MolNFT v1 · #170289 · protein
Escherichia COLI R255A rnla endoribonuclease (single alanine mutant of rnla)
6Y2R · MRNA endoribonuclease toxin ls: “Escherichia COLI R255A rnla endoribonuclease (single alanine mutant of rnla)”. X-ray diffraction, 8 pockets (best druggability 0.47). MolNFT v1 #170289 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6Y2R
- Type
- protein
- Length
- 689 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- MRNA endoribonuclease toxin ls
- EC
- 3.1.-.-
- UniProt
- P52129
- Pockets
- 8 · best druggability 0.47
Structure
x-ray diffraction · 2 distinct chains · 47% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MRNA endoribonuclease toxin ls (EC 3.1.-.-) | protein | 345 | 46% helix, 18% strand | P52129 |
| B | MRNA endoribonuclease toxin ls (EC 3.1.-.-) | protein | 344 | 47% helix, 19% strand | P52129 |
Pockets
8 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.47 | 0.79 | 19 | empty |
| 2 | 127 | 0.42 | 0.76 | 22 | empty |
| 3 | 105 | 0.40 | 0.76 | 20 | empty |
| 4 | 112 | 0.40 | 0.75 | 23 | empty |
| 5 | 62 | 0.39 | 0.79 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 870 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 6Y2R · Escherichia coli R255A RnlA endoribonuclease (single alanine mutant of RnlA) · the same entry in another collection · chain A against A, TM-score 1.00
- P52129 · AlphaFold monomer V2.0 prediction for mRNA endoribonuclease toxin ls (P52129) · a predicted model of the same protein · chain A against A, TM-score 0.50
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 P52129
- Elsewhere: RCSB PDB 6Y2R · PDBe 6Y2R · UniProt P52129
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