MolNFT v1 · #147165 · protein + RNA
Structure of the T. brucei rrm domain in complex with RNA
6E4P · RNA (5'-R(P*UP*UP*UP*U)-3'): “Structure of the T. brucei rrm domain in complex with RNA”. X-ray diffraction, 10 pockets (best druggability 0.80). MolNFT v1 #147165 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6E4P
- Type
- protein + RNA
- Length
- 637 residues
- Chains
- 11
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA (5'-R(P*UP*UP*UP*U)-3'); RNA-binding protein, putative
- UniProt
- Q389P7
- Pockets
- 10 · best druggability 0.80
Structure
x-ray diffraction · 5 distinct chains · 28% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| J, K | RNA (5'-R(P*UP*UP*UP*U)-3') | rna | 3 | — | — |
| A, E, G | RNA-binding protein, putative | protein | 70 | 27% helix, 36% strand | Q389P7 |
| B | RNA-binding protein, putative | protein | 69 | 28% helix, 32% strand | Q389P7 |
| C | RNA-binding protein, putative | protein | 68 | 26% helix, 35% strand | Q389P7 |
| D, F, H, I | RNA-binding protein, putative | protein | 71 | 30% helix, 34% strand | Q389P7 |
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 829 | 0.80 | 0.83 | 74 | empty |
| 2 | 587 | 0.73 | 0.81 | 63 | empty |
| 3 | 247 | 0.57 | 0.78 | 30 | empty |
| 4 | 170 | 0.47 | 0.76 | 23 | empty |
| 5 | 112 | 0.38 | 0.74 | 17 | empty |
Interfaces
24 interfaces between chains.
- A–F · 447 Ų buried · 13 hydrogen bonds · protein-protein
- F–H · 442 Ų buried · 12 hydrogen bonds · protein-protein
- G–H · 416 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 395 Ų buried · 3 hydrogen bonds · protein-protein
- C–F · 349 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6E4P · Structure of the T. brucei RRM domain in complex with RNA · the same entry in another collection · chain J against J, 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 Q389P7
- Elsewhere: RCSB PDB 6E4P · PDBe 6E4P · UniProt Q389P7
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