MolNFT v1 · #15273 · protein + RNA
Structure of the L1 protuberance in the ribosome
1MZP · Fragment of 23S rRNA: “Structure of the L1 protuberance in the ribosome”. X-ray diffraction, 1 ligand (MG), 3 pockets (best druggability 0.74). MolNFT v1 #15273 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1MZP
- Type
- protein + RNA
- Length
- 272 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fragment of 23S rRNA; 50S ribosomal protein L1P
- UniProt
- P35024
- Ligands
- MG
- Pockets
- 3 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Fragment of 23S rRNA | rna | 55 | — | — |
| A | 50S ribosomal protein L1P | protein | 217 | 38% helix, 23% strand | P35024 |
Ligands and binding sites
- MG · Magnesium ion · metal · 3 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 612 | 0.74 | 0.82 | 60 | MG |
| 2 | 165 | 0.38 | 0.73 | 16 | empty |
| 3 | 53 | 0.23 | 0.73 | 9 | empty |
Interfaces
1 interface between chains.
- B–A · 1512 Ų buried · 50 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
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 P35024
- Elsewhere: RCSB PDB 1MZP · PDBe 1MZP · UniProt P35024
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.