data_KD3
# 
_chem_comp.id                                    KD3 
_chem_comp.name                                  "3-deoxy-beta-D-manno-oct-2-ulopyranosonic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C8 H14 O8" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-02-14 
_chem_comp.pdbx_modified_date                    2023-03-03 
_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                        238.192 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     KD3 
_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        8FUX 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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.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 
KD3 C1  C1  C 0 1 N N N -22.015 -3.663 -14.356 -1.583 1.479  0.607  C1  KD3 1  
KD3 O1A O1  O 0 1 N N N -21.848 -2.442 -14.620 -0.670 1.881  1.289  O1A KD3 2  
KD3 O1B O2  O 0 1 N N N -22.849 -4.035 -13.497 -2.851 1.673  1.001  O1B KD3 3  
KD3 C2  C2  C 0 1 N N S -21.177 -4.720 -15.140 -1.297 0.765  -0.689 C2  KD3 4  
KD3 C3  C3  C 0 1 N N N -20.656 -5.845 -14.257 -1.993 -0.599 -0.684 C3  KD3 5  
KD3 C4  C4  C 0 1 N N R -19.503 -5.407 -13.373 -1.420 -1.452 0.452  C4  KD3 6  
KD3 O4  O3  O 0 1 N N N -18.985 -6.508 -12.664 -2.011 -2.752 0.418  O4  KD3 7  
KD3 C5  C5  C 0 1 N N R -18.440 -4.726 -14.258 0.096  -1.573 0.271  C5  KD3 8  
KD3 O5  O4  O 0 1 N N N -17.868 -5.661 -15.158 0.377  -2.256 -0.953 O5  KD3 9  
KD3 C6  C6  C 0 1 N N R -19.064 -3.584 -15.060 0.711  -0.172 0.230  C6  KD3 10 
KD3 O6  O5  O 0 1 N N N -20.123 -4.102 -15.881 0.113  0.579  -0.830 O6  KD3 11 
KD3 C7  C7  C 0 1 N N R -18.116 -2.719 -15.963 2.217  -0.282 -0.011 C7  KD3 12 
KD3 O7  O6  O 0 1 N N N -17.439 -1.875 -15.061 2.815  -1.034 1.048  O7  KD3 13 
KD3 C8  C8  C 0 1 N N N -18.965 -1.898 -16.931 2.832  1.118  -0.052 C8  KD3 14 
KD3 O8  O7  O 0 1 N N N -19.981 -1.144 -16.284 4.216  1.021  -0.392 O8  KD3 15 
KD3 O1  O8  O 0 1 N Y N -22.035 -5.358 -16.005 -1.786 1.546  -1.781 O1  KD3 16 
KD3 H1  H1  H 0 1 N N N -23.283 -3.275 -13.127 -2.985 2.139  1.838  H1  KD3 17 
KD3 H31 H2  H 0 1 N N N -21.477 -6.199 -13.616 -3.063 -0.461 -0.533 H31 KD3 18 
KD3 H32 H3  H 0 1 N N N -20.313 -6.668 -14.901 -1.820 -1.099 -1.637 H32 KD3 19 
KD3 H4  H4  H 0 1 N N N -19.882 -4.657 -12.663 -1.638 -0.977 1.409  H4  KD3 20 
KD3 HO4 H5  H 0 1 N N N -19.672 -6.895 -12.134 -2.973 -2.750 0.521  HO4 KD3 21 
KD3 H5  H6  H 0 1 N N N -17.661 -4.308 -13.604 0.519  -2.132 1.106  H5  KD3 22 
KD3 HO5 H7  H 0 1 N N N -17.477 -6.375 -14.668 0.013  -3.150 -0.997 HO5 KD3 23 
KD3 H6  H8  H 0 1 N N N -19.511 -2.892 -14.331 0.530  0.333  1.179  H6  KD3 24 
KD3 H7  H9  H 0 1 N N N -17.427 -3.374 -16.517 2.398  -0.786 -0.961 H7  KD3 25 
KD3 H2  H10 H 0 1 N N N -16.916 -2.400 -14.467 2.694  -0.643 1.924  H2  KD3 26 
KD3 H82 H11 H 0 1 N N N -19.441 -2.584 -17.647 2.315  1.719  -0.800 H82 KD3 27 
KD3 H81 H12 H 0 1 N N N -18.305 -1.204 -17.472 2.730  1.589  0.926  H81 KD3 28 
KD3 HO8 H13 H 0 1 N N N -20.524 -1.725 -15.764 4.671  1.873  -0.437 HO8 KD3 29 
KD3 H3  H14 H 0 1 N N N -22.735 -5.769 -15.512 -1.388 2.425  -1.846 H3  KD3 30 
# 
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 
KD3 C8  O8  SING N N 1  
KD3 C8  C7  SING N N 2  
KD3 C7  O7  SING N N 3  
KD3 C7  C6  SING N N 4  
KD3 O6  C2  SING N N 5  
KD3 O6  C6  SING N N 6  
KD3 O5  C5  SING N N 7  
KD3 C2  C1  SING N N 8  
KD3 C2  C3  SING N N 9  
KD3 C6  C5  SING N N 10 
KD3 O1A C1  DOUB N N 11 
KD3 C1  O1B SING N N 12 
KD3 C5  C4  SING N N 13 
KD3 C3  C4  SING N N 14 
KD3 C4  O4  SING N N 15 
KD3 C2  O1  SING N N 16 
KD3 O1B H1  SING N N 17 
KD3 C3  H31 SING N N 18 
KD3 C3  H32 SING N N 19 
KD3 C4  H4  SING N N 20 
KD3 O4  HO4 SING N N 21 
KD3 C5  H5  SING N N 22 
KD3 O5  HO5 SING N N 23 
KD3 C6  H6  SING N N 24 
KD3 C7  H7  SING N N 25 
KD3 O7  H2  SING N N 26 
KD3 C8  H82 SING N N 27 
KD3 C8  H81 SING N N 28 
KD3 O8  HO8 SING N N 29 
KD3 O1  H3  SING N N 30 
# 
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 
KD3 SMILES           ACDLabs              12.01 "OC(=O)C1(O)CC(O)C(O)C(O1)C(O)CO"                                                                                
KD3 InChI            InChI                1.06  "InChI=1S/C8H14O8/c9-2-4(11)6-5(12)3(10)1-8(15,16-6)7(13)14/h3-6,9-12,15H,1-2H2,(H,13,14)/t3-,4-,5-,6-,8+/m1/s1" 
KD3 InChIKey         InChI                1.06  NNLZBVFSCVTSLA-FBXMPTEYSA-N                                                                                      
KD3 SMILES_CANONICAL CACTVS               3.385 "OC[C@@H](O)[C@H]1O[C@@](O)(C[C@@H](O)[C@H]1O)C(O)=O"                                                            
KD3 SMILES           CACTVS               3.385 "OC[CH](O)[CH]1O[C](O)(C[CH](O)[CH]1O)C(O)=O"                                                                    
KD3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1[C@H]([C@H]([C@H](O[C@@]1(C(=O)O)O)[C@@H](CO)O)O)O"                                                           
KD3 SMILES           "OpenEye OEToolkits" 2.0.7 "C1C(C(C(OC1(C(=O)O)O)C(CO)O)O)O"                                                                                
# 
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 
KD3 "SYSTEMATIC NAME" ACDLabs              12.01 "3-deoxy-beta-D-manno-oct-2-ulopyranosonic acid"                                                           
KD3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S},4~{R},5~{R},6~{R})-6-[(1~{R})-1,2-bis(oxidanyl)ethyl]-2,4,5-tris(oxidanyl)oxane-2-carboxylic 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 
KD3 "Create component" 2023-02-14 RCSB 
KD3 "Initial release"  2023-03-08 RCSB 
# 
