MolNFT v1 · #113437 · protein
Symportin 1 chaperones 5S rnp assembly during ribosome biogenesis by occupying an essential rRNA binding site
5AFF: “Symportin 1 chaperones 5S rnp assembly during ribosome biogenesis by occupying an essential rRNA binding site”. X-ray diffraction, 12 pockets (best druggability 0.74). MolNFT v1 #113437 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5AFF
- Type
- protein
- Length
- 712 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Symportin 1; Ribosomal protein L5; Ribosomal protein L11
- UniProt
- G0S5S6, G0SEG2, G0SHQ2
- Pockets
- 12 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 65% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Symportin 1 | protein | 568 | 74% helix, 0% strand | G0S5S6 |
| B | Ribosomal protein L5 | protein | 27 | 22% helix, 0% strand | G0SEG2 |
| C | Ribosomal protein L11 | protein | 117 | 32% helix, 22% strand | G0SHQ2 |
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 437 | 0.74 | 0.84 | 46 | empty |
| 2 | 559 | 0.67 | 0.77 | 51 | empty |
| 3 | 111 | 0.63 | 0.88 | 23 | empty |
| 4 | 336 | 0.59 | 0.77 | 37 | empty |
| 5 | 164 | 0.59 | 0.83 | 41 | empty |
Interfaces
2 interfaces between chains.
- A–B · 1435 Ų buried · 21 hydrogen bonds · protein-protein
- A–C · 1314 Ų buried · 22 hydrogen bonds · protein-protein
Compared structures
- 5AFF · Symportin 1 chaperones 5S RNP assembly during ribosome biogenesis by occupying an… · the same entry in another collection · chain A against A, 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 G0S5S6
- Every structure of UniProt G0SEG2
- Every structure of UniProt G0SHQ2
- Elsewhere: RCSB PDB 5AFF · PDBe 5AFF · UniProt G0S5S6 · UniProt G0SEG2 · UniProt G0SHQ2
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