Summary
| Full name | 2-methyladenosine |
| IUPAC name | (2R,3R,4S,5R)-2-(6-amino-2-methylpurin-9-yl)-5-(hydroxymethyl)oxolane-3,4-diol |
| Short name | m2A |
| MODOMICS code new | 2000000002A |
| MODOMICS code | 2A |
| Synonyms |
16526-56-0
2-methyl adenosine 2-Methyladenosine 2-O-Methyladenosine (2R,3R,4S,5R)-2-(6-Amino-2-methyl-9H-purin-9-yl)-5-(hydroxymethyl)tetrahydrofuran-3,4-diol (2R,3R,4S,5R)-2-(6-amino-2-methylpurin-9-yl)-5-(hydroxymethyl)oxolane-3,4-diol (2R,3R,4S,5R)-2-(6-amino-2-methyl-purin-9-yl)-5-(hydroxymethyl)tetrahydrofuran-3,4-diol AC1LA1ER Adenosine, 2-methyl- Adenosine, 2-methyl- (8CI)(9CI) AMY31028 BDBM50368901 C11-H15-N5-O4 CHEBI:19688 CHEMBL2347288 CHEMBL608348 CID459890 CTK0H5182 IQZWKGWOBPJWMX-IOSLPCCCSA-N m(2)a NSC 93499 SCHEMBL41422 ZINC5931502 |
| Nature of the modified residue | Natural |
| RNAMods code | / |
| Residue unique ID | 37 |
| Found in RNA | Yes |
| Related nucleotides | 219 |
| Enzymes |
RlmN (Escherichia coli) |
| Found in phylogeny | Eubacteria |
| Found naturally in RNA types | rRNA, tRNA |
Chemical information
| Sum formula | C11H15N5O4 |
| Type of moiety | nucleoside |
| Degeneracy | not applicable |
| PubChem ID | 261450 |
| SMILES | Cc1nc2c(nc[n]2[C@H]2[C@H](O)[C@H](O)[C@@H](CO)O2)c(N)n1 |
| logP | -1.0904 |
| TPSA | 139.54 |
| Number of atoms | 20 |
| Number of Hydrogen Bond Acceptors 1 (HBA1) | 8 |
| Number of Hydrogen Bond Acceptors 2 (HBA2) | 9 |
| Number of Hydrogen Bond Donors (HBD) | 4 |
| PDB no exac match , link to the most similar ligand | ADN |
| HMDB (Human Metabolome Database) no exact match, link to the most similar ligand | None |
| InChI | InChI=1S/C11H15N5O4/c1-4-14-9(12)6-10(15-4)16(3-13-6)11-8(19)7(18)5(2-17)20-11/h3,5,7-8,11,17-19H,2H2,1H3,(H2,12,14,15)/t5-,7-,8-,11-/m1/s1 |
| InChIKey | IQZWKGWOBPJWMX-IOSLPCCCSA-N |
| Search the molecule in external databases | ChEMBL ChemAgora ChEBI PubChem Compound Database Ligand Expo ChemSpider WIPO |
| PubChem CID | |
| PubChem SIDs |
610360
10303079 15222243 75005537 109727959 128207839 135043063 135610182 137386317 141191998 160848003 163303958 164135704 179151557 224435703 226426455 249897574 257877306 273537050 312237515 315373781 316892326 319226182 341274094 349690708 355096789 363671419 375543743 375973793 381998581 383532994 385541267 403057764 419580142 435911667 436407992 439437340 441119642 443519727 |
* Chemical properties calculated with Open Babel - O'Boyle et al. Open Babel: An open chemical toolbox. J Cheminform 3, 33 (2011) (link)
Download Structures
| 2D | .png .mol .mol2 .sdf .pdb .smi |
| 3D | .mol .mol2 .sdf .pdb |
Tautomers
| Tautomers SMILES |
Cc1nc2c(ncn2C3C(O)C(O)C(CO)O3)c(N)n1 tautomer #0
Cc1nc2c(ncn2C3C(O)C(O)C(CO)O3)c(N)n1 tautomer #1 Cc1[nH]c2c(ncn2C3C(O)C(O)C(CO)O3)c(=N)n1 tautomer #2 C=C1Nc2c(ncn2C3C(O)C(O)C(CO)O3)C(=N)N1 tautomer #3 Cc1nc2c(ncn2C3C(O)C(O)C(CO)O3)c(=N)[nH]1 tautomer #4 C=C1N=c2c(ncn2C3C(O)C(O)C(CO)O3)=C(N)N1 tautomer #5 C=C1Nc2c(ncn2C3C(O)C(O)C(CO)O3)C(N)=N1 tautomer #6 CC=1N=C2C(N=CN2C3C(O)C(O)C(CO)O3)C(=N)N1 tautomer #7 C=C1N=C2C(N=CN2C3C(O)C(O)C(CO)O3)C(=N)N1 tautomer #8 C=C1N=C2C(N=CN2C3C(O)C(O)C(CO)O3)C(N)=N1 tautomer #9 |
| Tautomer image | Show Image |
Predicted CYP Metabolic Sites
| CYP3A4 | CYP2D6 | CYP2C9 |
|---|---|---|
|
|
|
* CYP Metabolic sites predicted with SMARTCyp. SMARTCyp is a method for prediction of which sites in a molecule that are most liable to metabolism by Cytochrome P450. It has been shown to be applicable to metabolism by the isoforms 1A2, 2A6, 2B6, 2C8, 2C19, 2E1, and 3A4 (CYP3A4), and specific models for the isoform 2C9 (CYP2C9) and isoform 2D6 (CYP2D6). CYP3A4, CYP2D6, and CYP2C9 are the three of the most important enzymes in drug metabolism since they are involved in the metabolism of more than half of the drugs used today. The three top-ranked atoms are highlighted. See: SmartCYP and SmartCYP - background; Patrik Rydberg, David E. Gloriam, Lars Olsen, The SMARTCyp cytochrome P450 metabolism prediction server, Bioinformatics, Volume 26, Issue 23, 1 December 2010, Pages 2988–2989 (link)
LC-MS Information
| Monoisotopic mass | 281.1124 |
| Average mass | 281.268 |
| [M+H]+ | 282.1202 |
| Product ions | 150 |
| Normalized LC elution time * | 1,65 (Kellner 2014); 1,91 (Kellner 2014) |
| LC elution order/characteristics | between A and m6A (Kellner 2014, Kellner 2014) |
* normalized to guanosine (G), measured with a RP C-18 column with acetonitrile/ammonium acetate as mobile phase.
LC-MS Publications
| Title | Authors | Journal | Details | ||
|---|---|---|---|---|---|
| Profiling of RNA modifications by multiplexed stable isotope labelling. | Kellner S, Neumann J, Rosenkranz D, Lebedeva S, Ketting RF, Zischler H, Schneider D, Helm M. | Chem Commun (Camb). | [details] | 24567952 | - |
| Quantitative analysis of ribonucleoside modifications in tRNA by HPLC-coupled mass spectrometry. | Su D, Chan CT, Gu C, Lim KS, Chionh YH, McBee ME, Russell BS, Babu IR, Begley TJ, Dedon PC... | Nat Protoc | [details] | 24625781 | - |
| Absolute and relative quantification of RNA modifications via biosynthetic isotopomers. | Kellner S, Ochel A, Thuring K, Spenkuch F, Neumann J, Sharma S, Entian KD, Schneider D, Helm M... | Nucleic Acids Res | [details] | 25129236 | - |
Chemical groups contained
| Type | Subtype |
|---|---|
| methyl group | methyl at aromatic C |
Reactions producing 2-methyladenosine
| Name |
|---|
| A:m2A |
Reactions starting from 2-methyladenosine
| Name |
|---|
| m2A:m2,8A |
Last modification of this entry: Sept. 22, 2023