MolNFT v1 · #119723 · protein + RNA
Association of three two-K-turn units based on kt-7 3BU,3NU, forming a triangular-shaped structure
5G4U · Hmkt-7: “Association of three two-K-turn units based on kt-7 3BU,3NU, forming a triangular-shaped structure”. X-ray diffraction, 7 pockets (best druggability 0.42). MolNFT v1 #119723 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5G4U
- Type
- protein + RNA
- Length
- 825 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hmkt-7; 50S ribosomal protein L7AE
- UniProt
- O29494
- Pockets
- 7 · best druggability 0.42
Structure
x-ray diffraction · 5 distinct chains · 47% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, E, F, I, J | Hmkt-7 | rna | 19 | — | — |
| C | 50S ribosomal protein L7AE | protein | 120 | 48% helix, 16% strand | O29494 |
| D, G, H | 50S ribosomal protein L7AE | protein | 117 | 50% helix, 16% strand | O29494 |
| K | 50S ribosomal protein L7AE | protein | 121 | 46% helix, 16% strand | O29494 |
| L | 50S ribosomal protein L7AE | protein | 119 | 45% helix, 16% strand | O29494 |
Pockets
7 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 106 | 0.42 | 0.77 | 12 | empty |
| 2 | 88 | 0.39 | 0.77 | 19 | empty |
| 3 | 134 | 0.39 | 0.74 | 16 | empty |
| 4 | 104 | 0.35 | 0.74 | 17 | empty |
| 5 | 70 | 0.33 | 0.76 | 13 | empty |
Interfaces
24 interfaces between chains.
- I–J · 1259 Ų buried · 95 hydrogen bonds · nucleic-nucleic
- E–F · 1249 Ų buried · 97 hydrogen bonds · nucleic-nucleic
- A–B · 1239 Ų buried · 98 hydrogen bonds · nucleic-nucleic
- E–G · 499 Ų buried · 15 hydrogen bonds · protein-nucleic
- B–D · 488 Ų buried · 16 hydrogen bonds · protein-nucleic
Compared structures
- 5G4U · Association of three two-k-turn units based on Kt-7 3bU,3nU, forming a triangular-shaped… · the same entry in another collection · chain L against L, 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 O29494
- Elsewhere: RCSB PDB 5G4U · PDBe 5G4U · UniProt O29494
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