data_B3T
# 
_chem_comp.id                                    B3T 
_chem_comp.name                                  "3-amino-2,3,5-trideoxy-D-threo-pentonic acid" 
_chem_comp.type                                  "L-peptide linking" 
_chem_comp.pdbx_type                             ATOMP 
_chem_comp.formula                               "C5 H11 N O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2008-11-10 
_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                        133.146 
_chem_comp.one_letter_code                       X 
_chem_comp.three_letter_code                     B3T 
_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        3F4Z 
_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 
B3T CG   CG   C 0 1 N N R N N N 21.447 -0.848 48.592 -1.835 0.362  -0.504 CG   B3T 1  
B3T OD1  OD1  O 0 1 N N N N N N 20.867 -2.113 48.225 -2.055 1.301  0.551  OD1  B3T 2  
B3T CD2  CD2  C 0 1 N N N N N N 21.338 -0.655 50.100 -2.947 -0.689 -0.492 CD2  B3T 3  
B3T CA   CB   C 0 1 N N R Y N N 20.692 0.258  47.854 -0.483 -0.324 -0.301 CB   B3T 4  
B3T N    N    N 0 1 N N N Y Y N 20.850 1.551  48.487 -0.519 -1.125 0.930  N    B3T 5  
B3T CB   CA   C 0 1 N N N Y N N 19.200 -0.093 47.772 0.615  0.735  -0.189 CA   B3T 6  
B3T C    C    C 0 1 N N N Y N Y 18.818 -0.743 46.466 1.960  0.059  -0.112 C    B3T 7  
B3T O    O    O 0 1 N N N Y N Y 19.232 -0.372 45.370 2.033  -1.147 -0.145 O    B3T 8  
B3T HG   HG   H 0 1 N N N N N N 22.511 -0.816 48.315 -1.838 0.883  -1.461 HG   B3T 9  
B3T HOD1 HOD1 H 0 0 N N N N N N 20.739 -2.142 47.284 -2.065 0.905  1.433  HOD1 B3T 10 
B3T H1D2 H1D2 H 0 0 N N N N N N 21.312 -1.637 50.595 -3.910 -0.200 -0.636 H1D2 B3T 11 
B3T H2D2 H2D2 H 0 0 N N N N N N 22.208 -0.086 50.460 -2.779 -1.405 -1.297 H2D2 B3T 12 
B3T H3D2 H3D2 H 0 0 N N N N N N 20.416 -0.103 50.333 -2.944 -1.210 0.465  H3D2 B3T 13 
B3T HA   HB   H 0 1 N N N Y N N 21.122 0.327  46.844 -0.274 -0.975 -1.151 HB   B3T 14 
B3T H    HN   H 0 1 N N N Y Y N 21.698 1.976  48.170 0.340  -1.639 1.052  HN   B3T 15 
B3T HB1  HA   H 0 1 N N N Y N N 18.964 -0.792 48.588 0.584  1.385  -1.063 HA   B3T 16 
B3T HB2  HAA  H 0 1 N N N Y N N 18.634 0.847  47.852 0.456  1.329  0.711  HAA  B3T 17 
B3T H2   HNA  H 0 1 N Y N Y Y N 20.886 1.435  49.480 -0.711 -0.544 1.733  HNA  B3T 18 
B3T OXT  OXT  O 0 1 N Y N Y N Y 17.921 -1.856 46.505 3.077  0.796  -0.008 OXT  B3T 19 
B3T HXT  HXT  H 0 1 N Y N Y N Y 17.764 -2.168 45.622 3.916  0.318  0.037  HXT  B3T 20 
# 
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 
B3T CG   CD2  SING N N 1  
B3T OD1  CG   SING N N 2  
B3T CD2  H1D2 SING N N 3  
B3T CD2  H2D2 SING N N 4  
B3T CD2  H3D2 SING N N 5  
B3T CA   CG   SING N N 6  
B3T CA   N    SING N N 7  
B3T N    H2   SING N N 8  
B3T CB   CA   SING N N 9  
B3T CB   HB1  SING N N 10 
B3T CB   HB2  SING N N 11 
B3T C    CB   SING N N 12 
B3T C    OXT  SING N N 13 
B3T O    C    DOUB N N 14 
B3T HG   CG   SING N N 15 
B3T HOD1 OD1  SING N N 16 
B3T HA   CA   SING N N 17 
B3T H    N    SING N N 18 
B3T OXT  HXT  SING N N 19 
# 
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 
B3T SMILES           ACDLabs              10.04 "O=C(O)CC(N)C(O)C"                                                            
B3T SMILES_CANONICAL CACTVS               3.341 "C[C@@H](O)[C@H](N)CC(O)=O"                                                   
B3T SMILES           CACTVS               3.341 "C[CH](O)[CH](N)CC(O)=O"                                                      
B3T SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C[C@H]([C@@H](CC(=O)O)N)O"                                                   
B3T SMILES           "OpenEye OEToolkits" 1.5.0 "CC(C(CC(=O)O)N)O"                                                            
B3T InChI            InChI                1.03  "InChI=1S/C5H11NO3/c1-3(7)4(6)2-5(8)9/h3-4,7H,2,6H2,1H3,(H,8,9)/t3-,4-/m1/s1" 
B3T InChIKey         InChI                1.03  NIVRJEWVLMOZNV-QWWZWVQMSA-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 
B3T "SYSTEMATIC NAME" ACDLabs              10.04 "3-amino-2,3,5-trideoxy-D-threo-pentonic acid" 
B3T "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(3R,4R)-3-amino-4-hydroxy-pentanoic 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 
B3T "Create component"  2008-11-10 RCSB 
B3T "Modify descriptor" 2011-06-04 RCSB 
B3T "Modify backbone"   2023-11-03 PDBE 
B3T "Modify PCM"        2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            B3T 
_pdbx_chem_comp_pcm.modified_residue_id                THR 
_pdbx_chem_comp_pcm.type                               "Beta-amino acid" 
_pdbx_chem_comp_pcm.category                           "Named protein modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid backbone" 
_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      ? 
# 
