data_YLL
# 
_chem_comp.id                                    YLL 
_chem_comp.name                                  "(1R,2S,3S,4S,5R,6R)-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                     2006-11-29 
_chem_comp.pdbx_modified_date                    2024-09-27 
_chem_comp.pdbx_ambiguous_flag                   ? 
_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                     YLL 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        "OpenEye/OEToolkits V1.4.2" 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        ? 
_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 
YLL O5   O5   O 0 1 N N N N N N -1.352 9.226  10.530 2.007  0.293  -0.078 O5   YLL 1  
YLL C7   C7   C 0 1 N N R N N N -2.025 10.467 10.259 0.720  0.754  0.341  C7   YLL 2  
YLL C5   C5   C 0 1 N N N N N N -2.489 10.510 8.779  0.418  2.115  -0.318 C5   YLL 3  
YLL C6   C6   C 0 1 N N N N N N -3.426 9.382  8.366  0.368  1.980  -1.844 C6   YLL 4  
YLL O6   O6   O 0 1 N N N N N N -2.805 8.111  8.562  0.078  3.251  -2.391 O6   YLL 5  
YLL C4   C4   C 0 1 N N R N N N -1.246 10.624 7.860  -0.884 2.731  0.232  C4   YLL 6  
YLL O4   O4   O 0 1 N N N N N N -1.607 10.758 6.486  -2.001 1.942  -0.170 O4   YLL 7  
YLL C3   C3   C 0 1 N N S N N N -0.486 11.897 8.299  -0.854 2.832  1.761  C3   YLL 8  
YLL O3   O3   O 0 1 N N N N N N 0.682  12.154 7.518  0.168  3.746  2.155  O3   YLL 9  
YLL C2   C2   C 0 1 N N N N N N 0.014  11.853 9.737  -0.584 1.466  2.402  C2   YLL 10 
YLL O2   O2   O 0 1 N N N N N N 0.611  13.109 10.023 -0.473 1.615  3.818  O2   YLL 11 
YLL C1   C1   C 0 1 N N S N N N -1.111 11.629 10.699 0.702  0.827  1.874  C1   YLL 12 
YLL OXT  OXT  O 0 1 N N N N N N -2.115 12.652 10.592 0.811  -0.499 2.399  OXT  YLL 13 
YLL H5   H5   H 0 1 N N N N N N -1.068 9.200  11.436 1.939  -0.670 -0.156 H5   YLL 14 
YLL H7   H7   H 0 1 N N N N N N -2.964 10.568 10.851 0.000  -0.001 0.002  H7   YLL 15 
YLL HA   HA   H 0 1 N N N N N N -3.125 11.418 8.662  1.253  2.793  -0.098 HA   YLL 16 
YLL H6C1 1H6C H 0 0 N N N N N N -3.787 9.508  7.319  -0.413 1.276  -2.121 H6C1 YLL 17 
YLL H6C2 2H6C H 0 0 N N N N N N -4.408 9.447  8.891  1.331  1.635  -2.211 H6C2 YLL 18 
YLL H4   H4   H 0 1 N N N N N N -0.629 9.700  7.954  -1.012 3.731  -0.199 H4   YLL 19 
YLL H6   H6   H 0 1 N N N N N N -3.389 7.408  8.304  0.026  3.144  -3.357 H6   YLL 20 
YLL HB   HB   H 0 1 N N N N N N -0.845 10.828 5.923  -1.915 1.809  -1.126 HB   YLL 21 
YLL H3   H3   H 0 1 N N N N N N -1.258 12.690 8.165  -1.804 3.225  2.141  H3   YLL 22 
YLL HC   HC   H 0 1 N N N N N N 1.149  12.936 7.788  0.796  3.789  1.418  HC   YLL 23 
YLL H2   H2   H 0 1 N N N N N N 0.739  11.013 9.847  -1.430 0.791  2.227  H2   YLL 24 
YLL HD   HD   H 0 1 N N N N N N 1.325  13.251 9.412  -0.333 2.559  3.983  HD   YLL 25 
YLL HXT  HXT  H 0 1 N N N N N N -2.337 12.971 11.459 0.039  -0.984 2.072  HXT  YLL 26 
YLL H1   H1   H 0 1 N N N N N N -0.592 11.525 11.663 1.584  1.364  2.242  H1   YLL 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 
YLL O5  C7   SING N N 1  
YLL O5  H5   SING N N 2  
YLL C7  C5   SING N N 3  
YLL C7  C1   SING N N 4  
YLL C7  H7   SING N N 5  
YLL C5  C6   SING N N 6  
YLL C5  C4   SING N N 7  
YLL C5  HA   SING N N 8  
YLL C6  O6   SING N N 9  
YLL C6  H6C1 SING N N 10 
YLL C6  H6C2 SING N N 11 
YLL O6  H6   SING N N 12 
YLL C4  O4   SING N N 13 
YLL C4  C3   SING N N 14 
YLL C4  H4   SING N N 15 
YLL O4  HB   SING N N 16 
YLL C3  O3   SING N N 17 
YLL C3  C2   SING N N 18 
YLL C3  H3   SING N N 19 
YLL O3  HC   SING N N 20 
YLL C2  O2   SING N N 21 
YLL C2  C1   SING N N 22 
YLL C2  H2   SING N N 23 
YLL O2  HD   SING N N 24 
YLL C1  H1   SING N N 25 
YLL C1  OXT  SING N N 26 
YLL OXT HXT  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 
YLL SMILES           ACDLabs              10.04 "OC1C(C(O)C(O)C(O)C1O)CO"                                                               
YLL SMILES_CANONICAL CACTVS               3.341 "OC[C@@H]1[C@@H](O)[C@H](O)[C@@H](O)[C@@H](O)[C@@H]1O"                                  
YLL SMILES           CACTVS               3.341 "OC[CH]1[CH](O)[CH](O)[CH](O)[CH](O)[CH]1O"                                             
YLL SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C(C1[C@H]([C@@H](C([C@H]([C@@H]1O)O)O)O)O)O"                                           
YLL SMILES           "OpenEye OEToolkits" 1.5.0 "C(C1C(C(C(C(C1O)O)O)O)O)O"                                                             
YLL 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" 
YLL InChIKey         InChI                1.03  QFYQIWDMMSKNFF-NYLBLOMBSA-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 
YLL "SYSTEMATIC NAME" ACDLabs              10.04 "(1R,2S,3S,4S,5R,6R)-6-(hydroxymethyl)cyclohexane-1,2,3,4,5-pentol" 
YLL "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(1R,2S,4S,5R)-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 
YLL "Create component"  2006-11-29 RCSB 
YLL "Modify descriptor" 2011-06-04 RCSB 
YLL "Modify PCM"        2024-09-27 PDBE 
# 
loop_
_pdbx_chem_comp_pcm.pcm_id 
_pdbx_chem_comp_pcm.comp_id 
_pdbx_chem_comp_pcm.modified_residue_id 
_pdbx_chem_comp_pcm.type 
_pdbx_chem_comp_pcm.category 
_pdbx_chem_comp_pcm.position 
_pdbx_chem_comp_pcm.polypeptide_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 
1 YLL GLU None "Covalent chemical modification" "Amino-acid side chain" "Any position" C1 OE1 ? ? 
2 YLL GLU None "Covalent chemical modification" "Amino-acid side chain" "Any position" C1 OE2 ? ? 
3 YLL GLU None "Covalent chemical modification" "Amino-acid side chain" "Any position" C3 OE2 ? ? 
# 
