data_2OM
# 
_chem_comp.id                                    2OM 
_chem_comp.name                                  
;5,6-dihydroorotidine 5'-monophosphate
;
_chem_comp.type                                  "RNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C10 H15 N2 O11 P" 
_chem_comp.mon_nstd_parent_comp_id               U 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2009-02-06 
_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                        370.207 
_chem_comp.one_letter_code                       U 
_chem_comp.three_letter_code                     2OM 
_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        3G1F 
_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 
2OM "O5'"  "O5'"  O 0 1 N N N -93.930 81.418 -70.854 3.187  -0.244 -0.486 "O5'"  2OM 1  
2OM "C5'"  "C5'"  C 0 1 N N N -94.872 80.355 -70.702 2.615  0.851  0.232  "C5'"  2OM 2  
2OM "C4'"  "C4'"  C 0 1 N N R -94.162 79.066 -70.293 1.404  1.386  -0.534 "C4'"  2OM 3  
2OM "O4'"  "O4'"  O 0 1 N N N -93.906 79.048 -68.840 0.359  0.398  -0.548 "O4'"  2OM 4  
2OM "C3'"  "C3'"  C 0 1 N N S -95.030 77.842 -70.600 0.844  2.634  0.176  "C3'"  2OM 5  
2OM "O3'"  "O3'"  O 0 1 N N N -94.207 76.753 -71.047 0.888  3.766  -0.694 "O3'"  2OM 6  
2OM "C2'"  "C2'"  C 0 1 N N R -95.712 77.567 -69.269 -0.622 2.259  0.504  "C2'"  2OM 7  
2OM "O2'"  "O2'"  O 0 1 N N N -96.184 76.225 -69.199 -1.496 3.364  0.266  "O2'"  2OM 8  
2OM "C1'"  "C1'"  C 0 1 N N R -94.600 77.890 -68.267 -0.895 1.111  -0.501 "C1'"  2OM 9  
2OM N1     N1     N 0 1 N N N -95.143 78.199 -66.902 -1.965 0.239  -0.009 N1     2OM 10 
2OM C2     C2     C 0 1 N N N -95.789 79.397 -66.634 -1.809 -0.408 1.157  C2     2OM 11 
2OM N3     N3     N 0 1 N N N -96.428 79.612 -65.460 -2.805 -1.127 1.702  N3     2OM 12 
2OM C4     C4     C 0 1 N N N -96.322 78.763 -64.414 -4.062 -1.036 1.232  C4     2OM 13 
2OM C5     C5     C 0 1 N N N -95.904 77.324 -64.621 -4.390 -0.044 0.144  C5     2OM 14 
2OM C6     C6     C 0 1 N N R -94.949 77.166 -65.836 -3.192 0.090  -0.794 C6     2OM 15 
2OM P      P      P 0 1 N N N -94.628 82.519 -71.805 4.481  -1.051 0.031  P      2OM 16 
2OM O2     O2     O 0 1 N N N -95.794 80.300 -67.461 -0.742 -0.341 1.734  O2     2OM 17 
2OM O4     O4     O 0 1 N N N -96.571 79.153 -63.298 -4.931 -1.752 1.682  O4     2OM 18 
2OM OP2    OP2    O 0 1 N N N -96.003 83.035 -71.118 4.125  -1.816 1.402  OP2    2OM 19 
2OM OP3    OP3    O 0 1 N Y N -93.634 83.776 -72.001 4.923  -2.126 -1.084 OP3    2OM 20 
2OM OP1    OP1    O 0 1 N N N -94.931 81.926 -73.136 5.592  -0.102 0.269  OP1    2OM 21 
2OM C7     C7     C 0 1 N N N -93.534 77.153 -65.331 -3.092 -1.145 -1.653 C7     2OM 22 
2OM O71    O71    O 0 1 N N N -92.826 78.126 -65.439 -2.098 -1.829 -1.613 O71    2OM 23 
2OM O72    O72    O 0 1 N N N -93.046 76.044 -64.755 -4.108 -1.484 -2.462 O72    2OM 24 
2OM "H5'"  "H5'"  H 0 1 N N N -95.601 80.628 -69.924 2.301  0.513  1.220  "H5'"  2OM 25 
2OM "H5'A" "H5'A" H 0 0 N N N -95.383 80.191 -71.662 3.357  1.643  0.338  "H5'A" 2OM 26 
2OM "H4'"  "H4'"  H 0 1 N N N -93.220 79.030 -70.860 1.692  1.636  -1.555 "H4'"  2OM 27 
2OM "H3'"  "H3'"  H 0 1 N N N -95.761 77.990 -71.409 1.401  2.833  1.092  "H3'"  2OM 28 
2OM "HO3'" "HO3'" H 0 0 N Y N -94.025 76.853 -71.974 0.548  4.580  -0.298 "HO3'" 2OM 29 
2OM "H2'"  "H2'"  H 0 1 N N N -96.620 78.160 -69.084 -0.713 1.907  1.531  "H2'"  2OM 30 
2OM "HO2'" "HO2'" H 0 0 N N N -96.289 75.880 -70.078 -1.305 4.140  0.810  "HO2'" 2OM 31 
2OM "H1'"  "H1'"  H 0 1 N N N -93.928 77.032 -68.119 -1.146 1.512  -1.483 "H1'"  2OM 32 
2OM HN3    HN3    H 0 1 N N N -96.998 80.428 -65.363 -2.614 -1.720 2.445  HN3    2OM 33 
2OM H5     H5     H 0 1 N N N -95.384 76.975 -63.717 -5.257 -0.393 -0.418 H5     2OM 34 
2OM H5A    H5A    H 0 1 N N N -96.809 76.730 -64.818 -4.611 0.925  0.589  H5A    2OM 35 
2OM H6     H6     H 0 1 N N N -95.189 76.213 -66.330 -3.325 0.965  -1.431 H6     2OM 36 
2OM HOP2   HOP2   H 0 0 N N N -95.872 83.136 -70.183 3.404  -2.455 1.320  HOP2   2OM 37 
2OM HOP3   HOP3   H 0 0 N Y N -93.439 84.161 -71.155 5.699  -2.650 -0.839 HOP3   2OM 38 
2OM HO72   HO72   H 0 0 N N N -92.145 76.193 -64.494 -3.998 -2.284 -2.993 HO72   2OM 39 
# 
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 
2OM P     "O5'"  SING N N 1  
2OM "O5'" "C5'"  SING N N 2  
2OM "C5'" "C4'"  SING N N 3  
2OM "C5'" "H5'"  SING N N 4  
2OM "C5'" "H5'A" SING N N 5  
2OM "C3'" "C4'"  SING N N 6  
2OM "C4'" "O4'"  SING N N 7  
2OM "C4'" "H4'"  SING N N 8  
2OM "O4'" "C1'"  SING N N 9  
2OM "O3'" "C3'"  SING N N 10 
2OM "C3'" "C2'"  SING N N 11 
2OM "C3'" "H3'"  SING N N 12 
2OM "O3'" "HO3'" SING N N 13 
2OM "C2'" "O2'"  SING N N 14 
2OM "C2'" "C1'"  SING N N 15 
2OM "C2'" "H2'"  SING N N 16 
2OM "O2'" "HO2'" SING N N 17 
2OM "C1'" N1     SING N N 18 
2OM "C1'" "H1'"  SING N N 19 
2OM N1    C2     SING N N 20 
2OM N1    C6     SING N N 21 
2OM O2    C2     DOUB N N 22 
2OM C2    N3     SING N N 23 
2OM N3    C4     SING N N 24 
2OM N3    HN3    SING N N 25 
2OM C5    C4     SING N N 26 
2OM C4    O4     DOUB N N 27 
2OM C6    C5     SING N N 28 
2OM C5    H5     SING N N 29 
2OM C5    H5A    SING N N 30 
2OM C6    C7     SING N N 31 
2OM C6    H6     SING N N 32 
2OM OP1   P      DOUB N N 33 
2OM OP3   P      SING N N 34 
2OM P     OP2    SING N N 35 
2OM OP2   HOP2   SING N N 36 
2OM OP3   HOP3   SING N N 37 
2OM O71   C7     DOUB N N 38 
2OM C7    O72    SING N N 39 
2OM O72   HO72   SING N N 40 
# 
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 
2OM SMILES           ACDLabs              10.04 "O=C(O)C1N(C(=O)NC(=O)C1)C2OC(C(O)C2O)COP(=O)(O)O"                                                                                                                         
2OM SMILES_CANONICAL CACTVS               3.341 "O[C@H]1[C@@H](O)[C@@H](O[C@@H]1CO[P](O)(O)=O)N2[C@H](CC(=O)NC2=O)C(O)=O"                                                                                                  
2OM SMILES           CACTVS               3.341 "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)N2[CH](CC(=O)NC2=O)C(O)=O"                                                                                                          
2OM SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "C1[C@@H](N(C(=O)NC1=O)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O)C(=O)O"                                                                                                
2OM SMILES           "OpenEye OEToolkits" 1.5.0 "C1C(N(C(=O)NC1=O)C2C(C(C(O2)COP(=O)(O)O)O)O)C(=O)O"                                                                                                                       
2OM InChI            InChI                1.03  "InChI=1S/C10H15N2O11P/c13-5-1-3(9(16)17)12(10(18)11-5)8-7(15)6(14)4(23-8)2-22-24(19,20)21/h3-4,6-8,14-15H,1-2H2,(H,16,17)(H,11,13,18)(H2,19,20,21)/t3-,4-,6-,7-,8-/m1/s1" 
2OM InChIKey         InChI                1.03  ZVESSEXVBFSYOC-NFTAXOAUSA-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 
2OM "SYSTEMATIC NAME" ACDLabs              10.04 
;6-carboxyuridine 5'-(dihydrogen phosphate)
;
2OM "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(4R)-3-[(2R,3R,4S,5R)-3,4-dihydroxy-5-(phosphonooxymethyl)oxolan-2-yl]-2,6-dioxo-1,3-diazinane-4-carboxylic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
2OM "Create component"  2009-02-06 RCSB 
2OM "Modify descriptor" 2011-06-04 RCSB 
# 
