data_UD5
# 
_chem_comp.id                                    UD5 
_chem_comp.name                                  5-FLUOROURIDINE 
_chem_comp.type                                  "RNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C9 H12 F N2 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               U 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2005-06-01 
_chem_comp.pdbx_modified_date                    2011-06-04 
_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                        326.172 
_chem_comp.one_letter_code                       U 
_chem_comp.three_letter_code                     UD5 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        ? 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        1ZL3 
_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 
UD5 P      P    P 0 1 N N N 6.727  22.146 50.323 -4.509 -1.294 -0.284 P      UD5 1  
UD5 OP1    O1P  O 0 1 N N N 6.170  23.448 49.860 -5.617 -0.443 0.516  OP1    UD5 2  
UD5 OP2    O2P  O 0 1 N N N 6.653  21.792 51.761 -4.602 -2.583 0.676  OP2    UD5 3  
UD5 "O5'"  O5*  O 0 1 N N N 8.248  21.993 49.839 -3.252 -0.640 0.481  "O5'"  UD5 4  
UD5 "C5'"  C5*  C 0 1 N N N 9.005  20.797 50.061 -2.722 0.367  -0.383 "C5'"  UD5 5  
UD5 "C4'"  C4*  C 0 1 N N R 10.128 20.702 49.045 -1.518 1.032  0.287  "C4'"  UD5 6  
UD5 "O4'"  O4*  O 0 1 N N N 11.249 21.542 49.445 -0.430 0.087  0.420  "O4'"  UD5 7  
UD5 "C3'"  C3*  C 0 1 N N S 10.690 19.271 49.002 -0.951 2.159  -0.604 "C3'"  UD5 8  
UD5 "O3'"  O3*  O 0 1 N N N 10.986 18.931 47.648 -1.434 3.432  -0.169 "O3'"  UD5 9  
UD5 "C2'"  C2*  C 0 1 N N R 11.935 19.283 49.886 0.579  2.064  -0.407 "C2'"  UD5 10 
UD5 "O2'"  O2*  O 0 1 N N N 13.030 18.516 49.437 1.088  3.277  0.152  "O2'"  UD5 11 
UD5 "C1'"  C1*  C 0 1 N N R 12.360 20.722 49.695 0.758  0.891  0.582  "C1'"  UD5 12 
UD5 N1     N1   N 0 1 N N N 13.352 21.345 50.565 1.953  0.115  0.240  N1     UD5 13 
UD5 C2     C2   C 0 1 N N N 14.658 20.930 50.382 1.999  -0.560 -0.922 C2     UD5 14 
UD5 O2     O2   O 0 1 N N N 14.968 20.067 49.583 1.049  -0.515 -1.680 O2     UD5 15 
UD5 N3     N3   N 0 1 N N N 15.582 21.564 51.161 3.086  -1.277 -1.264 N3     UD5 16 
UD5 C4     C4   C 0 1 N N N 15.333 22.539 52.085 4.148  -1.339 -0.435 C4     UD5 17 
UD5 O4     O4   O 0 1 N N N 16.274 23.031 52.701 5.129  -1.992 -0.742 O4     UD5 18 
UD5 C5     C5   C 0 1 N N N 13.949 22.892 52.227 4.111  -0.638 0.796  C5     UD5 19 
UD5 C6     C6   C 0 1 N N N 13.032 22.293 51.481 3.011  0.078  1.111  C6     UD5 20 
UD5 F      F    F 0 1 N N N 13.568 23.831 53.137 5.163  -0.685 1.642  F      UD5 21 
UD5 H1P    H1P  H 0 1 N N N 6.217  23.674 48.938 -6.480 -0.716 0.174  H1P    UD5 22 
UD5 H2P    H2P  H 0 1 N N N 7.008  20.961 52.056 -5.339 -3.119 0.353  H2P    UD5 23 
UD5 "H5'"  1H5* H 0 1 N N N 9.380  20.727 51.108 -3.488 1.117  -0.579 "H5'"  UD5 24 
UD5 "H5''" 2H5* H 0 0 N N N 8.360  19.887 50.059 -2.409 -0.087 -1.323 "H5''" UD5 25 
UD5 "H4'"  H4*  H 0 1 N N N 9.704  21.014 48.062 -1.798 1.427  1.264  "H4'"  UD5 26 
UD5 "H3'"  H3*  H 0 1 N N N 9.971  18.505 49.376 -1.213 1.989  -1.648 "H3'"  UD5 27 
UD5 H2     H2   H 0 1 N N N 11.333 18.047 47.621 -1.025 4.096  -0.740 H2     UD5 28 
UD5 "H2'"  H2*  H 0 1 N N N 11.695 18.887 50.900 1.072  1.845  -1.354 "H2'"  UD5 29 
UD5 H1     H1   H 0 1 N N N 13.804 18.523 49.987 0.893  3.980  -0.482 H1     UD5 30 
UD5 "H1'"  H1*  H 0 1 N N N 13.009 20.622 48.794 0.828  1.264  1.604  "H1'"  UD5 31 
UD5 HN3    HN3  H 0 1 N N N 16.554 21.281 51.040 3.104  -1.754 -2.108 HN3    UD5 32 
UD5 H6     H6   H 0 1 N N N 11.979 22.589 51.625 2.964  0.620  2.045  H6     UD5 33 
# 
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 
UD5 P     OP1    SING N N 1  
UD5 P     OP2    SING N N 2  
UD5 P     "O5'"  SING N N 3  
UD5 OP1   H1P    SING N N 4  
UD5 OP2   H2P    SING N N 5  
UD5 "O5'" "C5'"  SING N N 6  
UD5 "C5'" "C4'"  SING N N 7  
UD5 "C5'" "H5'"  SING N N 8  
UD5 "C5'" "H5''" SING N N 9  
UD5 "C4'" "O4'"  SING N N 10 
UD5 "C4'" "C3'"  SING N N 11 
UD5 "C4'" "H4'"  SING N N 12 
UD5 "O4'" "C1'"  SING N N 13 
UD5 "C3'" "O3'"  SING N N 14 
UD5 "C3'" "C2'"  SING N N 15 
UD5 "C3'" "H3'"  SING N N 16 
UD5 "O3'" H2     SING N N 17 
UD5 "C2'" "O2'"  SING N N 18 
UD5 "C2'" "C1'"  SING N N 19 
UD5 "C2'" "H2'"  SING N N 20 
UD5 "O2'" H1     SING N N 21 
UD5 "C1'" N1     SING N N 22 
UD5 "C1'" "H1'"  SING N N 23 
UD5 N1    C2     SING N N 24 
UD5 N1    C6     SING N N 25 
UD5 C2    O2     DOUB N N 26 
UD5 C2    N3     SING N N 27 
UD5 N3    C4     SING N N 28 
UD5 N3    HN3    SING N N 29 
UD5 C4    O4     DOUB N N 30 
UD5 C4    C5     SING N N 31 
UD5 C5    C6     DOUB N N 32 
UD5 C5    F      SING N N 33 
UD5 C6    H6     SING N N 34 
# 
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 
UD5 SMILES           ACDLabs              10.04 "FC=1C(=O)NC(=O)N(C=1)C2OC(C(O)C2O)COP(O)O"                                                                                                 
UD5 SMILES_CANONICAL CACTVS               3.341 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1COP(O)O)N2C=C(F)C(=O)NC2=O"                                                                                 
UD5 SMILES           CACTVS               3.341 "O[CH]1[CH](O)[CH](O[CH]1COP(O)O)N2C=C(F)C(=O)NC2=O"                                                                                        
UD5 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1=C(C(=O)NC(=O)N1[C@H]2[C@@H]([C@@H]([C@H](O2)COP(O)O)O)O)F"                                                                              
UD5 SMILES           "OpenEye OEToolkits" 1.5.0 "C1=C(C(=O)NC(=O)N1C2C(C(C(O2)COP(O)O)O)O)F"                                                                                                
UD5 InChI            InChI                1.03  "InChI=1S/C9H12FN2O8P/c10-3-1-12(9(16)11-7(3)15)8-6(14)5(13)4(20-8)2-19-21(17)18/h1,4-6,8,13-14,17-18H,2H2,(H,11,15,16)/t4-,5-,6-,8-/m1/s1" 
UD5 InChIKey         InChI                1.03  OWIMOOFVTCJDCZ-UAKXSSHOSA-N                                                                                                                 
# 
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 
UD5 "SYSTEMATIC NAME" ACDLabs              10.04 "5'-O-(dihydroxyphosphanyl)-5-fluorouridine"                                                                 
UD5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-5-(5-fluoro-2,4-dioxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl dihydrogen phosphite" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
UD5 "Create component"  2005-06-01 RCSB 
UD5 "Modify descriptor" 2011-06-04 RCSB 
# 
