data_8XC
# 
_chem_comp.id                                    8XC 
_chem_comp.name                                  "4-amino-1-(5-O-phosphono-beta-D-xylofuranosyl)pyrimidin-2(1H)-one" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C9 H14 N3 O8 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                        323.197 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     8XC 
_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 
8XC P      P      P 0 1 N N N 78.992 75.769 -20.332 4.169  0.937  0.071  P      8XC 1  
8XC OP1    OP1    O 0 1 N N N 78.907 75.742 -21.808 3.923  1.607  -1.226 OP1    8XC 2  
8XC OP2    OP2    O 0 1 N N N 77.750 75.874 -19.539 4.612  2.032  1.164  OP2    8XC 3  
8XC "O5'"  "O5'"  O 0 1 N N N 79.805 74.463 -19.840 2.822  0.205  0.560  "O5'"  8XC 4  
8XC "C5'"  "C5'"  C 0 1 N N N 80.778 74.583 -18.803 2.118  -0.747 -0.241 "C5'"  8XC 5  
8XC "C4'"  "C4'"  C 0 1 N N R 82.159 74.133 -19.262 0.888  -1.245 0.522  "C4'"  8XC 6  
8XC "O4'"  "O4'"  O 0 1 N N N 83.170 74.821 -18.531 -0.096 -0.193 0.632  "O4'"  8XC 7  
8XC "C1'"  "C1'"  C 0 1 N N R 84.039 73.857 -17.951 -1.346 -0.868 0.894  "C1'"  8XC 8  
8XC N1     N1     N 0 1 N N N 83.769 73.731 -16.500 -2.475 -0.001 0.548  N1     8XC 9  
8XC C6     C6     C 0 1 N N N 82.790 74.476 -15.904 -3.448 0.245  1.470  C6     8XC 10 
8XC C2     C2     C 0 1 N N N 84.550 72.850 -15.771 -2.543 0.553  -0.677 C2     8XC 11 
8XC O2     O2     O 0 1 N N N 85.416 72.178 -16.327 -1.661 0.325  -1.488 O2     8XC 12 
8XC N3     N3     N 0 1 N N N 84.325 72.744 -14.433 -3.558 1.345  -1.018 N3     8XC 13 
8XC C4     C4     C 0 1 N N N 83.374 73.468 -13.834 -4.531 1.608  -0.155 C4     8XC 14 
8XC N4     N4     N 0 1 N N N 83.191 73.343 -12.523 -5.574 2.428  -0.518 N4     8XC 15 
8XC C5     C5     C 0 1 N N N 82.561 74.376 -14.580 -4.486 1.048  1.138  C5     8XC 16 
8XC "C2'"  "C2'"  C 0 1 N N R 83.811 72.532 -18.676 -1.322 -2.112 -0.022 "C2'"  8XC 17 
8XC "O2'"  "O2'"  O 0 1 N N N 84.644 72.417 -19.838 -1.919 -3.230 0.638  "O2'"  8XC 18 
8XC "C3'"  "C3'"  C 0 1 N N R 82.338 72.629 -19.054 0.181  -2.366 -0.272 "C3'"  8XC 19 
8XC "O3'"  "O3'"  O 0 1 N N N 81.502 72.139 -17.996 0.482  -2.259 -1.665 "O3'"  8XC 20 
8XC O1     O1     O 0 1 N Y N 79.990 76.962 -19.893 5.340  -0.154 -0.102 O1     8XC 21 
8XC H1     H1     H 0 1 N N N 77.003 75.913 -20.124 5.419  2.514  0.934  H1     8XC 22 
8XC "H5''" "H5''" H 0 0 N N N 80.834 75.636 -18.488 1.801  -0.275 -1.171 "H5''" 8XC 23 
8XC "H5'"  "H5'"  H 0 1 N N N 80.467 73.961 -17.950 2.772  -1.589 -0.465 "H5'"  8XC 24 
8XC "H4'"  "H4'"  H 0 1 N N N 82.259 74.351 -20.335 1.175  -1.603 1.510  "H4'"  8XC 25 
8XC "H1'"  "H1'"  H 0 1 N N N 85.086 74.160 -18.098 -1.404 -1.166 1.941  "H1'"  8XC 26 
8XC H6     H6     H 0 1 N N N 82.194 75.151 -16.500 -3.391 -0.196 2.454  H6     8XC 27 
8XC H41    H41    H 0 1 N N N 83.762 72.713 -11.996 -5.601 2.815  -1.407 H41    8XC 28 
8XC H42    H42    H 0 1 N N N 82.483 73.879 -12.064 -6.284 2.619  0.115  H42    8XC 29 
8XC H5     H5     H 0 1 N N N 81.791 74.961 -14.100 -5.268 1.257  1.854  H5     8XC 30 
8XC "H2'"  "H2'"  H 0 1 N N N 83.969 71.692 -17.984 -1.836 -1.905 -0.961 "H2'"  8XC 31 
8XC "HO2'" "HO2'" H 0 0 N N N 85.554 72.359 -19.571 -1.931 -4.039 0.108  "HO2'" 8XC 32 
8XC "H3'"  "H3'"  H 0 1 N N N 82.152 72.092 -19.996 0.472  -3.345 0.108  "H3'"  8XC 33 
8XC "HO3'" "HO3'" H 0 0 N N N 81.637 71.204 -17.893 0.063  -2.938 -2.211 "HO3'" 8XC 34 
8XC H2     H2     H 0 1 N N N 80.318 77.402 -20.668 5.555  -0.632 0.710  H2     8XC 35 
# 
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 
8XC OP1   P      DOUB N N 1  
8XC P     "O5'"  SING N N 2  
8XC P     OP2    SING N N 3  
8XC "O5'" "C5'"  SING N N 4  
8XC "O2'" "C2'"  SING N N 5  
8XC "C4'" "C3'"  SING N N 6  
8XC "C4'" "C5'"  SING N N 7  
8XC "C4'" "O4'"  SING N N 8  
8XC "C3'" "C2'"  SING N N 9  
8XC "C3'" "O3'"  SING N N 10 
8XC "C2'" "C1'"  SING N N 11 
8XC "O4'" "C1'"  SING N N 12 
8XC "C1'" N1     SING N N 13 
8XC N1    C6     SING N N 14 
8XC N1    C2     SING N N 15 
8XC O2    C2     DOUB N N 16 
8XC C6    C5     DOUB N N 17 
8XC C2    N3     SING N N 18 
8XC C5    C4     SING N N 19 
8XC N3    C4     DOUB N N 20 
8XC C4    N4     SING N N 21 
8XC P     O1     SING N N 22 
8XC OP2   H1     SING N N 23 
8XC "C5'" "H5''" SING N N 24 
8XC "C5'" "H5'"  SING N N 25 
8XC "C4'" "H4'"  SING N N 26 
8XC "C1'" "H1'"  SING N N 27 
8XC C6    H6     SING N N 28 
8XC N4    H41    SING N N 29 
8XC N4    H42    SING N N 30 
8XC C5    H5     SING N N 31 
8XC "C2'" "H2'"  SING N N 32 
8XC "O2'" "HO2'" SING N N 33 
8XC "C3'" "H3'"  SING N N 34 
8XC "O3'" "HO3'" SING N N 35 
8XC O1    H2     SING N N 36 
# 
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 
8XC SMILES           ACDLabs              12.01 "P(OCC1C(C(C(O1)N2C=CC(=NC2=O)N)O)O)(O)(O)=O"                                                                                                        
8XC InChI            InChI                1.03  "InChI=1S/C9H14N3O8P/c10-5-1-2-12(9(15)11-5)8-7(14)6(13)4(20-8)3-19-21(16,17)18/h1-2,4,6-8,13-14H,3H2,(H2,10,11,15)(H2,16,17,18)/t4-,6+,7-,8-/m1/s1" 
8XC InChIKey         InChI                1.03  IERHLVCPSMICTF-PXBUCIJWSA-N                                                                                                                          
8XC SMILES_CANONICAL CACTVS               3.385 "NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P](O)(O)=O)[C@H](O)[C@H]2O"                                                                                       
8XC SMILES           CACTVS               3.385 "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O"                                                                                            
8XC SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1=CN(C(=O)N=C1N)[C@H]2[C@@H]([C@H]([C@H](O2)COP(=O)(O)O)O)O"                                                                                       
8XC SMILES           "OpenEye OEToolkits" 1.7.6 "C1=CN(C(=O)N=C1N)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 
8XC "SYSTEMATIC NAME" ACDLabs              12.01 "4-amino-1-(5-O-phosphono-beta-D-xylofuranosyl)pyrimidin-2(1H)-one"                                                   
8XC "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,3R,4R,5R)-5-(4-azanyl-2-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 
8XC "Create component" 2015-07-16 RCSB 
8XC "Initial release"  2015-07-29 RCSB 
# 
