MolNFT v1 · #115584 · protein
Structural insights into the 2-oh methylation of C/U34 on tRNA
5CO4 · Putative tRNA (CYTIDINE(34)-2'-O)-methyltransferase: “Structural insights into the 2-oh methylation of C/U34 on tRNA”. X-ray diffraction, 1 ligand (MTA), 2 pockets (best druggability 0.69). MolNFT v1 #115584 on GenesisL1: 3D…
- PDB
- 5CO4
- Type
- protein
- Length
- 313 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative tRNA (CYTIDINE(34)-2'-O)-methyltransferase
- EC
- 2.1.1.207
- UniProt
- Q72G96
- Ligands
- MTA
- Pockets
- 2 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Putative tRNA (CYTIDINE(34)-2'-O)-methyltransferase (EC 2.1.1.207) | protein | 161 | 36% helix, 16% strand | Q72G96 |
| A | Putative tRNA (CYTIDINE(34)-2'-O)-methyltransferase (EC 2.1.1.207) | protein | 152 | 36% helix, 17% strand | Q72G96 |
Ligands and binding sites
- MTA · 5'-deoxy-5'-methylthioadenosine · ligand · 2 copies · chains B, A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 166 | 0.69 | 0.88 | 24 | MTA |
| 2 | 356 | 0.66 | 0.81 | 48 | GOL, MTA |
Interfaces
1 interface between chains.
- B–A · 1453 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 5CO4 · Structural insights into the 2-OH methylation of C/U34 on tRNA · the same entry in another collection · chain B against B, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q72G96
- Elsewhere: RCSB PDB 5CO4 · PDBe 5CO4 · UniProt Q72G96
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