Research workbench
Crystal structure of the first starkin domain of LAM4
Analyse Crystal structure of the first starkin domain of LAM4 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YQJ
- Type
- protein
- Length
- 531 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Membrane-anchored lipid-binding protein LAM4
- UniProt
- P38800
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 26% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Membrane-anchored lipid-binding protein LAM4 | protein | 177 | 25% helix, 39% strand | P38800 |
| B | Membrane-anchored lipid-binding protein LAM4 | protein | 178 | 25% helix, 39% strand | P38800 |
| C | Membrane-anchored lipid-binding protein LAM4 | protein | 176 | 27% helix, 38% strand | P38800 |
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1128 | 0.72 | 0.76 | 94 | empty |
| 2 | 332 | 0.71 | 0.84 | 46 | empty |
| 3 | 367 | 0.70 | 0.82 | 43 | empty |
| 4 | 342 | 0.68 | 0.82 | 42 | empty |
Interfaces
3 interfaces between chains.
- B–C · 352 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 321 Ų buried · 2 hydrogen bonds · protein-protein
- A–B · 47 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5YQJ · Crystal structure of the first StARkin domain of Lam4 · the same entry in another collection · chain A against A, TM-score 1.00
- P38800 · AlphaFold monomer V2.0 prediction for membrane-anchored lipid-binding protein LAM4… · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P38800
- Elsewhere: RCSB PDB 5YQJ · PDBe 5YQJ · UniProt P38800
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.