data_D1J
# 
_chem_comp.id                                    D1J 
_chem_comp.name                                  "1-(beta-D-glucopyranosyl)-5-(pent-1-yn-1-yl)pyrimidine-2,4(1H,3H)-dione" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C15 H20 N2 O7" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2012-04-10 
_chem_comp.pdbx_modified_date                    2012-07-20 
_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                        340.329 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     D1J 
_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        ? 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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 
D1J N1     N1     N 0 1 N N N 34.070 23.555 28.879 -0.014 0.532  -0.058 N1     D1J 1  
D1J C2     C2     C 0 1 N N N 33.347 24.425 29.775 0.158  1.861  -0.132 C2     D1J 2  
D1J O2     O2     O 0 1 N N N 32.106 24.528 29.721 1.287  2.308  -0.190 O2     D1J 3  
D1J N3     N3     N 0 1 N N N 34.094 25.171 30.754 -0.882 2.713  -0.145 N3     D1J 4  
D1J C4     C4     C 0 1 N N N 35.507 25.042 30.835 -2.147 2.245  -0.082 C4     D1J 5  
D1J O4     O4     O 0 1 N N N 36.111 25.682 31.698 -3.093 3.011  -0.093 O4     D1J 6  
D1J C5     C5     C 0 1 N N N 36.206 24.188 29.942 -2.358 0.793  0.000  C5     D1J 7  
D1J C6     C6     C 0 1 N N N 35.496 23.467 28.962 -1.261 -0.021 0.009  C6     D1J 8  
D1J C7     C7     C 0 1 N N N 37.514 24.031 30.006 -3.679 0.245  0.069  C7     D1J 9  
D1J C8     C8     C 0 1 N N N 38.832 23.861 30.036 -4.762 -0.204 0.126  C8     D1J 10 
D1J C9     C9     C 0 1 N N N 39.623 24.100 31.149 -6.121 -0.767 0.198  C9     D1J 11 
D1J "C1'"  "C1'"  C 0 1 N N R 33.318 22.799 27.838 1.160  -0.344 -0.054 "C1'"  D1J 12 
D1J C10    C10    C 0 1 N N N 40.154 23.099 31.962 -6.037 -2.293 0.274  C10    D1J 13 
D1J C11    C11    C 0 1 N N N 41.179 23.441 32.857 -7.449 -2.878 0.348  C11    D1J 14 
D1J "C2'"  "C2'"  C 0 1 N N R 33.773 23.084 26.354 1.892  -0.223 -1.393 "C2'"  D1J 15 
D1J "O2'"  "O2'"  O 0 1 N N N 33.998 24.505 26.166 1.033  -0.661 -2.448 "O2'"  D1J 16 
D1J "C3'"  "C3'"  C 0 1 N N S 32.709 22.452 25.368 3.150  -1.095 -1.359 "C3'"  D1J 17 
D1J "O3'"  "O3'"  O 0 1 N N N 33.069 22.501 23.991 3.879  -0.931 -2.577 "O3'"  D1J 18 
D1J "C4'"  "C4'"  C 0 1 N N S 32.377 21.013 25.807 4.025  -0.665 -0.177 "C4'"  D1J 19 
D1J "O4'"  "O4'"  O 0 1 N N N 31.233 20.527 25.080 5.167  -1.520 -0.092 "O4'"  D1J 20 
D1J "C5'"  "C5'"  C 0 1 N N R 32.151 20.863 27.363 3.210  -0.770 1.115  "C5'"  D1J 21 
D1J "O5'"  "O5'"  O 0 1 N N N 33.272 21.392 28.056 2.039  0.041  1.005  "O5'"  D1J 22 
D1J "C6'"  "C6'"  C 0 1 N N N 32.125 19.374 27.854 4.057  -0.285 2.293  "C6'"  D1J 23 
D1J "O6'"  "O6'"  O 0 1 N N N 33.197 18.601 27.246 3.341  -0.491 3.512  "O6'"  D1J 24 
D1J HN3    HN3    H 0 1 N N N 33.615 25.785 31.382 -0.723 3.668  -0.199 HN3    D1J 25 
D1J H6     H6     H 0 1 N N N 36.034 22.841 28.266 -1.379 -1.093 0.068  H6     D1J 26 
D1J H19    H19    H 0 1 N N N 40.486 24.674 30.782 -6.626 -0.386 1.085  H19    D1J 27 
D1J H29    H29    H 0 1 N N N 39.017 24.733 31.814 -6.681 -0.478 -0.692 H29    D1J 28 
D1J "H1'"  "H1'"  H 0 1 N N N 32.281 23.161 27.892 0.842  -1.377 0.095  "H1'"  D1J 29 
D1J H110   H110   H 0 0 N N N 39.325 22.690 32.558 -5.532 -2.674 -0.614 H110   D1J 30 
D1J H210   H210   H 0 0 N N N 40.550 22.316 31.298 -5.477 -2.582 1.163  H210   D1J 31 
D1J H111   H111   H 0 0 N N N 41.487 22.548 33.421 -7.954 -2.497 1.235  H111   D1J 32 
D1J H211   H211   H 0 0 N N N 42.039 23.835 32.296 -8.009 -2.589 -0.541 H211   D1J 33 
D1J H311   H311   H 0 0 N N N 40.815 24.208 33.556 -7.389 -3.965 0.403  H311   D1J 34 
D1J "H2'"  "H2'"  H 0 1 N N N 34.722 22.550 26.195 2.174  0.817  -1.561 "H2'"  D1J 35 
D1J "HO2'" "HO2'" H 0 0 N N N 34.646 24.809 26.791 1.434  -0.611 -3.327 "HO2'" D1J 36 
D1J "H3'"  "H3'"  H 0 1 N N N 31.788 23.039 25.498 2.866  -2.141 -1.241 "H3'"  D1J 37 
D1J "HO3'" "HO3'" H 0 0 N N N 33.268 23.397 23.747 4.693  -1.451 -2.622 "HO3'" D1J 38 
D1J "H4'"  "H4'"  H 0 1 N N N 33.244 20.387 25.551 4.350  0.366  -0.320 "H4'"  D1J 39 
D1J "HO4'" "HO4'" H 0 0 N N N 31.035 19.640 25.356 5.727  -1.507 -0.880 "HO4'" D1J 40 
D1J "H5'"  "H5'"  H 0 1 N N N 31.216 21.366 27.650 2.920  -1.807 1.279  "H5'"  D1J 41 
D1J "H16'" "H16'" H 0 0 N N N 31.159 18.923 27.582 4.993  -0.844 2.322  "H16'" D1J 42 
D1J "H26'" "H26'" H 0 0 N N N 32.244 19.355 28.947 4.273  0.777  2.173  "H26'" D1J 43 
D1J "HO6'" "HO6'" H 0 0 N N N 33.159 17.705 27.559 3.819  -0.205 4.302  "HO6'" D1J 44 
# 
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 
D1J "O3'" "C3'"  SING N N 1  
D1J "O4'" "C4'"  SING N N 2  
D1J "C3'" "C4'"  SING N N 3  
D1J "C3'" "C2'"  SING N N 4  
D1J "C4'" "C5'"  SING N N 5  
D1J "O2'" "C2'"  SING N N 6  
D1J "C2'" "C1'"  SING N N 7  
D1J "O6'" "C6'"  SING N N 8  
D1J "C5'" "C6'"  SING N N 9  
D1J "C5'" "O5'"  SING N N 10 
D1J "C1'" "O5'"  SING N N 11 
D1J "C1'" N1     SING N N 12 
D1J N1    C6     SING N N 13 
D1J N1    C2     SING N N 14 
D1J C6    C5     DOUB N N 15 
D1J O2    C2     DOUB N N 16 
D1J C2    N3     SING N N 17 
D1J C5    C7     SING N N 18 
D1J C5    C4     SING N N 19 
D1J C7    C8     TRIP N N 20 
D1J C8    C9     SING N N 21 
D1J N3    C4     SING N N 22 
D1J C4    O4     DOUB N N 23 
D1J C9    C10    SING N N 24 
D1J C10   C11    SING N N 25 
D1J N3    HN3    SING N N 26 
D1J C6    H6     SING N N 27 
D1J C9    H19    SING N N 28 
D1J C9    H29    SING N N 29 
D1J "C1'" "H1'"  SING N N 30 
D1J C10   H110   SING N N 31 
D1J C10   H210   SING N N 32 
D1J C11   H111   SING N N 33 
D1J C11   H211   SING N N 34 
D1J C11   H311   SING N N 35 
D1J "C2'" "H2'"  SING N N 36 
D1J "O2'" "HO2'" SING N N 37 
D1J "C3'" "H3'"  SING N N 38 
D1J "O3'" "HO3'" SING N N 39 
D1J "C4'" "H4'"  SING N N 40 
D1J "O4'" "HO4'" SING N N 41 
D1J "C5'" "H5'"  SING N N 42 
D1J "C6'" "H16'" SING N N 43 
D1J "C6'" "H26'" SING N N 44 
D1J "O6'" "HO6'" SING N N 45 
# 
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 
D1J SMILES           ACDLabs              12.01 "O=C1NC(=O)N(C=C1C#CCCC)C2OC(C(O)C(O)C2O)CO"                                                                                                                    
D1J InChI            InChI                1.03  "InChI=1S/C15H20N2O7/c1-2-3-4-5-8-6-17(15(23)16-13(8)22)14-12(21)11(20)10(19)9(7-18)24-14/h6,9-12,14,18-21H,2-3,7H2,1H3,(H,16,22,23)/t9-,10-,11+,12-,14-/m1/s1" 
D1J InChIKey         InChI                1.03  XHEMRIMZCOFGEX-YGEZULPYSA-N                                                                                                                                     
D1J SMILES_CANONICAL CACTVS               3.370 "CCCC#CC1=CN([C@@H]2O[C@H](CO)[C@@H](O)[C@H](O)[C@H]2O)C(=O)NC1=O"                                                                                              
D1J SMILES           CACTVS               3.370 "CCCC#CC1=CN([CH]2O[CH](CO)[CH](O)[CH](O)[CH]2O)C(=O)NC1=O"                                                                                                     
D1J SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CCCC#CC1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@H]([C@@H]([C@H](O2)CO)O)O)O"                                                                                            
D1J SMILES           "OpenEye OEToolkits" 1.7.6 "CCCC#CC1=CN(C(=O)NC1=O)C2C(C(C(C(O2)CO)O)O)O"                                                                                                                  
# 
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 
D1J "SYSTEMATIC NAME" ACDLabs              12.01 "1-(beta-D-glucopyranosyl)-5-(pent-1-yn-1-yl)pyrimidine-2,4(1H,3H)-dione"                                 
D1J "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "1-[(2R,3R,4S,5S,6R)-6-(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]-5-pent-1-ynyl-pyrimidine-2,4-dione" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
D1J "Create component" 2012-04-10 RCSB 
# 
