Research workbench
Alternative conformations of NOP56/58-fibrillarin complex and implication for induced-fit assenly of box C/D rnps
Analyse Alternative conformations of NOP56/58-fibrillarin complex and implication for… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2NNW
- Type
- protein
- Length
- 1,154 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NOP5/NOP56 related protein; Fibrillarin-like RRNA/TRNA 2'-O-methyltransferase
- EC
- 2.1.1.-
- UniProt
- Q8U4M1, Q8U4M2
- Pockets
- 10 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | NOP5/NOP56 related protein | protein | 350 | 66% helix, 5% strand | Q8U4M1 |
| B, D | Fibrillarin-like RRNA/TRNA 2'-O-methyltransferase (EC 2.1.1.-) | protein | 227 | 29% helix, 30% strand | Q8U4M2 |
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 354 | 0.64 | 0.79 | 49 | empty |
| 2 | 338 | 0.64 | 0.79 | 46 | empty |
| 3 | 228 | 0.57 | 0.79 | 21 | empty |
| 4 | 303 | 0.56 | 0.76 | 29 | empty |
| 5 | 198 | 0.54 | 0.79 | 22 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1951 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 1946 Ų buried · 19 hydrogen bonds · protein-protein
- A–C · 332 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 2NNW · Alternative conformations of Nop56/58-fibrillarin complex and implication for induced-fit… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8U4M2 · AlphaFold monomer V2.0 prediction for fibrillarin-like RRNA/TRNA 2'-O-methyltransferase… · a predicted model of the same protein · chain D against A, TM-score 0.99
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 Q8U4M1
- Every structure of UniProt Q8U4M2
- Elsewhere: RCSB PDB 2NNW · PDBe 2NNW · UniProt Q8U4M1 · UniProt Q8U4M2
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.