Research workbench
Escherichia COLI R318A rnla endoribonuclease (single alanine mutant of rnla)
Analyse Escherichia COLI R318A rnla endoribonuclease (single alanine mutant of rnla) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6Y2S
- Type
- protein
- Length
- 686 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
- 6 · best druggability 0.57
Structure
x-ray diffraction · 2 distinct chains · 48% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | MRNA endoribonuclease toxin ls (EC 3.1.-.-) | protein | 344 | 48% helix, 20% strand | P52129 |
| B | MRNA endoribonuclease toxin ls (EC 3.1.-.-) | protein | 342 | 47% helix, 19% strand | P52129 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 247 | 0.57 | 0.78 | 28 | empty |
| 2 | 246 | 0.55 | 0.77 | 26 | empty |
| 3 | 234 | 0.53 | 0.76 | 40 | empty |
| 4 | 50 | 0.42 | 0.82 | 14 | empty |
| 5 | 79 | 0.37 | 0.77 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 868 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 6Y2S · Escherichia coli R318A 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 6Y2S · PDBe 6Y2S · UniProt P52129
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