data_8XU
# 
_chem_comp.id                                    8XU 
_chem_comp.name                                  "1-(5-O-phosphono-beta-D-xylofuranosyl)pyrimidine-2,4(1H,3H)-dione" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C9 H13 N2 O9 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2015-07-16 
_chem_comp.pdbx_modified_date                    2015-07-24 
_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                        324.181 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     8XU 
_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        2N4J 
_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 
8XU P      P      P 0 1 N N N 78.668 107.071 -13.170 4.155  0.864  0.130  P      8XU 1  
8XU OP1    OP1    O 0 1 N N N 77.280 107.479 -12.870 3.839  1.820  -0.954 OP1    8XU 2  
8XU OP2    OP2    O 0 1 N N N 79.391 106.217 -12.203 4.706  1.668  1.412  OP2    8XU 3  
8XU "O5'"  "O5'"  O 0 1 N N N 78.691 106.347 -14.613 2.824  0.054  0.536  "O5'"  8XU 4  
8XU "C5'"  "C5'"  C 0 1 N N N 79.699 105.386 -14.941 2.038  -0.676 -0.408 "C5'"  8XU 5  
8XU "C4'"  "C4'"  C 0 1 N N R 79.825 105.178 -16.449 0.851  -1.323 0.308  "C4'"  8XU 6  
8XU "O4'"  "O4'"  O 0 1 N N N 81.194 105.162 -16.836 -0.083 -0.317 0.755  "O4'"  8XU 7  
8XU "C1'"  "C1'"  C 0 1 N N R 81.447 103.998 -17.614 -1.349 -0.972 0.939  "C1'"  8XU 8  
8XU N1     N1     N 0 1 N N N 82.335 103.078 -16.877 -2.439 -0.055 0.595  N1     8XU 9  
8XU C6     C6     C 0 1 N N N 82.294 103.026 -15.516 -3.442 0.174  1.496  C6     8XU 10 
8XU C2     C2     C 0 1 N N N 83.227 102.311 -17.600 -2.441 0.558  -0.603 C2     8XU 11 
8XU O2     O2     O 0 1 N N N 83.266 102.329 -18.825 -1.536 0.344  -1.387 O2     8XU 12 
8XU N3     N3     N 0 1 N N N 84.070 101.506 -16.858 -3.429 1.405  -0.945 N3     8XU 13 
8XU C4     C4     C 0 1 N N N 84.098 101.402 -15.481 -4.439 1.653  -0.087 C4     8XU 14 
8XU O4     O4     O 0 1 N N N 84.904 100.662 -14.926 -5.334 2.419  -0.395 O4     8XU 15 
8XU C5     C5     C 0 1 N N N 83.127 102.235 -14.812 -4.446 1.019  1.179  C5     8XU 16 
8XU "C2'"  "C2'"  C 0 1 N N R 80.118 103.329 -17.947 -1.374 -2.192 -0.002 "C2'"  8XU 17 
8XU "O2'"  "O2'"  O 0 1 N N N 79.667 103.681 -19.261 -1.552 -3.397 0.746  "O2'"  8XU 18 
8XU "C3'"  "C3'"  C 0 1 N N R 79.174 103.862 -16.867 0.020  -2.180 -0.680 "C3'"  8XU 19 
8XU "O3'"  "O3'"  O 0 1 N N N 79.073 102.954 -15.762 -0.043 -1.556 -1.964 "O3'"  8XU 20 
8XU O1     O1     O 0 1 N Y N 79.548 108.398 -13.434 5.279  -0.171 -0.377 O1     8XU 21 
8XU H1     H1     H 0 1 N N N 78.827 106.029 -11.462 5.508  2.180  1.240  H1     8XU 22 
8XU "H5''" "H5''" H 0 0 N N N 79.440 104.426 -14.471 1.672  0.004  -1.178 "H5''" 8XU 23 
8XU "H5'"  "H5'"  H 0 1 N N N 80.665 105.737 -14.549 2.651  -1.450 -0.869 "H5'"  8XU 24 
8XU "H4'"  "H4'"  H 0 1 N N N 79.303 106.001 -16.958 1.194  -1.929 1.146  "H4'"  8XU 25 
8XU "H1'"  "H1'"  H 0 1 N N N 81.935 104.284 -18.558 -1.452 -1.297 1.974  "H1'"  8XU 26 
8XU H6     H6     H 0 1 N N N 81.575 103.635 -14.988 -3.431 -0.319 2.457  H6     8XU 27 
8XU H3     H3     H 0 1 N N N 84.723 100.945 -17.367 -3.415 1.838  -1.813 H3     8XU 28 
8XU H5     H5     H 0 1 N N N 83.068 102.224 -13.734 -5.245 1.208  1.881  H5     8XU 29 
8XU "H2'"  "H2'"  H 0 1 N N N 80.217 102.238 -17.844 -2.163 -2.084 -0.747 "H2'"  8XU 30 
8XU "HO2'" "HO2'" H 0 0 N N N 78.839 103.250 -19.438 -1.576 -4.197 0.203  "HO2'" 8XU 31 
8XU "H3'"  "H3'"  H 0 1 N N N 78.185 104.061 -17.306 0.422  -3.190 -0.760 "H3'"  8XU 32 
8XU H2     H2     H 0 1 N N N 78.482 103.312 -15.110 -0.627 -2.004 -2.591 H2     8XU 33 
8XU H4     H4     H 0 1 N N N 78.997 109.167 -13.343 5.536  -0.828 0.284  H4     8XU 34 
# 
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 
8XU "O2'" "C2'"  SING N N 1  
8XU O2    C2     DOUB N N 2  
8XU "C2'" "C1'"  SING N N 3  
8XU "C2'" "C3'"  SING N N 4  
8XU "C1'" N1     SING N N 5  
8XU "C1'" "O4'"  SING N N 6  
8XU C2    N1     SING N N 7  
8XU C2    N3     SING N N 8  
8XU N1    C6     SING N N 9  
8XU "C3'" "C4'"  SING N N 10 
8XU "C3'" "O3'"  SING N N 11 
8XU N3    C4     SING N N 12 
8XU "O4'" "C4'"  SING N N 13 
8XU "C4'" "C5'"  SING N N 14 
8XU C6    C5     DOUB N N 15 
8XU C4    O4     DOUB N N 16 
8XU C4    C5     SING N N 17 
8XU "C5'" "O5'"  SING N N 18 
8XU "O5'" P      SING N N 19 
8XU P     OP1    DOUB N N 20 
8XU P     OP2    SING N N 21 
8XU P     O1     SING N N 22 
8XU OP2   H1     SING N N 23 
8XU "C5'" "H5''" SING N N 24 
8XU "C5'" "H5'"  SING N N 25 
8XU "C4'" "H4'"  SING N N 26 
8XU "C1'" "H1'"  SING N N 27 
8XU C6    H6     SING N N 28 
8XU N3    H3     SING N N 29 
8XU C5    H5     SING N N 30 
8XU "C2'" "H2'"  SING N N 31 
8XU "O2'" "HO2'" SING N N 32 
8XU "C3'" "H3'"  SING N N 33 
8XU "O3'" H2     SING N N 34 
8XU O1    H4     SING N N 35 
# 
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 
8XU SMILES           ACDLabs              12.01 "P(=O)(O)(O)OCC2OC(N1C=CC(NC1=O)=O)C(C2O)O"                                                                                                         
8XU InChI            InChI                1.03  "InChI=1S/C9H13N2O9P/c12-5-1-2-11(9(15)10-5)8-7(14)6(13)4(20-8)3-19-21(16,17)18/h1-2,4,6-8,13-14H,3H2,(H,10,12,15)(H2,16,17,18)/t4-,6+,7-,8-/m1/s1" 
8XU InChIKey         InChI                1.03  DJJCXFVJDGTHFX-PXBUCIJWSA-N                                                                                                                         
8XU SMILES_CANONICAL CACTVS               3.385 "O[C@@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=CC(=O)NC2=O"                                                                                     
8XU SMILES           CACTVS               3.385 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2C=CC(=O)NC2=O"                                                                                             
8XU SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1=CN(C(=O)NC1=O)[C@H]2[C@@H]([C@H]([C@H](O2)COP(=O)(O)O)O)O"                                                                                      
8XU SMILES           "OpenEye OEToolkits" 1.7.6 "C1=CN(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)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 
8XU "SYSTEMATIC NAME" ACDLabs              12.01 "1-(5-O-phosphono-beta-D-xylofuranosyl)pyrimidine-2,4(1H,3H)-dione"                                                
8XU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,3R,4R,5R)-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen phosphate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
8XU "Create component" 2015-07-16 RCSB 
8XU "Initial release"  2015-07-29 RCSB 
# 
