MolNFT v1 · #170288 · protein
Escherichia COLI rnla endoribonuclease
6Y2Q · MRNA endoribonuclease toxin ls: “Escherichia COLI rnla endoribonuclease”. X-ray diffraction, 1 ligand (CL), 10 pockets (best druggability 0.50). MolNFT v1 #170288 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6Y2Q
- Type
- protein
- Length
- 692 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
- Ligands
- CL
- Pockets
- 10 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | MRNA endoribonuclease toxin ls (EC 3.1.-.-) | protein | 346 | 46% helix, 18% strand | P52129 |
Ligands and binding sites
- CL · Chloride ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 99 | 0.50 | 0.81 | 18 | empty |
| 2 | 176 | 0.49 | 0.77 | 26 | empty |
| 3 | 155 | 0.46 | 0.76 | 21 | empty |
| 4 | 60 | 0.43 | 0.82 | 18 | empty |
| 5 | 123 | 0.42 | 0.76 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 942 Ų buried · 8 hydrogen bonds · protein-protein
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 P52129
- Elsewhere: RCSB PDB 6Y2Q · PDBe 6Y2Q · UniProt P52129
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