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 #