data_OMG
# 
_chem_comp.id                                    OMG 
_chem_comp.name                                  "O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE" 
_chem_comp.type                                  "RNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C11 H16 N5 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               G 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     1999-07-08 
_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                        377.247 
_chem_comp.one_letter_code                       G 
_chem_comp.three_letter_code                     OMG 
_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 
_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 
OMG P      P    P 0 1 N N N N N N 45.929 -11.724 -9.936  -0.979 -0.095 5.018  P      OMG 1  
OMG OP1    O1P  O 0 1 N N N N N N 47.281 -11.168 -10.229 -1.507 1.252  4.711  OP1    OMG 2  
OMG OP2    O2P  O 0 1 N N N N N N 45.451 -12.911 -10.688 -2.139 -0.985 5.693  OP2    OMG 3  
OMG OP3    O3P  O 0 1 N Y N N N N 45.909 -12.056 -8.362  0.259  0.032  6.038  OP3    OMG 4  
OMG "O5'"  O5*  O 0 1 N N N N N N 44.838 -10.567 -10.081 -0.484 -0.801 3.658  "O5'"  OMG 5  
OMG "C5'"  C5*  C 0 1 N N N N N N 44.341 -10.172 -11.354 0.539  0.031  3.110  "C5'"  OMG 6  
OMG "C4'"  C4*  C 0 1 N N R N N N 42.919 -10.642 -11.518 1.055  -0.585 1.808  "C4'"  OMG 7  
OMG "O4'"  O4*  O 0 1 N N N N N N 42.948 -12.084 -11.586 -0.007 -0.656 0.842  "O4'"  OMG 8  
OMG "C3'"  C3*  C 0 1 N N R N N N 42.003 -10.350 -10.339 2.160  0.305  1.208  "C3'"  OMG 9  
OMG "O3'"  O3*  O 0 1 N N N N N N 41.414 -9.045  -10.427 3.388  -0.417 1.105  "O3'"  OMG 10 
OMG "C2'"  C2*  C 0 1 N N R N N N 40.956 -11.462 -10.434 1.629  0.674  -0.197 "C2'"  OMG 11 
OMG "O2'"  O2*  O 0 1 N N N N N N 39.789 -11.150 -11.234 2.678  0.628  -1.167 "O2'"  OMG 12 
OMG CM2    CM2  C 0 1 N N N N N N 38.628 -12.015 -11.167 3.193  1.956  -1.281 CM2    OMG 13 
OMG "C1'"  C1*  C 0 1 N N R N N N 41.739 -12.604 -11.079 0.588  -0.444 -0.455 "C1'"  OMG 14 
OMG N9     N9   N 0 1 Y N N N N N 42.060 -13.707 -10.184 -0.422 -0.001 -1.420 N9     OMG 15 
OMG C8     C8   C 0 1 Y N N N N N 43.300 -14.265 -9.969  -1.557 0.700  -1.135 C8     OMG 16 
OMG N7     N7   N 0 1 Y N N N N N 43.276 -15.280 -9.148  -2.223 0.924  -2.230 N7     OMG 17 
OMG C5     C5   C 0 1 Y N N N N N 41.939 -15.396 -8.787  -1.559 0.380  -3.278 C5     OMG 18 
OMG C6     C6   C 0 1 N N N N N N 41.291 -16.337 -7.928  -1.802 0.313  -4.670 C6     OMG 19 
OMG O6     O6   O 0 1 N N N N N N 41.795 -17.285 -7.284  -2.799 0.820  -5.156 O6     OMG 20 
OMG N1     N1   N 0 1 N N N N N N 39.914 -16.094 -7.854  -0.902 -0.327 -5.449 N1     OMG 21 
OMG C2     C2   C 0 1 N N N N N N 39.243 -15.078 -8.517  0.208  -0.890 -4.895 C2     OMG 22 
OMG N2     N2   N 0 1 N N N N N N 37.913 -15.004 -8.308  1.105  -1.535 -5.710 N2     OMG 23 
OMG N3     N3   N 0 1 N N N N N N 39.836 -14.202 -9.322  0.445  -0.834 -3.604 N3     OMG 24 
OMG C4     C4   C 0 1 Y N N N N N 41.174 -14.420 -9.409  -0.397 -0.213 -2.772 C4     OMG 25 
OMG HOP2   2HOP H 0 0 N N N N N N 44.589 -13.265 -10.501 -2.406 -0.528 6.502  HOP2   OMG 26 
OMG HOP3   3HOP H 0 0 N N N N N N 45.047 -12.410 -8.175  0.573  -0.866 6.211  HOP3   OMG 27 
OMG "H5'"  1H5* H 0 1 N N N N N N 44.440 -9.073  -11.519 1.359  0.115  3.822  "H5'"  OMG 28 
OMG "H5''" 2H5* H 0 0 N N N N N N 44.995 -10.521 -12.185 0.131  1.021  2.906  "H5''" OMG 29 
OMG "H4'"  H4*  H 0 1 N N N N N N 42.530 -10.110 -12.417 1.448  -1.583 2.001  "H4'"  OMG 30 
OMG "H3'"  H3*  H 0 1 N N N N N N 42.539 -10.340 -9.361  2.296  1.203  1.812  "H3'"  OMG 31 
OMG "HO3'" *HO3 H 0 0 N Y N N N N 40.842 -8.862  -9.690  3.670  -0.619 2.008  "HO3'" OMG 32 
OMG "H2'"  H2*  H 0 1 N N N N N N 40.524 -11.676 -9.428  1.152  1.655  -0.188 "H2'"  OMG 33 
OMG HM21   1HM2 H 0 0 N N N N N N 37.729 -11.774 -11.782 4.000  1.971  -2.014 HM21   OMG 34 
OMG HM22   2HM2 H 0 0 N N N N N N 38.947 -13.058 -11.394 2.397  2.628  -1.604 HM22   OMG 35 
OMG HM23   3HM2 H 0 0 N N N N N N 38.314 -12.108 -10.101 3.574  2.283  -0.314 HM23   OMG 36 
OMG "H1'"  H1*  H 0 1 N N N N N N 41.077 -13.024 -11.872 1.079  -1.351 -0.805 "H1'"  OMG 37 
OMG H8     H8   H 0 1 N N N N N N 44.245 -13.923 -10.422 -1.856 1.023  -0.149 H8     OMG 38 
OMG HN1    HN1  H 0 1 N N N N N N 39.351 -16.709 -7.266  -1.047 -0.387 -6.406 HN1    OMG 39 
OMG HN21   1HN2 H 0 0 N N N N N N 37.419 -14.256 -8.795  1.900  -1.941 -5.331 HN21   OMG 40 
OMG HN22   2HN2 H 0 0 N N N N N N 37.724 -14.945 -7.307  0.943  -1.585 -6.665 HN22   OMG 41 
# 
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 
OMG P     OP1    DOUB N N 1  
OMG P     OP2    SING N N 2  
OMG P     OP3    SING N N 3  
OMG P     "O5'"  SING N N 4  
OMG OP2   HOP2   SING N N 5  
OMG OP3   HOP3   SING N N 6  
OMG "O5'" "C5'"  SING N N 7  
OMG "C5'" "C4'"  SING N N 8  
OMG "C5'" "H5'"  SING N N 9  
OMG "C5'" "H5''" SING N N 10 
OMG "C4'" "O4'"  SING N N 11 
OMG "C4'" "C3'"  SING N N 12 
OMG "C4'" "H4'"  SING N N 13 
OMG "O4'" "C1'"  SING N N 14 
OMG "C3'" "O3'"  SING N N 15 
OMG "C3'" "C2'"  SING N N 16 
OMG "C3'" "H3'"  SING N N 17 
OMG "O3'" "HO3'" SING N N 18 
OMG "C2'" "O2'"  SING N N 19 
OMG "C2'" "C1'"  SING N N 20 
OMG "C2'" "H2'"  SING N N 21 
OMG "O2'" CM2    SING N N 22 
OMG CM2   HM21   SING N N 23 
OMG CM2   HM22   SING N N 24 
OMG CM2   HM23   SING N N 25 
OMG "C1'" N9     SING N N 26 
OMG "C1'" "H1'"  SING N N 27 
OMG N9    C8     SING Y N 28 
OMG N9    C4     SING Y N 29 
OMG C8    N7     DOUB Y N 30 
OMG C8    H8     SING N N 31 
OMG N7    C5     SING Y N 32 
OMG C5    C6     SING N N 33 
OMG C5    C4     DOUB Y N 34 
OMG C6    O6     DOUB N N 35 
OMG C6    N1     SING N N 36 
OMG N1    C2     SING N N 37 
OMG N1    HN1    SING N N 38 
OMG C2    N2     SING N N 39 
OMG C2    N3     DOUB N N 40 
OMG N2    HN21   SING N N 41 
OMG N2    HN22   SING N N 42 
OMG N3    C4     SING N N 43 
# 
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 
OMG SMILES           ACDLabs              10.04 "O=C1c2ncn(c2N=C(N)N1)C3OC(C(O)C3OC)COP(=O)(O)O"                                                                                                                           
OMG SMILES_CANONICAL CACTVS               3.341 "CO[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1n2cnc3C(=O)NC(=Nc23)N"                                                                                                       
OMG SMILES           CACTVS               3.341 "CO[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1n2cnc3C(=O)NC(=Nc23)N"                                                                                                             
OMG SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CO[C@@H]1[C@@H]([C@H](O[C@H]1n2cnc3c2N=C(NC3=O)N)COP(=O)(O)O)O"                                                                                                           
OMG SMILES           "OpenEye OEToolkits" 1.5.0 "COC1C(C(OC1n2cnc3c2N=C(NC3=O)N)COP(=O)(O)O)O"                                                                                                                             
OMG InChI            InChI                1.03  "InChI=1S/C11H16N5O8P/c1-22-7-6(17)4(2-23-25(19,20)21)24-10(7)16-3-13-5-8(16)14-11(12)15-9(5)18/h3-4,6-7,10,17H,2H2,1H3,(H2,19,20,21)(H3,12,14,15,18)/t4-,6-,7-,10-/m1/s1" 
OMG InChIKey         InChI                1.03  YPMKZCOIEXUDSS-KQYNXXCUSA-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 
OMG "SYSTEMATIC NAME" ACDLabs              10.04 
;2'-O-methylguanosine 5'-(dihydrogen phosphate)
;
OMG "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-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 
OMG "Create component"  1999-07-08 EBI  
OMG "Modify descriptor" 2011-06-04 RCSB 
OMG "Modify PCM"        2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            OMG 
_pdbx_chem_comp_pcm.modified_residue_id                ARG 
_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               OP2 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   NH2 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
