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 2023-09-29 _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 # 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 YGX "O4'" O1 O 0 1 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 62.717 27.387 35.747 0.755 1.300 1.231 O7 YGX 2 YGX "C1'" C1 C 0 1 N N S 61.415 28.645 34.169 -0.900 1.042 -0.510 "C1'" YGX 3 YGX "C2'" C2 C 0 1 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 61.485 28.204 31.783 -3.030 0.015 -0.009 "O2'" YGX 5 YGX "C3'" C3 C 0 1 N N S 63.349 29.401 32.828 -1.068 -1.396 0.010 "C3'" YGX 6 YGX "C4'" C4 C 0 1 N N R 64.248 29.485 34.067 0.421 -1.423 0.361 "C4'" YGX 7 YGX "C5'" C5 C 0 1 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 63.678 30.255 37.699 3.356 0.502 -0.972 "O6'" YGX 9 YGX "C6'" C6 C 0 1 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 62.234 28.709 35.439 0.588 1.015 -0.159 "C7'" YGX 11 YGX "O1'" O5 O 0 1 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 62.666 30.676 32.611 -1.235 -1.681 -1.380 O1 YGX 13 YGX H1 H1 H 0 1 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 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 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 62.805 27.369 33.149 -1.512 0.207 1.379 "H2'" YGX 17 YGX "HO2'" H5 H 0 0 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 63.980 29.174 31.956 -1.594 -2.146 0.601 "H3'" YGX 19 YGX "H4'" H7 H 0 1 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 62.971 30.676 35.253 1.033 -0.588 -1.528 "H5'" YGX 21 YGX "HO6'" H9 H 0 0 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 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 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 61.581 29.055 36.254 1.115 1.765 -0.750 "H7'" YGX 25 YGX H2 H13 H 0 1 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 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 #