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 ? #