MolNFT v1 · #151196 · protein
Structure of calypso in complex with deubad of asx
6HGC · Ubiquitin carboxyl-terminal hydrolase CALYPSO,UBIQUITIN…: “Structure of calypso in complex with deubad of asx”. X-ray diffraction, 11 pockets (best druggability 0.54). MolNFT v1 #151196 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6HGC
- Type
- protein
- Length
- 648 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin carboxyl-terminal hydrolase CALYPSO,UBIQUITIN carboxyl-terminal hydrolase…
- EC
- 3.4.19.12
- UniProt
- Q7K5N4, Q9V727
- Pockets
- 11 · best druggability 0.54
Structure
x-ray diffraction · 3 distinct chains · 53% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ubiquitin carboxyl-terminal hydrolase CALYPSO,UBIQUITIN carboxyl-terminal hydrolase calypso (EC 3.4.19.12) | protein | 304 | 51% helix, 11% strand | Q7K5N4 |
| C | Polycomb protein asx | protein | 96 | 59% helix, 1% strand | Q9V727 |
| B | Ubiquitin carboxyl-terminal hydrolase CALYPSO,UBIQUITIN carboxyl-terminal hydrolase calypso (EC 3.4.19.12) | protein | 248 | 53% helix, 15% strand | Q7K5N4 |
Pockets
11 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 182 | 0.54 | 0.79 | 37 | empty |
| 2 | 99 | 0.48 | 0.81 | 18 | empty |
| 3 | 161 | 0.46 | 0.76 | 28 | empty |
| 4 | 153 | 0.42 | 0.74 | 22 | empty |
| 5 | 72 | 0.40 | 0.79 | 19 | empty |
Interfaces
2 interfaces between chains.
- A–C · 1878 Ų buried · 16 hydrogen bonds · protein-protein
- A–B · 611 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6HGC · Structure of Calypso in complex with DEUBAD of ASX · the same entry in another collection · chain A against A, TM-score 1.00
- Q7K5N4 · AlphaFold monomer V2.0 prediction for ubiquitin carboxyl-terminal hydrolase calypso… · a predicted model of the same protein · chain A against A, TM-score 0.96
- Q9V727 · AlphaFold monomer V2.0 prediction for polycomb protein asx (Q9V727) · a predicted model of the same protein · chain C against A, TM-score 0.78
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 Q7K5N4
- Every structure of UniProt Q9V727
- Elsewhere: RCSB PDB 6HGC · PDBe 6HGC · UniProt Q7K5N4 · UniProt Q9V727
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