data_IU
# 
_chem_comp.id                                    IU 
_chem_comp.name                                  "5-IODOURIDINE-5'-MONOPHOSPHATE" 
_chem_comp.type                                  "RNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C9 H12 I N2 O9 P" 
_chem_comp.mon_nstd_parent_comp_id               U 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2005-05-31 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        450.078 
_chem_comp.one_letter_code                       U 
_chem_comp.three_letter_code                     IU 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   Y 
_chem_comp.pdbx_ideal_coordinates_details        ? 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        1YVP 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
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 
IU P      P    P 0 1 N N N N N N 26.239 13.077 30.650 2.787  0.324  -4.407 P      IU 1  
IU OP1    O1P  O 0 1 N N N N N N 25.263 13.309 31.752 3.659  1.172  -5.286 OP1    IU 2  
IU OP2    O2P  O 0 1 N N N N N N 26.533 14.185 29.699 1.198  0.588  -4.548 OP2    IU 3  
IU OP3    O3P  O 0 1 N Y N N N N ?      ?      ?      2.921  -1.270 -4.647 OP3    IU 4  
IU "O5'"  O5*  O 0 1 N N N N N N 27.634 12.655 31.285 3.063  0.476  -2.819 "O5'"  IU 5  
IU "C5'"  C5*  C 0 1 N N N N N N 27.750 11.622 32.254 2.282  -0.292 -1.921 "C5'"  IU 6  
IU "C4'"  C4*  C 0 1 N N R N N N 29.179 11.566 32.717 2.725  0.023  -0.498 "C4'"  IU 7  
IU "O4'"  O4*  O 0 1 N N N N N N 29.959 11.358 31.541 2.470  1.422  -0.246 "O4'"  IU 8  
IU "C3'"  C3*  C 0 1 N N S N N N 29.652 12.870 33.350 1.940  -0.742 0.560  "C3'"  IU 9  
IU "O3'"  O3*  O 0 1 N N N N N N 29.830 12.574 34.743 2.742  -0.809 1.739  "O3'"  IU 10 
IU "C2'"  C2*  C 0 1 N N R N N N 30.960 13.231 32.633 0.748  0.163  0.786  "C2'"  IU 11 
IU "O2'"  O2*  O 0 1 N N N N N N 32.108 13.397 33.441 0.137  -0.058 2.041  "O2'"  IU 12 
IU "C1'"  C1*  C 0 1 N N R N N N 31.152 12.076 31.645 1.373  1.543  0.675  "C1'"  IU 13 
IU N1     N1   N 0 1 N N N N N N 31.592 12.414 30.294 0.452  2.524  0.177  N1     IU 14 
IU C2     C2   C 0 1 N N N N N N 32.933 12.277 30.005 -0.299 3.336  1.055  C2     IU 15 
IU O2     O2   O 0 1 N N N N N N 33.756 11.872 30.814 -0.225 3.267  2.283  O2     IU 16 
IU N3     N3   N 0 1 N N N N N N 33.274 12.606 28.728 -1.157 4.249  0.432  N3     IU 17 
IU C4     C4   C 0 1 N N N N N N 32.417 13.039 27.741 -1.340 4.432  -0.932 C4     IU 18 
IU O4     O4   O 0 1 N N N N N N 32.858 13.272 26.622 -2.119 5.260  -1.396 O4     IU 19 
IU C5     C5   C 0 1 N N N N N N 31.051 13.148 28.140 -0.515 3.539  -1.790 C5     IU 20 
IU C6     C6   C 0 1 N N N N N N 30.702 12.835 29.365 0.309  2.664  -1.200 C6     IU 21 
IU I5     I5   I 0 1 N N N N N N 29.640 13.991 26.855 -0.668 3.682  -3.827 I5     IU 22 
IU HOP2   2HOP H 0 0 N N N N N N 27.155 14.037 28.996 0.799  0.616  -5.443 HOP2   IU 23 
IU HOP3   3HOP H 0 0 N N N N N N 0.622  -0.147 -0.702 2.886  -1.617 -5.563 HOP3   IU 24 
IU "H5'"  1H5* H 0 1 N N N N N N 27.030 11.741 33.097 1.229  -0.035 -2.051 "H5'"  IU 25 
IU "H5''" 2H5* H 0 0 N N N N N N 27.381 10.638 31.879 2.428  -1.352 -2.133 "H5''" IU 26 
IU "H4'"  H4*  H 0 1 N N N N N N 29.279 10.765 33.486 3.804  -0.139 -0.410 "H4'"  IU 27 
IU "H3'"  H3*  H 0 1 N N N N N N 28.954 13.735 33.257 1.675  -1.764 0.277  "H3'"  IU 28 
IU "HO3'" H3T  H 0 0 N Y N N N N 30.124 13.386 35.137 3.447  -0.153 1.628  "HO3'" IU 29 
IU "H2'"  H2*  H 0 1 N N N N N N 30.861 14.243 32.175 -0.000 0.004  -0.000 "H2'"  IU 30 
IU "HO2'" 2HO* H 0 0 N N N N N N 32.917 13.620 32.997 -0.494 0.669  2.185  "HO2'" IU 31 
IU "H1'"  H1*  H 0 1 N N N N N N 31.993 11.491 32.084 1.754  1.910  1.633  "H1'"  IU 32 
IU H3     H3   H 0 1 N N N N N N 34.261 12.520 28.488 -1.707 4.844  1.046  H3     IU 33 
IU H6     H6   H 0 1 N N N N N N 29.633 12.928 29.620 0.931  1.991  -1.783 H6     IU 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 
IU P     OP1    DOUB N N 1  
IU P     OP2    SING N N 2  
IU P     OP3    SING N N 3  
IU P     "O5'"  SING N N 4  
IU OP2   HOP2   SING N N 5  
IU OP3   HOP3   SING N N 6  
IU "O5'" "C5'"  SING N N 7  
IU "C5'" "C4'"  SING N N 8  
IU "C5'" "H5'"  SING N N 9  
IU "C5'" "H5''" SING N N 10 
IU "C4'" "O4'"  SING N N 11 
IU "C4'" "C3'"  SING N N 12 
IU "C4'" "H4'"  SING N N 13 
IU "O4'" "C1'"  SING N N 14 
IU "C3'" "O3'"  SING N N 15 
IU "C3'" "C2'"  SING N N 16 
IU "C3'" "H3'"  SING N N 17 
IU "O3'" "HO3'" SING N N 18 
IU "C2'" "O2'"  SING N N 19 
IU "C2'" "C1'"  SING N N 20 
IU "C2'" "H2'"  SING N N 21 
IU "O2'" "HO2'" SING N N 22 
IU "C1'" N1     SING N N 23 
IU "C1'" "H1'"  SING N N 24 
IU N1    C2     SING N N 25 
IU N1    C6     SING N N 26 
IU C2    O2     DOUB N N 27 
IU C2    N3     SING N N 28 
IU N3    C4     SING N N 29 
IU N3    H3     SING N N 30 
IU C4    O4     DOUB N N 31 
IU C4    C5     SING N N 32 
IU C5    C6     DOUB N N 33 
IU C5    I5     SING N N 34 
IU C6    H6     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 
IU SMILES           ACDLabs              10.04 "IC=1C(=O)NC(=O)N(C=1)C2OC(C(O)C2O)COP(=O)(O)O"                                                                                                       
IU SMILES_CANONICAL CACTVS               3.341 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=C(I)C(=O)NC2=O"                                                                                     
IU SMILES           CACTVS               3.341 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2C=C(I)C(=O)NC2=O"                                                                                            
IU 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)O)I"                                                                                    
IU SMILES           "OpenEye OEToolkits" 1.5.0 "C1=C(C(=O)NC(=O)N1C2C(C(C(O2)COP(=O)(O)O)O)O)I"                                                                                                      
IU InChI            InChI                1.03  "InChI=1S/C9H12IN2O9P/c10-3-1-12(9(16)11-7(3)15)8-6(14)5(13)4(21-8)2-20-22(17,18)19/h1,4-6,8,13-14H,2H2,(H,11,15,16)(H2,17,18,19)/t4-,5-,6-,8-/m1/s1" 
IU InChIKey         InChI                1.03  HXJLWCWPONZYNP-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 
IU "SYSTEMATIC NAME" ACDLabs              10.04 
;5-iodouridine 5'-(dihydrogen phosphate)
;
IU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,4R,5R)-3,4-dihydroxy-5-(5-iodo-2,4-dioxo-pyrimidin-1-yl)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 
IU "Create component"  2005-05-31 RCSB 
IU "Modify descriptor" 2011-06-04 RCSB 
IU "Modify PCM"        2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            IU 
_pdbx_chem_comp_pcm.modified_residue_id                TYR 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               P 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OH 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
