data_YGX
# 
_chem_comp.id                                    YGX 
_chem_comp.name                                  "(1~{S},2~{S},4~{S},5~{R})-6-(hydroxymethyl)cyclohexane-1,2,3,4,5-pentol" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_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                     2023-06-15 
_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                     YGX 
_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        8PEJ 
_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 
YGX "O4'"  O1  O 0 1 N N N N N N 64.985 28.259 34.190 0.588  -1.138 1.752  "O4'"  YGX 1  
YGX O7     O2  O 0 1 N N N N N N 62.717 27.387 35.747 0.755  1.300  1.231  O7     YGX 2  
YGX "C1'"  C1  C 0 1 N N S N N N 61.415 28.645 34.169 -0.900 1.042  -0.510 "C1'"  YGX 3  
YGX "C2'"  C2  C 0 1 N N N N N N 62.298 28.326 32.957 -1.639 -0.011 0.319  "C2'"  YGX 4  
YGX "O2'"  O3  O 0 1 N N N N N N 61.485 28.204 31.783 -3.030 0.015  -0.009 "O2'"  YGX 5  
YGX "C3'"  C3  C 0 1 N N S N N N 63.349 29.401 32.828 -1.068 -1.396 0.010  "C3'"  YGX 6  
YGX "C4'"  C4  C 0 1 N N R N N N 64.248 29.485 34.067 0.421  -1.423 0.361  "C4'"  YGX 7  
YGX "C5'"  C5  C 0 1 N N N N N N 63.413 29.672 35.334 1.160  -0.371 -0.468 "C5'"  YGX 8  
YGX "O6'"  O4  O 0 1 N N N N N N 63.678 30.255 37.699 3.356  0.502  -0.972 "O6'"  YGX 9  
YGX "C6'"  C6  C 0 1 N N N N N N 64.317 29.718 36.571 2.649  -0.398 -0.116 "C6'"  YGX 10 
YGX "C7'"  C7  C 0 1 N N S N N N 62.234 28.709 35.439 0.588  1.015  -0.159 "C7'"  YGX 11 
YGX "O1'"  O5  O 0 1 N N N N N N 60.295 27.749 34.298 -1.434 2.336  -0.222 "O1'"  YGX 12 
YGX O1     O6  O 0 1 N Y N N N N 62.666 30.676 32.611 -1.235 -1.681 -1.380 O1     YGX 13 
YGX H1     H1  H 0 1 N N N N N N 65.546 28.301 34.956 0.145  -1.766 2.338  H1     YGX 14 
YGX HO7    H2  H 0 1 N N N N N N 63.233 27.416 36.544 0.415  2.165  1.499  HO7    YGX 15 
YGX "H1'1" H3  H 0 0 N N N N N N 61.013 29.655 34.003 -1.028 0.824  -1.571 "H1'1" YGX 16 
YGX "H2'"  H4  H 0 1 N N N N N N 62.805 27.369 33.149 -1.512 0.207  1.379  "H2'"  YGX 17 
YGX "HO2'" H5  H 0 0 N N N N N N 60.841 27.517 31.913 -3.561 -0.628 0.480  "HO2'" YGX 18 
YGX "H3'"  H6  H 0 1 N N N N N N 63.980 29.174 31.956 -1.594 -2.146 0.601  "H3'"  YGX 19 
YGX "H4'"  H7  H 0 1 N N N N N N 64.934 30.338 33.957 0.828  -2.410 0.142  "H4'"  YGX 20 
YGX "H5'"  H8  H 0 1 N N N N N N 62.971 30.676 35.253 1.033  -0.588 -1.528 "H5'"  YGX 21 
YGX "HO6'" H9  H 0 0 N N N N N N 64.281 30.260 38.433 4.308  0.536  -0.805 "HO6'" YGX 22 
YGX "H6'2" H10 H 0 0 N N N N N N 64.641 28.693 36.806 2.783  -0.094 0.922  "H6'2" YGX 23 
YGX "H6'1" H11 H 0 0 N N N N N N 65.197 30.336 36.339 3.036  -1.408 -0.252 "H6'1" YGX 24 
YGX "H7'"  H12 H 0 1 N N N N N N 61.581 29.055 36.254 1.115  1.765  -0.750 "H7'"  YGX 25 
YGX H2     H13 H 0 1 N N N N N N 59.783 27.989 35.061 -2.376 2.426  -0.421 H2     YGX 26 
YGX H3     H14 H 0 1 N N N N N N 63.309 31.370 32.527 -2.156 -1.681 -1.673 H3     YGX 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 
YGX "O2'" "C2'"  SING N N 1  
YGX "C3'" "C2'"  SING N N 2  
YGX "C3'" "C4'"  SING N N 3  
YGX "C2'" "C1'"  SING N N 4  
YGX "C4'" "O4'"  SING N N 5  
YGX "C4'" "C5'"  SING N N 6  
YGX "C1'" "O1'"  SING N N 7  
YGX "C1'" "C7'"  SING N N 8  
YGX "C5'" "C7'"  SING N N 9  
YGX "C5'" "C6'"  SING N N 10 
YGX "C7'" O7     SING N N 11 
YGX "C6'" "O6'"  SING N N 12 
YGX "C3'" O1     SING N N 13 
YGX "O4'" H1     SING N N 14 
YGX O7    HO7    SING N N 15 
YGX "C1'" "H1'1" SING N N 16 
YGX "C2'" "H2'"  SING N N 17 
YGX "O2'" "HO2'" SING N N 18 
YGX "C3'" "H3'"  SING N N 19 
YGX "C4'" "H4'"  SING N N 20 
YGX "C5'" "H5'"  SING N N 21 
YGX "O6'" "HO6'" SING N N 22 
YGX "C6'" "H6'2" SING N N 23 
YGX "C6'" "H6'1" SING N N 24 
YGX "C7'" "H7'"  SING N N 25 
YGX "O1'" H2     SING N N 26 
YGX O1    H3     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 
YGX InChI            InChI                1.06  "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-/m0/s1" 
YGX InChIKey         InChI                1.06  QFYQIWDMMSKNFF-OUIVRQFQSA-N                                                             
YGX SMILES_CANONICAL CACTVS               3.385 "OC[C@@H]1[C@H](O)[C@H](O)[C@@H](O)[C@@H](O)[C@@H]1O"                                   
YGX SMILES           CACTVS               3.385 "OC[CH]1[CH](O)[CH](O)[CH](O)[CH](O)[CH]1O"                                             
YGX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C(C1[C@@H]([C@@H](C([C@H]([C@@H]1O)O)O)O)O)O"                                          
YGX SMILES           "OpenEye OEToolkits" 2.0.7 "C(C1C(C(C(C(C1O)O)O)O)O)O"                                                             
# 
_pdbx_chem_comp_identifier.comp_id           YGX 
_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~{S},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 
YGX "Create component" 2023-06-15 PDBE 
YGX "Initial release"  2023-10-04 RCSB 
YGX "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            YGX 
_pdbx_chem_comp_pcm.modified_residue_id                GLU 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_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               "C3'" 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OE1 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
