 0.010  1.249  HD2 JGO 18 
JGO HD3 H8  H 0 1 N N N N N N 32.470 23.779 27.204 -1.269 1.390  0.124  HD3 JGO 19 
JGO HE2 H9  H 0 1 N N N N N N 32.852 23.795 24.219 -2.480 -0.036 -1.553 HE2 JGO 20 
JGO H   H10 H 0 1 N N N Y Y N 31.988 28.242 26.702 2.572  -1.947 0.699  H   JGO 21 
JGO H2  H11 H 0 1 N Y N Y Y N 30.605 29.072 26.450 1.750  -2.179 -0.728 H2  JGO 22 
JGO HZ1 H13 H 0 1 N N N N N N 33.996 25.249 25.699 -1.811 -2.169 -0.727 HZ1 JGO 23 
JGO HZ2 H14 H 0 1 N N N N N N 34.595 23.998 26.561 -2.631 -1.931 0.701  HZ2 JGO 24 
JGO HH1 H16 H 0 1 N N N N N N 35.085 20.595 25.821 -3.597 2.099  -0.957 HH1 JGO 25 
JGO HN1 H17 H 0 1 N N N N N N 35.326 22.203 26.418 -4.907 2.044  0.092  HN1 JGO 26 
JGO OXT OXT O 0 1 N Y N Y N Y 28.025 26.478 25.472 4.082  1.596  -0.295 OXT JGO 27 
JGO HXT H1  H 0 1 N Y N Y N Y 27.120 26.555 25.750 4.879  1.963  0.110  HXT JGO 28 
# 
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 
JGO OH2 CZ  DOUB N N 1  
JGO CZ  CE  SING N N 2  
JGO CZ  NH1 SING N N 3  
JGO CE  NZ  SING N N 4  
JGO CE  CD  SING N N 5  
JGO CG  CD  SING N N 6  
JGO CG  CB  SING N N 7  
JGO CA  C   SING N N 8  
JGO CA  CB  SING N N 9  
JGO CA  N   SING N N 10 
JGO C   O   DOUB N N 11 
JGO CA  HA  SING N N 12 
JGO CB  HB2 SING N N 13 
JGO CB  HB3 SING N N 14 
JGO CG  HG2 SING N N 15 
JGO CG  HG3 SING N N 16 
JGO CD  HD2 SING N N 17 
JGO CD  HD3 SING N N 18 
JGO CE  HE2 SING N N 19 
JGO N   H   SING N N 20 
JGO N   H2  SING N N 21 
JGO NZ  HZ1 SING N N 22 
JGO NZ  HZ2 SING N N 23 
JGO NH1 HH1 SING N N 24 
JGO NH1 HN1 SING N N 25 
JGO C   OXT SING N N 26 
JGO OXT HXT SING N N 27 
# 
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 
JGO InChI            InChI                1.06  "InChI=1S/C7H15N3O3/c8-4(6(10)11)2-1-3-5(9)7(12)13/h4-5H,1-3,8-9H2,(H2,10,11)(H,12,13)/t4-,5+/m1/s1" 
JGO InChIKey         InChI                1.06  FNJZWXAALSPDGJ-UHNVWZDZSA-N                                                                          
JGO SMILES_CANONICAL CACTVS               3.385 "N[C@H](CCC[C@H](N)C(O)=O)C(N)=O"                                                                    
JGO SMILES           CACTVS               3.385 "N[CH](CCC[CH](N)C(O)=O)C(N)=O"                                                                      
JGO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C(C[C@H](C(=O)N)N)C[C@@H](C(=O)O)N"                                                                 
JGO SMILES           "OpenEye OEToolkits" 2.0.7 "C(CC(C(=O)N)N)CC(C(=O)O)N"                                                                          
# 
_pdbx_chem_comp_identifier.comp_id           JGO 
_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},6~{R})-2,6,7-tris(azanyl)-7-oxidanylidene-heptanoic acid" 
# 
loop_
_pdbx_chem_comp_synonyms.ordinal 
_pdbx_chem_comp_synonyms.comp_id 
_pdbx_chem_comp_synonyms.name 
_pdbx_chem_comp_synonyms.provenance 
_pdbx_chem_comp_synonyms.type 
1 JGO "(2S,6R)-2,6,7-tris(azanyl)-7-oxidanylidene-heptanoic acid" PDB ? 
2 JGO "(2S,6R)-2,6,7-triamino-7-oxoheptanoic acid"                PDB ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
JGO "Create component"         2023-08-07 PDBE 
JGO "Modify leaving atom flag" 2023-08-11 PDBE 
JGO "Other modification"       2023-08-14 PDBE 
JGO "Modify coordinates"       2023-08-14 PDBE 
JGO "Modify backbone"          2023-11-03 PDBE 
JGO "Initial release"          2024-08-07 RCSB 
# 
