Research workbench
Apo structure of P60N/P80C katanin
Analyse Apo structure of P60N/P80C katanin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5NBT
- Type
- protein
- Length
- 431 residues
- Chains
- 4
- 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
- Pockets
- 3 · best druggability 0.44
Structure
x-ray diffraction · 4 distinct chains · 83% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Katanin P80 WD40 repeat-containing subunit B1 | protein | 146 | 82% helix, 0% strand | Q8BG40 |
| B | Katanin P60 ATPase-containing subunit A1 (EC 3.6.4.3) | protein | 65 | 86% helix, 0% strand | Q9WV86 |
| C | Katanin P80 WD40 repeat-containing subunit B1 | protein | 151 | 82% helix, 0% strand | Q8BG40 |
| D | Katanin P60 ATPase-containing subunit A1 (EC 3.6.4.3) | protein | 69 | 83% helix, 0% strand | Q9WV86 |
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 | 192 | 0.44 | 0.74 | 22 | empty |
| 2 | 92 | 0.32 | 0.73 | 19 | empty |
| 3 | 61 | 0.27 | 0.72 | 13 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1441 Ų buried · 18 hydrogen bonds · protein-protein
- C–D · 1433 Ų buried · 21 hydrogen bonds · protein-protein
- A–C · 605 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 5NBT · Apo structure of p60N/p80C katanin · the same entry in another collection · chain D against D, TM-score 1.00
- Q8BG40 · AlphaFold monomer V2.0 prediction for katanin P80 WD40 repeat- containing subunit B1… · a predicted model of the same protein · chain C against A, TM-score 0.96
- 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 0.94
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 Q8BG40
- Every structure of UniProt Q9WV86
- Elsewhere: RCSB PDB 5NBT · PDBe 5NBT · UniProt Q8BG40 · UniProt Q9WV86
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