data_OMC
# 
_chem_comp.id                                    OMC 
_chem_comp.name                                  "O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE" 
_chem_comp.type                                  "RNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C10 H16 N3 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               C 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     1999-07-08 
_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                        337.223 
_chem_comp.one_letter_code                       C 
_chem_comp.three_letter_code                     OMC 
_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        1EVV 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
# 
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 
OMC N1     N1   N 0 1 N N N 47.544 -6.422  -2.741 -0.215 -0.553 -2.308 N1     OMC 1  
OMC C2     C2   C 0 1 N N N 46.487 -6.797  -1.938 -0.953 0.568  -2.230 C2     OMC 2  
OMC N3     N3   N 0 1 N N N 45.326 -6.104  -2.002 -1.849 0.868  -3.169 N3     OMC 3  
OMC C4     C4   C 0 1 N N N 45.220 -5.060  -2.831 -2.045 0.059  -4.202 C4     OMC 4  
OMC C5     C5   C 0 1 N N N 46.306 -4.641  -3.651 -1.291 -1.127 -4.310 C5     OMC 5  
OMC C6     C6   C 0 1 N N N 47.440 -5.344  -3.573 -0.380 -1.415 -3.350 C6     OMC 6  
OMC O2     O2   O 0 1 N N N 46.638 -7.765  -1.179 -0.792 1.329  -1.290 O2     OMC 7  
OMC N4     N4   N 0 1 N N N 44.053 -4.404  -2.882 -2.977 0.376  -5.162 N4     OMC 8  
OMC "C1'"  C1*  C 0 1 N N R 48.763 -7.219  -2.694 0.767  -0.853 -1.263 "C1'"  OMC 9  
OMC "C2'"  C2*  C 0 1 N N R 48.809 -8.221  -3.841 1.773  0.315  -1.102 "C2'"  OMC 10 
OMC "O2'"  O2*  O 0 1 N N N 49.574 -9.370  -3.415 2.859  0.183  -2.022 "O2'"  OMC 11 
OMC CM2    CM2  C 0 1 N N N 48.956 -10.355 -2.550 3.348  1.501  -2.275 CM2    OMC 12 
OMC "C3'"  C3*  C 0 1 N N R 49.502 -7.400  -4.917 2.258  0.127  0.355  "C3'"  OMC 13 
OMC "C4'"  C4*  C 0 1 N N R 50.540 -6.645  -4.109 1.151  -0.715 1.016  "C4'"  OMC 14 
OMC "O4'"  O4*  O 0 1 N N N 49.870 -6.354  -2.856 0.128  -0.927 0.029  "O4'"  OMC 15 
OMC "O3'"  O3*  O 0 1 N N N 50.123 -8.223  -5.896 3.505  -0.570 0.381  "O3'"  OMC 16 
OMC "C5'"  C5*  C 0 1 N N N 50.991 -5.353  -4.727 0.572  0.035  2.217  "C5'"  OMC 17 
OMC "O5'"  O5*  O 0 1 N N N 49.863 -4.589  -5.132 -0.452 -0.753 2.823  "O5'"  OMC 18 
OMC P      P    P 0 1 N N N 50.061 -3.172  -5.832 -1.013 0.092  4.073  P      OMC 19 
OMC OP1    O1P  O 0 1 N N N 48.737 -2.663  -6.280 -1.558 1.381  3.590  OP1    OMC 20 
OMC OP2    O2P  O 0 1 N N N 51.183 -3.288  -6.804 -2.178 -0.741 4.806  OP2    OMC 21 
OMC OP3    O3P  O 0 1 N Y N 50.576 -2.215  -4.643 0.183  0.371  5.113  OP3    OMC 22 
OMC H5     H5   H 0 1 N N N 46.269 -3.780  -4.339 -1.438 -1.796 -5.145 H5     OMC 23 
OMC H6     H6   H 0 1 N N N 48.293 -5.033  -4.198 0.209  -2.318 -3.411 H6     OMC 24 
OMC HN41   1HN4 H 0 0 N N N 43.972 -3.607  -3.514 -3.494 1.194  -5.085 HN41   OMC 25 
OMC HN42   2HN4 H 0 0 N N N 43.797 -4.107  -1.940 -3.117 -0.216 -5.917 HN42   OMC 26 
OMC "H1'"  H1*  H 0 1 N N N 48.788 -7.761  -1.720 1.291  -1.782 -1.486 "H1'"  OMC 27 
OMC "H2'"  H2*  H 0 1 N N N 47.832 -8.632  -4.188 1.275  1.276  -1.226 "H2'"  OMC 28 
OMC HM21   1HM2 H 0 0 N N N 49.546 -11.241 -2.221 4.182  1.451  -2.975 HM21   OMC 29 
OMC HM22   2HM2 H 0 0 N N N 48.558 -9.836  -1.646 2.551  2.110  -2.702 HM22   OMC 30 
OMC HM23   3HM2 H 0 0 N N N 48.015 -10.711 -3.030 3.686  1.949  -1.340 HM23   OMC 31 
OMC "H3'"  H3*  H 0 1 N N N 48.804 -6.749  -5.495 2.352  1.092  0.853  "H3'"  OMC 32 
OMC "H4'"  H4*  H 0 1 N N N 51.465 -7.261  -4.021 1.558  -1.673 1.339  "H4'"  OMC 33 
OMC "HO3'" *HO3 H 0 0 N Y N 50.556 -7.710  -6.568 3.757  -0.657 1.310  "HO3'" OMC 34 
OMC "H5'"  1H5* H 0 1 N N N 51.664 -4.777  -4.049 1.363  0.223  2.943  "H5'"  OMC 35 
OMC "H5''" 2H5* H 0 0 N N N 51.707 -5.518  -5.565 0.152  0.984  1.884  "H5''" OMC 36 
OMC HOP2   2HOP H 0 0 N N N 51.301 -2.442  -7.221 -2.486 -0.200 5.546  HOP2   OMC 37 
OMC HOP3   3HOP H 0 0 N N N 50.694 -1.369  -5.060 0.509  -0.491 5.402  HOP3   OMC 38 
# 
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 
OMC N1    C2     SING N N 1  
OMC N1    C6     SING N N 2  
OMC N1    "C1'"  SING N N 3  
OMC C2    N3     SING N N 4  
OMC C2    O2     DOUB N N 5  
OMC N3    C4     DOUB N N 6  
OMC C4    C5     SING N N 7  
OMC C4    N4     SING N N 8  
OMC C5    C6     DOUB N N 9  
OMC C5    H5     SING N N 10 
OMC C6    H6     SING N N 11 
OMC N4    HN41   SING N N 12 
OMC N4    HN42   SING N N 13 
OMC "C1'" "C2'"  SING N N 14 
OMC "C1'" "O4'"  SING N N 15 
OMC "C1'" "H1'"  SING N N 16 
OMC "C2'" "O2'"  SING N N 17 
OMC "C2'" "C3'"  SING N N 18 
OMC "C2'" "H2'"  SING N N 19 
OMC "O2'" CM2    SING N N 20 
OMC CM2   HM21   SING N N 21 
OMC CM2   HM22   SING N N 22 
OMC CM2   HM23   SING N N 23 
OMC "C3'" "C4'"  SING N N 24 
OMC "C3'" "O3'"  SING N N 25 
OMC "C3'" "H3'"  SING N N 26 
OMC "C4'" "O4'"  SING N N 27 
OMC "C4'" "C5'"  SING N N 28 
OMC "C4'" "H4'"  SING N N 29 
OMC "O3'" "HO3'" SING N N 30 
OMC "C5'" "O5'"  SING N N 31 
OMC "C5'" "H5'"  SING N N 32 
OMC "C5'" "H5''" SING N N 33 
OMC "O5'" P      SING N N 34 
OMC P     OP1    DOUB N N 35 
OMC P     OP2    SING N N 36 
OMC P     OP3    SING N N 37 
OMC OP2   HOP2   SING N N 38 
OMC OP3   HOP3   SING N N 39 
# 
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 
OMC SMILES           ACDLabs              10.04 "O=C1N=C(N)C=CN1C2OC(C(O)C2OC)COP(=O)(O)O"                                                                                                                 
OMC SMILES_CANONICAL CACTVS               3.341 "CO[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1N2C=CC(=NC2=O)N"                                                                                             
OMC SMILES           CACTVS               3.341 "CO[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1N2C=CC(=NC2=O)N"                                                                                                   
OMC SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CO[C@@H]1[C@@H]([C@H](O[C@H]1N2C=CC(=NC2=O)N)COP(=O)(O)O)O"                                                                                               
OMC SMILES           "OpenEye OEToolkits" 1.5.0 "COC1C(C(OC1N2C=CC(=NC2=O)N)COP(=O)(O)O)O"                                                                                                                 
OMC InChI            InChI                1.03  "InChI=1S/C10H16N3O8P/c1-19-8-7(14)5(4-20-22(16,17)18)21-9(8)13-3-2-6(11)12-10(13)15/h2-3,5,7-9,14H,4H2,1H3,(H2,11,12,15)(H2,16,17,18)/t5-,7-,8-,9-/m1/s1" 
OMC InChIKey         InChI                1.03  USRXKJOTSNCJMA-ZOQUXTDFSA-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 
OMC "SYSTEMATIC NAME" ACDLabs              10.04 
;2'-O-methylcytidine 5'-(dihydrogen phosphate)
;
OMC "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3-hydroxy-4-methoxy-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 
OMC "Create component"  1999-07-08 EBI  
OMC "Modify descriptor" 2011-06-04 RCSB 
# 
