MolNFT v1 · #138884 · protein
Crystal structure of the RRS1 and RPF2 complex
5WXL · Ribosome biogenesis protein RPF2: “Crystal structure of the RRS1 and RPF2 complex”. X-ray diffraction, 10 pockets (best druggability 0.66). MolNFT v1 #138884 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5WXL
- Type
- protein
- Length
- 605 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ribosome biogenesis protein RPF2; Regulator of ribosome biosynthesis
- UniProt
- P36160, Q08746
- Pockets
- 10 · best druggability 0.66
Structure
x-ray diffraction · 3 distinct chains · 25% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ribosome biogenesis protein RPF2 | protein | 226 | 24% helix, 34% strand | P36160 |
| B, D | Regulator of ribosome biosynthesis | protein | 78 | 35% helix, 18% strand | Q08746 |
| C | Ribosome biogenesis protein RPF2 | protein | 223 | 24% helix, 32% strand | P36160 |
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 | 572 | 0.66 | 0.76 | 62 | empty |
| 2 | 523 | 0.64 | 0.76 | 71 | empty |
| 3 | 235 | 0.54 | 0.78 | 32 | empty |
| 4 | 85 | 0.48 | 0.81 | 16 | empty |
| 5 | 95 | 0.46 | 0.80 | 28 | empty |
Interfaces
4 interfaces between chains.
- A–B · 2655 Ų buried · 44 hydrogen bonds · protein-protein
- C–D · 2352 Ų buried · 36 hydrogen bonds · protein-protein
- A–C · 454 Ų buried · 9 hydrogen bonds · protein-protein
- A–D · 355 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5WXL · Crystal structure of the Rrs1 and Rpf2 complex · the same entry in another collection · chain A against A, TM-score 1.00
- P36160 · AlphaFold monomer V2.0 prediction for ribosome biogenesis protein RPF2 (P36160) · a predicted model of the same protein · chain A against A, TM-score 1.00
- Q08746 · AlphaFold monomer V2.0 prediction for regulator of ribosome biosynthesis (Q08746) · a predicted model of the same protein · chain B against A, TM-score 0.94
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 P36160
- Every structure of UniProt Q08746
- Elsewhere: RCSB PDB 5WXL · PDBe 5WXL · UniProt P36160 · UniProt Q08746
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