data_Y45
# 
_chem_comp.id                                    Y45 
_chem_comp.name                                  "Agrocinopine D-like  (C2-C2 linked; with two alpha-D-glucopyranoses)" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C12 H23 O14 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "Agrocinopine D-like; bis[(2S,3R,4S,5S,6R)-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl] hydrogen phosphate; D-glucose-2-phosphate-2-glucose" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-06-09 
_chem_comp.pdbx_modified_date                    2024-01-19 
_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                        422.276 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y45 
_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        8CHC 
_chem_comp.pdbx_subcomponent_list                "GLC ALX" 
_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.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 
Y45 C1  C1  C 0 1 N N S N N N 16.659 -1.317 -16.918 -3.434 1.287  -0.306 C1  GLC 1  
Y45 C2  C2  C 0 1 N N R N N N 15.567 -0.865 -15.956 -2.645 0.081  0.211  C2  GLC 2  
Y45 C3  C3  C 0 1 N N S N N N 14.843 0.373  -16.467 -3.345 -1.207 -0.234 C3  GLC 3  
Y45 C4  C4  C 0 1 N N S N N N 15.826 1.484  -16.819 -4.789 -1.193 0.278  C4  GLC 4  
Y45 C5  C5  C 0 1 N N R N N N 16.888 0.944  -17.777 -5.495 0.061  -0.242 C5  GLC 5  
Y45 C6  C8  C 0 1 N N N N N N 17.982 1.937  -18.094 -6.919 0.113  0.315  C6  GLC 6  
Y45 O1  O2  O 0 1 N N N N N N 16.198 -1.859 -18.131 -3.446 1.271  -1.735 O1  GLC 7  
Y45 O2  O3  O 0 1 N N N N N N 14.564 -1.897 -15.880 -1.320 0.113  -0.323 O2  GLC 8  
Y45 O3  O7  O 0 1 N N N N N N 13.885 0.788  -15.493 -2.656 -2.336 0.306  O3  GLC 9  
Y45 O4  O8  O 0 1 N N N N N N 15.136 2.566  -17.443 -5.472 -2.357 -0.191 O4  GLC 10 
Y45 O5  O9  O 0 1 N N N N N N 17.529 -0.220 -17.219 -4.776 1.221  0.182  O5  GLC 11 
Y45 O6  O1  O 0 1 N N N N N N 18.544 2.483  -16.901 -7.616 1.220  -0.260 O6  GLC 12 
Y45 C11 C6  C 0 1 N N S N N N 11.303 -3.084 -12.611 3.295  -1.298 -0.228 C1  ALX 13 
Y45 O11 O10 O 0 1 N N N N N N 11.918 -2.645 -11.429 3.302  -1.374 -1.655 O1  ALX 14 
Y45 OA2 O6  O 0 1 N N N N N N 13.206 -1.982 -13.699 1.309  0.078  -0.323 O2  ALX 15 
Y45 C21 C7  C 0 1 N N R N N N 11.800 -2.328 -13.849 2.633  0.011  0.210  C2  ALX 16 
Y45 C31 C9  C 0 1 N N S N N N 11.159 -0.950 -13.971 3.457  1.191  -0.314 C3  ALX 17 
Y45 C51 C11 C 0 1 N N R N N N 9.291  -1.744 -12.548 5.468  -0.285 -0.237 C5  ALX 18 
Y45 C61 C12 C 0 1 N N N N N N 7.802  -1.924 -12.339 6.883  -0.443 0.325  C6  ALX 19 
Y45 OAN O4  O 0 1 N N N N N N 15.576 -2.848 -13.866 0.015  1.595  1.391  OAN ALX 20 
Y45 PAM P1  P 0 1 N N N N N N 14.223 -2.737 -14.535 -0.004 0.191  0.602  PAM ALX 21 
Y45 OAO O5  O 0 1 N N N N N N 13.693 -4.063 -15.042 -0.019 -0.923 1.576  OAO ALX 22 
Y45 O31 O11 O 0 1 N N N N N N 11.533 -0.328 -15.202 2.887  2.416  0.152  O3  ALX 23 
Y45 C41 C10 C 0 1 N N S N N N 9.644  -1.054 -13.863 4.894  1.065  0.201  C4  ALX 24 
Y45 O41 O12 O 0 1 N N N N N N 9.068  0.254  -13.877 5.689  2.121  -0.340 O4  ALX 25 
Y45 O61 O14 O 0 1 N N N N N N 7.230  -2.709 -13.371 7.462  -1.649 -0.177 O6  ALX 26 
Y45 O51 O13 O 0 1 N N N N N N 9.872  -3.057 -12.535 4.638  -1.337 0.258  O5  ALX 27 
Y45 H1  H1  H 0 1 N N N N N N 17.248 -2.086 -16.396 -2.965 2.206  0.043  H1  GLC 28 
Y45 H2  H2  H 0 1 N N N N N N 16.001 -0.662 -14.966 -2.601 0.115  1.299  H2  GLC 29 
Y45 H3  H3  H 0 1 N N N N N N 14.313 0.093  -17.389 -3.344 -1.265 -1.322 H3  GLC 30 
Y45 H4  H4  H 0 1 N N N N N N 16.320 1.828  -15.898 -4.788 -1.186 1.368  H4  GLC 31 
Y45 H5  H5  H 0 1 N N N N N N 16.390 0.667  -18.718 -5.531 0.033  -1.331 H5  GLC 32 
Y45 H61 H10 H 0 1 N N N N N N 18.774 1.429  -18.664 -7.440 -0.812 0.067  H61 GLC 33 
Y45 H62 H11 H 0 1 N N N N N N 17.561 2.754  -18.699 -6.882 0.230  1.398  H62 GLC 34 
Y45 HO1 H9  H 0 1 N N N N N N 15.618 -2.590 -17.952 -3.930 2.008  -2.133 HO1 GLC 35 
Y45 HO3 H13 H 0 1 N N N N N N 13.294 0.069  -15.303 -3.046 -3.187 0.064  HO3 GLC 36 
Y45 HO4 H14 H 0 1 N N N N N N 14.475 2.904  -16.851 -6.394 -2.414 0.097  HO4 GLC 37 
Y45 HO6 H6  H 0 1 N N N N N N 19.228 3.103  -17.127 -8.528 1.314  0.048  HO6 GLC 38 
Y45 H6  H7  H 0 1 N N N N N N 11.596 -4.133 -12.763 2.737  -2.142 0.178  H1  ALX 39 
Y45 H7  H20 H 0 1 N N N N N N 11.579 -3.140 -10.692 3.708  -2.179 -2.004 HO1 ALX 40 
Y45 H8  H8  H 0 1 N N N N N N 11.622 -2.920 -14.759 2.590  0.050  1.299  H2  ALX 41 
Y45 H9  H15 H 0 1 N N N N N N 11.517 -0.335 -13.132 3.458  1.179  -1.404 H3  ALX 42 
Y45 H10 H17 H 0 1 N N N N N N 9.696  -1.147 -11.718 5.502  -0.329 -1.325 H5  ALX 43 
Y45 H11 H19 H 0 1 N N N N N N 7.633  -2.423 -11.373 7.492  0.407  0.020  H61 ALX 44 
Y45 H12 H18 H 0 1 N N N N N N 7.319  -0.936 -12.330 6.839  -0.487 1.413  H62 ALX 45 
Y45 H15 H12 H 0 1 N N N N N N 15.864 -3.753 -13.881 0.025  2.370  0.814  H8  ALX 46 
Y45 H13 H21 H 0 1 N N N N N N 12.480 -0.271 -15.254 3.364  3.206  -0.137 HO3 ALX 47 
Y45 H14 H16 H 0 1 N N N N N N 9.261  -1.654 -14.701 4.897  1.127  1.290  H4  ALX 48 
Y45 H16 H22 H 0 1 N N N N N N 8.123  0.185  -13.809 6.613  2.104  -0.055 HO4 ALX 49 
Y45 H17 H23 H 0 1 N N N N N N 6.298  -2.806 -13.216 8.361  -1.815 0.138  HO6 ALX 50 
# 
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 
Y45 O1  C1  SING N N 1  
Y45 C6  C5  SING N N 2  
Y45 C6  O6  SING N N 3  
Y45 C5  O5  SING N N 4  
Y45 C5  C4  SING N N 5  
Y45 O4  C4  SING N N 6  
Y45 O5  C1  SING N N 7  
Y45 C1  C2  SING N N 8  
Y45 C4  C3  SING N N 9  
Y45 C3  C2  SING N N 10 
Y45 C3  O3  SING N N 11 
Y45 C2  O2  SING N N 12 
Y45 O2  PAM SING N N 13 
Y45 O31 C31 SING N N 14 
Y45 OAO PAM DOUB N N 15 
Y45 PAM OAN SING N N 16 
Y45 PAM OA2 SING N N 17 
Y45 C31 C41 SING N N 18 
Y45 C31 C21 SING N N 19 
Y45 O41 C41 SING N N 20 
Y45 C41 C51 SING N N 21 
Y45 C21 OA2 SING N N 22 
Y45 C21 C11 SING N N 23 
Y45 O61 C61 SING N N 24 
Y45 C11 O51 SING N N 25 
Y45 C11 O11 SING N N 26 
Y45 C51 O51 SING N N 27 
Y45 C51 C61 SING N N 28 
Y45 C1  H1  SING N N 29 
Y45 C2  H2  SING N N 30 
Y45 C3  H3  SING N N 31 
Y45 C4  H4  SING N N 32 
Y45 C5  H5  SING N N 33 
Y45 O6  HO6 SING N N 34 
Y45 C11 H6  SING N N 35 
Y45 C21 H8  SING N N 36 
Y45 O1  HO1 SING N N 37 
Y45 C6  H61 SING N N 38 
Y45 C6  H62 SING N N 39 
Y45 OAN H15 SING N N 40 
Y45 O3  HO3 SING N N 41 
Y45 O4  HO4 SING N N 42 
Y45 C31 H9  SING N N 43 
Y45 C41 H14 SING N N 44 
Y45 C51 H10 SING N N 45 
Y45 C61 H12 SING N N 46 
Y45 C61 H11 SING N N 47 
Y45 O11 H7  SING N N 48 
Y45 O31 H13 SING N N 49 
Y45 O41 H16 SING N N 50 
Y45 O61 H17 SING N N 51 
# 
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 
Y45 InChI            InChI                1.06  "InChI=1S/C12H23O14P/c13-1-3-5(15)7(17)9(11(19)23-3)25-27(21,22)26-10-8(18)6(16)4(2-14)24-12(10)20/h3-20H,1-2H2,(H,21,22)/t3-,4-,5-,6-,7+,8+,9-,10-,11+,12+/m1/s1" 
Y45 InChIKey         InChI                1.06  DCDHSOINTWUWCZ-NCFXGAEVSA-N                                                                                                                                        
Y45 SMILES_CANONICAL CACTVS               3.385 "OC[C@H]1O[C@H](O)[C@H](O[P](O)(=O)O[C@H]2[C@@H](O)O[C@H](CO)[C@@H](O)[C@@H]2O)[C@@H](O)[C@@H]1O"                                                                  
Y45 SMILES           CACTVS               3.385 "OC[CH]1O[CH](O)[CH](O[P](O)(=O)O[CH]2[CH](O)O[CH](CO)[CH](O)[CH]2O)[CH](O)[CH]1O"                                                                                 
Y45 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C([C@@H]1[C@H]([C@@H]([C@H]([C@H](O1)O)OP(=O)(O)O[C@@H]2[C@H]([C@@H]([C@H](O[C@@H]2O)CO)O)O)O)O)O"                                                                
Y45 SMILES           "OpenEye OEToolkits" 2.0.7 "C(C1C(C(C(C(O1)O)OP(=O)(O)OC2C(C(C(OC2O)CO)O)O)O)O)O"                                                                                                             
# 
_pdbx_chem_comp_identifier.comp_id           Y45 
_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        "bis[(2~{S},3~{R},4~{S},5~{S},6~{R})-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl] hydrogen phosphate" 
# 
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 Y45 "Agrocinopine D-like"                                                                      AUTHOR ? 
2 Y45 "bis[(2S,3R,4S,5S,6R)-6-(hydroxymethyl)-2,4,5-tris(oxidanyl)oxan-3-yl] hydrogen phosphate" PDB    ? 
3 Y45 D-glucose-2-phosphate-2-glucose                                                            AUTHOR ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
Y45 "Create component"   2023-06-09 PDBE 
Y45 "Other modification" 2023-12-03 PDBE 
Y45 "Modify name"        2023-12-05 PDBE 
Y45 "Initial release"    2024-01-24 RCSB 
# 
