MolNFT v1 · #127284 · protein
Low-salt structure of ravz LIR2-fused human LC3B
5MS5 · RAVZ,MICROTUBULE-associated proteins 1A/1B light chain 3B: “Low-salt structure of ravz LIR2-fused human LC3B”. X-ray diffraction, 1 ligand (SO4), 2 pockets (best druggability 0.44). MolNFT v1 #127284 on GenesisL1: 3D structure…
- PDB
- 5MS5
- Type
- protein
- Length
- 253 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RAVZ,MICROTUBULE-associated proteins 1A/1B light chain 3B
- UniProt
- Q5ZUV9, Q9GZQ8
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.44
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RAVZ,MICROTUBULE-associated proteins 1A/1B light chain 3B | protein | 128 | 30% helix, 20% strand | Q5ZUV9, Q9GZQ8 |
| B | RAVZ,MICROTUBULE-associated proteins 1A/1B light chain 3B | protein | 125 | 32% helix, 22% strand | Q5ZUV9, Q9GZQ8 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 179 | 0.44 | 0.74 | 28 | empty |
| 2 | 110 | 0.36 | 0.74 | 26 | empty |
Interfaces
1 interface between chains.
- A–B · 548 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 5MS5 · Low-salt structure of RavZ LIR2-fused human LC3B · 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 0.86
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 5MS5 · PDBe 5MS5 · UniProt Q5ZUV9 · UniProt Q9GZQ8
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