Research workbench
Crystal structure of SAM-bound METTL3-METTL14 complex
Analyse Crystal structure of SAM-bound METTL3-METTL14 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5IL1
- Type
- protein
- Length
- 487 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- METTL3; METTL14
- EC
- 2.1.1.62
- UniProt
- Q86U44, Q9HCE5
- Ligands
- SAM
- Pockets
- 7 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 26% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | METTL3 (EC 2.1.1.62) | protein | 202 | 24% helix, 28% strand | Q86U44 |
| B | METTL14 (EC 2.1.1.62) | protein | 285 | 28% helix, 22% strand | Q9HCE5 |
Ligands and binding sites
- SAM · S-adenosylmethionine · ligand · chains A
- EDO · 1,2-ethanediol · additive · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 168 | 0.68 | 0.88 | 34 | empty |
| 2 | 262 | 0.62 | 0.81 | 42 | SAM |
| 3 | 56 | 0.42 | 0.82 | 15 | empty |
| 4 | 79 | 0.37 | 0.77 | 20 | empty |
| 5 | 55 | 0.35 | 0.78 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 2461 Ų buried · 46 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 5IL1 · Crystal structure of SAM-bound METTL3-METTL14 complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q9HCE5 · AlphaFold monomer V2.0 prediction for N6-adenosine-methyltransferase non-catalytic… · a predicted model of the same protein · chain B against A, TM-score 1.00
- Q86U44 · AlphaFold monomer V2.0 prediction for N6-adenosine-methyltransferase catalytic subunit… · a predicted model of the same protein · chain A against A, TM-score 0.98
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 Q86U44
- Every structure of UniProt Q9HCE5
- Elsewhere: RCSB PDB 5IL1 · PDBe 5IL1 · UniProt Q86U44 · UniProt Q9HCE5
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