Research workbench
Complex structure between P60N/P80C katanin and a peptide derived from aspm
Analyse Complex structure between P60N/P80C katanin and a peptide derived from aspm in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5LB7
- Type
- protein
- Length
- 247 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Katanin P80 WD40 repeat-containing subunit B1; Katanin P60 ATPase-containing subunit A1…
- EC
- 3.6.4.3
- UniProt
- Q8BG40, Q9WV86, Q8CJ27
- Pockets
- 3 · best druggability 0.37
Structure
x-ray diffraction · 3 distinct chains · 80% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Katanin P80 WD40 repeat-containing subunit B1 | protein | 166 | 80% helix, 0% strand | Q8BG40 |
| B | Katanin P60 ATPase-containing subunit A1 (EC 3.6.4.3) | protein | 78 | 85% helix, 0% strand | Q9WV86 |
| C | Abnormal spindle-like microcephaly-associated protein homolog | protein | 3 | 0% helix, 0% strand | Q8CJ27 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 63 | 0.37 | 0.78 | 12 | empty |
| 2 | 81 | 0.32 | 0.73 | 16 | empty |
| 3 | 75 | 0.30 | 0.73 | 13 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1527 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 193 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 84 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5LB7 · Complex structure between p60N/p80C katanin and a peptide derived from ASPM · the same entry in another collection · chain A against A, TM-score 1.00
- Q9WV86 · AlphaFold monomer V2.0 prediction for katanin P60 ATPase-containing subunit A1 (Q9WV86) · a predicted model of the same protein · chain B against A, TM-score 0.97
- Q8BG40 · AlphaFold monomer V2.0 prediction for katanin P80 WD40 repeat- containing subunit B1… · a predicted model of the same protein · chain A against A, TM-score 0.90
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 Q8BG40
- Every structure of UniProt Q9WV86
- Every structure of UniProt Q8CJ27
- Elsewhere: RCSB PDB 5LB7 · PDBe 5LB7 · UniProt Q8BG40 · UniProt Q9WV86 · UniProt Q8CJ27
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