data_J5B
# 
_chem_comp.id                                    J5B 
_chem_comp.name                                  "(3R)-3-hydroxybutyl alpha-D-glucopyranoside" 
_chem_comp.type                                  D-saccharide 
_chem_comp.pdbx_type                             ATOMS 
_chem_comp.formula                               "C10 H20 O7" 
_chem_comp.mon_nstd_parent_comp_id               GLC 
_chem_comp.pdbx_synonyms                         
;(2~{R},3~{S},4~{S},5~{R},6~{S})-2-(hydroxymethyl)-6-[(3~{R})-3-oxidanylbutoxy]oxane-3,4,5-triol; reacted
3,4-EPOXYBUTYL-ALPHA-D-GLUCOPYRANOSIDE; (3R)-3-hydroxybutyl alpha-D-glucoside; (3R)-3-hydroxybutyl D-glucoside;
(3R)-3-hydroxybutyl glucoside
;
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2019-01-26 
_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                        252.262 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     J5B 
_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        2XGI 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
_chem_comp.pdbx_pcm                              Y 
# 
loop_
_pdbx_chem_comp_synonyms.ordinal 
_pdbx_chem_comp_synonyms.comp_id 
_pdbx_chem_comp_synonyms.name 
_pdbx_chem_comp_synonyms.provenance 
_pdbx_chem_comp_synonyms.type 
1 J5B "(2~{R},3~{S},4~{S},5~{R},6~{S})-2-(hydroxymethyl)-6-[(3~{R})-3-oxidanylbutoxy]oxane-3,4,5-triol" PDB ? 
2 J5B "reacted 3,4-EPOXYBUTYL-ALPHA-D-GLUCOPYRANOSIDE"                                                  PDB ? 
3 J5B "(3R)-3-hydroxybutyl alpha-D-glucoside"                                                           PDB ? 
4 J5B "(3R)-3-hydroxybutyl D-glucoside"                                                                 PDB ? 
5 J5B "(3R)-3-hydroxybutyl glucoside"                                                                   PDB ? 
# 
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 
J5B C1  C1  C 0 1 N N S N N N 14.124 7.119  28.143 -0.507 -0.740 1.185  C1  J5B 1  
J5B O1  O1  O 0 1 N N N N N N 14.253 7.812  26.895 0.509  -0.983 0.209  O1  J5B 2  
J5B C2  C2  C 0 1 N N R N N N 12.646 6.880  28.463 -1.789 -1.471 0.780  C2  J5B 3  
J5B O2  O2  O 0 1 N N N N N N 11.954 6.157  27.425 -1.520 -2.867 0.643  O2  J5B 4  
J5B C3  C3  C 0 1 N N S N N N 11.958 8.229  28.704 -2.286 -0.911 -0.557 C3  J5B 5  
J5B O3  O3  O 0 1 N N N N N N 10.586 8.002  28.982 -3.522 -1.536 -0.907 O3  J5B 6  
J5B C4  C4  C 0 1 N N S N N N 12.630 8.978  29.846 -2.496 0.600  -0.419 C4  J5B 7  
J5B O4  O4  O 0 1 N N N N N N 11.997 10.264 30.038 -2.890 1.144  -1.680 O4  J5B 8  
J5B C5  C5  C 0 1 N N R N N N 14.117 9.141  29.501 -1.186 1.250  0.033  C5  J5B 9  
J5B O5  O5  O 0 1 N N N N N N 14.715 7.856  29.223 -0.764 0.663  1.265  O5  J5B 10 
J5B C6  C6  C 0 1 N N N N N N 14.934 9.806  30.589 -1.404 2.752  0.231  C6  J5B 11 
J5B O6  O6  O 0 1 N N N N N N 14.956 8.987  31.757 -0.157 3.378  0.539  O6  J5B 12 
J5B C7  C7  C 0 1 N N N N N N 15.605 8.189  26.554 1.809  -0.536 0.600  C7  J5B 13 
J5B C8  C8  C 0 1 N N N N N N 15.710 8.761  25.151 2.810  -0.846 -0.515 C8  J5B 14 
J5B C9  C9  C 0 1 N N R N N N 15.938 10.259 24.938 4.202  -0.368 -0.097 C9  J5B 15 
J5B C10 C10 C 0 1 N N N N N N 15.059 10.698 23.788 5.225  -0.788 -1.154 C10 J5B 16 
J5B O9  O9  O 0 1 N N N N N N 15.880 10.976 26.196 4.201  1.056  0.025  O9  J5B 17 
J5B H1  H1  H 0 1 N N N N N N 14.616 6.138  28.064 -0.172 -1.104 2.157  H1  J5B 18 
J5B H2  H2  H 0 1 N N N N N N 12.592 6.303  29.398 -2.552 -1.319 1.544  H2  J5B 19 
J5B HO2 H3  H 0 1 N Y N N N N 11.045 6.037  27.674 -1.197 -3.287 1.452  HO2 J5B 20 
J5B H3  H4  H 0 1 N N N N N N 12.056 8.833  27.790 -1.546 -1.108 -1.332 H3  J5B 21 
J5B HO3 H5  H 0 1 N Y N N N N 10.151 8.833  29.133 -3.464 -2.496 -1.004 HO3 J5B 22 
J5B H4  H6  H 0 1 N N N N N N 12.545 8.378  30.764 -3.274 0.793  0.320  H4  J5B 23 
J5B HO4 H7  H 0 1 N Y N N N N 12.423 10.724 30.752 -3.712 0.773  -2.029 HO4 J5B 24 
J5B H5  H8  H 0 1 N N N N N N 14.184 9.766  28.598 -0.421 1.091  -0.727 H5  J5B 25 
J5B H61 H9  H 0 1 N N N N N N 15.963 9.956  30.231 -1.811 3.184  -0.683 H61 J5B 26 
J5B H62 H10 H 0 1 N N N N N N 14.486 10.780 30.836 -2.103 2.912  1.051  H62 J5B 27 
J5B HO6 H11 H 0 1 N Y N N N N 15.470 9.412  32.433 -0.219 4.332  0.678  HO6 J5B 28 
J5B H12 H12 H 0 1 N N N N N N 16.248 7.299  26.622 1.785  0.539  0.779  H12 J5B 29 
J5B H13 H13 H 0 1 N N N N N N 15.952 8.947  27.271 2.111  -1.050 1.513  H13 J5B 30 
J5B H14 H14 H 0 1 N N N N N N 14.771 8.509  24.637 2.834  -1.921 -0.693 H14 J5B 31 
J5B H15 H15 H 0 1 N N N N N N 16.547 8.242  24.661 2.509  -0.333 -1.427 H15 J5B 32 
J5B H16 H16 H 0 1 N N N N N N 16.972 10.351 24.575 4.467  -0.814 0.862  H16 J5B 33 
J5B H17 H17 H 0 1 N N N N N N 15.200 11.774 23.608 4.960  -0.342 -2.113 H17 J5B 34 
J5B H18 H18 H 0 1 N N N N N N 15.332 10.136 22.883 6.217  -0.448 -0.857 H18 J5B 35 
J5B H19 H19 H 0 1 N N N N N N 16.486 10.583 26.813 3.973  1.520  -0.793 H19 J5B 36 
J5B H20 H20 H 0 1 N N N N N N 14.005 10.502 24.037 5.227  -1.874 -1.247 H20 J5B 37 
# 
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 
J5B C10 C9  SING N N 1  
J5B C9  C8  SING N N 2  
J5B C9  O9  SING N N 3  
J5B C8  C7  SING N N 4  
J5B C7  O1  SING N N 5  
J5B O1  C1  SING N N 6  
J5B O2  C2  SING N N 7  
J5B C1  C2  SING N N 8  
J5B C1  O5  SING N N 9  
J5B C2  C3  SING N N 10 
J5B C3  O3  SING N N 11 
J5B C3  C4  SING N N 12 
J5B O5  C5  SING N N 13 
J5B C5  C4  SING N N 14 
J5B C5  C6  SING N N 15 
J5B C4  O4  SING N N 16 
J5B C6  O6  SING N N 17 
J5B C1  H1  SING N N 18 
J5B C2  H2  SING N N 19 
J5B O2  HO2 SING N N 20 
J5B C3  H3  SING N N 21 
J5B O3  HO3 SING N N 22 
J5B C4  H4  SING N N 23 
J5B O4  HO4 SING N N 24 
J5B C5  H5  SING N N 25 
J5B C6  H61 SING N N 26 
J5B C6  H62 SING N N 27 
J5B O6  HO6 SING N N 28 
J5B C7  H12 SING N N 29 
J5B C7  H13 SING N N 30 
J5B C8  H14 SING N N 31 
J5B C8  H15 SING N N 32 
J5B C9  H16 SING N N 33 
J5B C10 H17 SING N N 34 
J5B C10 H18 SING N N 35 
J5B O9  H19 SING N N 36 
J5B C10 H20 SING N N 37 
# 
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 
J5B InChI            InChI                1.03  "InChI=1S/C10H20O7/c1-5(12)2-3-16-10-9(15)8(14)7(13)6(4-11)17-10/h5-15H,2-4H2,1H3/t5-,6-,7-,8+,9-,10+/m1/s1" 
J5B InChIKey         InChI                1.03  IQTXPPTUXXJFDH-JQRWTQJCSA-N                                                                                  
J5B SMILES_CANONICAL CACTVS               3.385 "C[C@@H](O)CCO[C@H]1O[C@H](CO)[C@@H](O)[C@H](O)[C@H]1O"                                                      
J5B SMILES           CACTVS               3.385 "C[CH](O)CCO[CH]1O[CH](CO)[CH](O)[CH](O)[CH]1O"                                                              
J5B SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C[C@H](CCO[C@@H]1[C@@H]([C@H]([C@@H]([C@H](O1)CO)O)O)O)O"                                                   
J5B SMILES           "OpenEye OEToolkits" 2.0.6 "CC(CCOC1C(C(C(C(O1)CO)O)O)O)O"                                                                              
# 
_pdbx_chem_comp_identifier.comp_id           J5B 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.6 
_pdbx_chem_comp_identifier.identifier        "(2~{R},3~{S},4~{S},5~{R},6~{S})-2-(hydroxymethyl)-6-[(3~{R})-3-oxidanylbutoxy]oxane-3,4,5-triol" 
# 
_pdbx_chem_comp_related.comp_id             J5B 
_pdbx_chem_comp_related.related_comp_id     GLC 
_pdbx_chem_comp_related.relationship_type   "Carbohydrate core" 
_pdbx_chem_comp_related.details             ? 
# 
loop_
_pdbx_chem_comp_atom_related.ordinal 
_pdbx_chem_comp_atom_related.comp_id 
_pdbx_chem_comp_atom_related.atom_id 
_pdbx_chem_comp_atom_related.related_comp_id 
_pdbx_chem_comp_atom_related.related_atom_id 
_pdbx_chem_comp_atom_related.related_type 
1  J5B C1  GLC C1  "Carbohydrate core" 
2  J5B C2  GLC C2  "Carbohydrate core" 
3  J5B C3  GLC C3  "Carbohydrate core" 
4  J5B C4  GLC C4  "Carbohydrate core" 
5  J5B C5  GLC C5  "Carbohydrate core" 
6  J5B C6  GLC C6  "Carbohydrate core" 
7  J5B O1  GLC O1  "Carbohydrate core" 
8  J5B O2  GLC O2  "Carbohydrate core" 
9  J5B O3  GLC O3  "Carbohydrate core" 
10 J5B O4  GLC O4  "Carbohydrate core" 
11 J5B O5  GLC O5  "Carbohydrate core" 
12 J5B O6  GLC O6  "Carbohydrate core" 
13 J5B H1  GLC H1  "Carbohydrate core" 
14 J5B H62 GLC H62 "Carbohydrate core" 
15 J5B HO6 GLC HO6 "Carbohydrate core" 
16 J5B H2  GLC H2  "Carbohydrate core" 
17 J5B HO2 GLC HO2 "Carbohydrate core" 
18 J5B H3  GLC H3  "Carbohydrate core" 
19 J5B HO3 GLC HO3 "Carbohydrate core" 
20 J5B H4  GLC H4  "Carbohydrate core" 
21 J5B HO4 GLC HO4 "Carbohydrate core" 
22 J5B H5  GLC H5  "Carbohydrate core" 
23 J5B H61 GLC H61 "Carbohydrate core" 
# 
loop_
_pdbx_chem_comp_feature.comp_id 
_pdbx_chem_comp_feature.type 
_pdbx_chem_comp_feature.value 
_pdbx_chem_comp_feature.source 
_pdbx_chem_comp_feature.support 
J5B "CARBOHYDRATE ISOMER"                 D        PDB ? 
J5B "CARBOHYDRATE RING"                   pyranose PDB ? 
J5B "CARBOHYDRATE ANOMER"                 alpha    PDB ? 
J5B "CARBOHYDRATE PRIMARY CARBONYL GROUP" aldose   PDB ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
J5B "Create component"         2019-01-26 EBI  
J5B "Initial release"          2019-02-06 RCSB 
J5B "Other modification"       2020-07-03 RCSB 
J5B "Modify parent residue"    2020-07-17 RCSB 
J5B "Modify name"              2020-07-17 RCSB 
J5B "Modify synonyms"          2020-07-17 RCSB 
J5B "Modify atom id"           2020-07-17 RCSB 
J5B "Modify component atom id" 2020-07-17 RCSB 
J5B "Modify leaving atom flag" 2020-07-17 RCSB 
J5B "Modify PCM"               2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            J5B 
_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               C10 
_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      ? 
# 
