MolNFT v1 · #119724 · protein + RNA
Association of four two-K-turn units based on kt-7 3BG,3NC, forming a square-shaped structure
5G4V · Hmkt-7: “Association of four two-K-turn units based on kt-7 3BG,3NC, forming a square-shaped structure”. X-ray diffraction, 4 pockets (best druggability 0.67). MolNFT v1 #119724 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5G4V
- Type
- protein + RNA
- Length
- 544 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hmkt-7; 50S ribosomal protein L7AE
- UniProt
- O29494
- Pockets
- 4 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E, F | Hmkt-7 | rna | 19 | — | — |
| C, D, G, H | 50S ribosomal protein L7AE | protein | 117 | 49% helix, 16% strand | O29494 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 446 | 0.67 | 0.80 | 42 | empty |
| 2 | 381 | 0.65 | 0.80 | 31 | empty |
| 3 | 59 | 0.35 | 0.79 | 11 | empty |
| 4 | 86 | 0.35 | 0.76 | 13 | empty |
Interfaces
14 interfaces between chains.
- A–B · 1258 Ų buried · 80 hydrogen bonds · nucleic-nucleic
- E–F · 1240 Ų buried · 91 hydrogen bonds · nucleic-nucleic
- A–C · 472 Ų buried · 15 hydrogen bonds · protein-nucleic
- F–H · 468 Ų buried · 15 hydrogen bonds · protein-nucleic
- E–G · 455 Ų buried · 14 hydrogen bonds · protein-nucleic
Compared structures
- 5G4V · Association of four two-k-turn units based on Kt-7 3bG,3nC, forming a square-shaped… · the same entry in another collection · chain H against H, TM-score 1.00
- O29494 · AlphaFold monomer V2.0 prediction for 50S ribosomal protein L7AE (O29494) · a predicted model of the same protein · chain C 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 O29494
- Elsewhere: RCSB PDB 5G4V · PDBe 5G4V · UniProt O29494
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