data_VKN
# 
_chem_comp.id                                    VKN 
_chem_comp.name                                  "(1R,2S,4S,5R)-6-(hydroxymethyl)cyclohexane-1,2,3,4,5-pentol" 
_chem_comp.type                                  saccharide 
_chem_comp.pdbx_type                             ATOMS 
_chem_comp.formula                               "C7 H14 O6" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2021-05-25 
_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                        194.182 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     VKN 
_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        7OMI 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_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 
VKN C1  C1  C 0 1 N N S N N N 45.709 101.558 18.525 1.382  -1.242 0.546  C1  VKN 1  
VKN C2  C2  C 0 1 N N N N N N 44.808 101.864 19.717 1.848  0.115  0.014  C2  VKN 2  
VKN C7  C3  C 0 1 N N R N N N 46.583 100.334 18.815 0.016  -1.582 -0.053 C7  VKN 3  
VKN C5  C4  C 0 1 N N N N N N 47.378 100.450 20.117 -0.996 -0.504 0.342  C5  VKN 4  
VKN C6  C5  C 0 1 N N N N N N 48.394 99.316  20.274 -2.363 -0.844 -0.256 C6  VKN 5  
VKN O6  O1  O 0 1 N N N N N N 47.754 98.040  20.398 -3.333 0.097  0.207  O6  VKN 6  
VKN C4  C6  C 0 1 N N R N N N 46.414 100.602 21.285 -0.530 0.853  -0.190 C4  VKN 7  
VKN O4  O2  O 0 1 N N N N N N 47.102 100.827 22.526 -1.475 1.859  0.179  O4  VKN 8  
VKN C3  C7  C 0 1 N N S N N N 45.469 101.799 21.088 0.836  1.193  0.408  C3  VKN 9  
VKN O3  O3  O 0 1 N N N N N N 44.430 101.671 22.055 1.272  2.460  -0.088 O3  VKN 10 
VKN O2  O4  O 0 1 N Y N N N N 43.750 100.890 19.777 1.953  0.058  -1.410 O2  VKN 11 
VKN O5  O5  O 0 1 N N N N N N 45.662 99.247  18.904 0.120  -1.639 -1.477 O5  VKN 12 
VKN H1  H1  H 0 1 N N N N N N 45.054 101.295 17.682 2.103  -2.009 0.265  H1  VKN 13 
VKN O1  O6  O 0 1 N N N N N N 46.347 102.400 18.354 1.278  -1.185 1.970  O1  VKN 14 
VKN H2  H3  H 0 1 N N N N N N 44.380 102.868 19.582 2.822  0.357  0.440  H2  VKN 15 
VKN H6  H4  H 0 1 N N N N N N 47.281 100.183 17.978 -0.316 -2.548 0.326  H6  VKN 16 
VKN H5  H5  H 0 1 N N N N N N 47.954 101.385 20.055 -1.076 -0.461 1.428  H5  VKN 17 
VKN H61 H6  H 0 1 N N N N N N 49.050 99.301  19.391 -2.304 -0.801 -1.344 H61 VKN 18 
VKN H62 H7  H 0 1 N N N N N N 48.997 99.501  21.175 -2.655 -1.848 0.052  H62 VKN 19 
VKN HO6 H8  H 0 1 N N N N N N 48.413 97.363  20.493 -4.225 -0.058 -0.133 HO6 VKN 20 
VKN H4  H9  H 0 1 N N N N N N 45.806 99.688  21.358 -0.451 0.809  -1.276 H4  VKN 21 
VKN HO4 H10 H 0 1 N N N N N N 46.468 100.916 23.228 -1.243 2.747  -0.126 HO4 VKN 22 
VKN H3  H11 H 0 1 N N N N N N 46.034 102.727 21.256 0.757  1.236  1.495  H3  VKN 23 
VKN HO3 H12 H 0 1 N N N N N N 44.810 101.628 22.925 2.133  2.740  0.250  HO3 VKN 24 
VKN HO2 H13 H 0 1 N N N N N N 43.187 101.078 20.519 2.244  0.886  -1.816 HO2 VKN 25 
VKN HO5 H14 H 0 1 N N N N N N 46.136 98.444  19.084 0.746  -2.302 -1.799 HO5 VKN 26 
VKN H7  H15 H 0 1 N N N N N N 45.817 103.168 18.173 2.109  -0.973 2.417  H7  VKN 27 
# 
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 
VKN C1 C7  SING N N 1  
VKN C1 C2  SING N N 2  
VKN C7 O5  SING N N 3  
VKN C7 C5  SING N N 4  
VKN C2 O2  SING N N 5  
VKN C2 C3  SING N N 6  
VKN C5 C6  SING N N 7  
VKN C5 C4  SING N N 8  
VKN C6 O6  SING N N 9  
VKN C3 C4  SING N N 10 
VKN C3 O3  SING N N 11 
VKN C4 O4  SING N N 12 
VKN C1 H1  SING N N 13 
VKN C1 O1  SING N N 14 
VKN C2 H2  SING N N 15 
VKN C7 H6  SING N N 16 
VKN C5 H5  SING N N 17 
VKN C6 H61 SING N N 18 
VKN C6 H62 SING N N 19 
VKN O6 HO6 SING N N 20 
VKN C4 H4  SING N N 21 
VKN O4 HO4 SING N N 22 
VKN C3 H3  SING N N 23 
VKN O3 HO3 SING N N 24 
VKN O2 HO2 SING N N 25 
VKN O5 HO5 SING N N 26 
VKN O1 H7  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 
VKN InChI            InChI                1.03  "InChI=1S/C7H14O6/c8-1-2-3(9)5(11)7(13)6(12)4(2)10/h2-13H,1H2/t2-,3-,4-,5+,6+,7+/m1/s1" 
VKN InChIKey         InChI                1.03  QFYQIWDMMSKNFF-MAFUWASYSA-N                                                             
VKN SMILES_CANONICAL CACTVS               3.385 "OC[C@@H]1[C@@H](O)[C@H](O)[C@H](O)[C@@H](O)[C@@H]1O"                                   
VKN SMILES           CACTVS               3.385 "OC[CH]1[CH](O)[CH](O)[CH](O)[CH](O)[CH]1O"                                             
VKN SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C(C1[C@H]([C@@H](C([C@H]([C@@H]1O)O)O)O)O)O"                                           
VKN SMILES           "OpenEye OEToolkits" 2.0.7 "C(C1C(C(C(C(C1O)O)O)O)O)O"                                                             
# 
_pdbx_chem_comp_identifier.comp_id           VKN 
_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        "(1~{R},2~{S},4~{S},5~{R})-6-(hydroxymethyl)cyclohexane-1,2,3,4,5-pentol" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
VKN "Create component" 2021-05-25 PDBE 
VKN "Modify name"      2021-05-27 PDBE 
VKN "Initial release"  2022-02-02 RCSB 
VKN "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            VKN 
_pdbx_chem_comp_pcm.modified_residue_id                GLU 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           Carbohydrate 
_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               C1 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OE2 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
