Research workbench
Crystal structure of the legionella pneumophila effector protein ravz in complex with human LC3B
Analyse Crystal structure of the legionella pneumophila effector protein ravz in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MS2
- Type
- protein
- Length
- 520 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Legionella pneumophila effector protein ravz; Microtubule-associated proteins 1A/1B light…
- UniProt
- Q5ZUV9, Q9GZQ8
- Pockets
- 8 · best druggability 0.66
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Legionella pneumophila effector protein ravz | protein | 405 | 43% helix, 18% strand | Q5ZUV9 |
| B | Microtubule-associated proteins 1A/1B light chain 3B | protein | 115 | 28% helix, 21% strand | Q9GZQ8 |
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 387 | 0.66 | 0.80 | 42 | empty |
| 2 | 70 | 0.48 | 0.84 | 21 | empty |
| 3 | 131 | 0.47 | 0.78 | 23 | empty |
| 4 | 141 | 0.46 | 0.77 | 27 | empty |
| 5 | 77 | 0.44 | 0.81 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 332 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5MS2 · Crystal structure of the Legionella pneumophila effector protein RavZ in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9GZQ8 · AlphaFold monomer V2.0 prediction for microtubule-associated proteins 1A/1B light chain… · a predicted model of the same protein · chain B against A, TM-score 0.94
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 Q5ZUV9
- Every structure of UniProt Q9GZQ8
- Elsewhere: RCSB PDB 5MS2 · PDBe 5MS2 · UniProt Q5ZUV9 · UniProt Q9GZQ8
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