MolNFT v1 · #32904 · protein
Crystal structure of the human RNA guanylyltransferase and 5'- phosphatase
2C46 · MRNA capping enzyme: “Crystal structure of the human RNA guanylyltransferase and 5'- phosphatase”. X-ray diffraction, 6 pockets (best druggability 0.74). MolNFT v1 #32904 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2C46
- Type
- protein
- Length
- 787 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MRNA capping enzyme
- EC
- 2.7.7.50
- UniProt
- O60942
- Pockets
- 6 · best druggability 0.74
Structure
x-ray diffraction · 4 distinct chains · 40% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MRNA capping enzyme (EC 2.7.7.50) | protein | 200 | 38% helix, 12% strand | O60942 |
| B | MRNA capping enzyme (EC 2.7.7.50) | protein | 201 | 41% helix, 10% strand | O60942 |
| C | MRNA capping enzyme (EC 2.7.7.50) | protein | 197 | 42% helix, 11% strand | O60942 |
| D | MRNA capping enzyme (EC 2.7.7.50) | protein | 189 | 39% helix, 11% strand | O60942 |
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 865 | 0.74 | 0.79 | 70 | empty |
| 2 | 485 | 0.70 | 0.80 | 54 | empty |
| 3 | 230 | 0.54 | 0.77 | 29 | empty |
| 4 | 217 | 0.54 | 0.77 | 25 | empty |
| 5 | 97 | 0.36 | 0.75 | 19 | empty |
Interfaces
3 interfaces between chains.
- A–D · 1010 Ų buried · 28 hydrogen bonds · protein-protein
- B–C · 762 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 386 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 2C46 · CRYSTAL STRUCTURE OF THE HUMAN RNA guanylyltransferase and 5'- phosphatase · the same entry in another collection · chain D against D, TM-score 1.00
- O60942 · AlphaFold monomer V2.0 prediction for mRNA-capping enzyme (O60942) · a predicted model of the same protein · chain D against A, TM-score 0.96
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 O60942
- Elsewhere: RCSB PDB 2C46 · PDBe 2C46 · UniProt O60942
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