MolNFT v1 · #56350 · protein
Ubiquitin crystallized under high pressure
2ZCC: “Ubiquitin crystallized under high pressure”. X-ray diffraction, 1 ligand (ZN), 1 pocket (best druggability 0.49). MolNFT v1 #56350 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2ZCC
- Type
- protein
- Length
- 211 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin
- UniProt
- P62974
- Ligands
- ZN
- Pockets
- 1 · best druggability 0.49
Structure
x-ray diffraction · 2 distinct chains · 26% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Ubiquitin | protein | 70 | 26% helix, 30% strand | P62974 |
| C | Ubiquitin | protein | 71 | 25% helix, 30% strand | P62974 |
Ligands and binding sites
- ZN · Zinc ion · metal · 6 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 249 | 0.49 | 0.74 | 26 | empty |
Interfaces
3 interfaces between chains.
- B–C · 341 Ų buried · 2 hydrogen bonds · protein-protein
- A–C · 327 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 47 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 2ZCC · Ubiquitin crystallized under high pressure · the same entry in another collection · chain A against A, TM-score 1.00
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 P62974
- Elsewhere: RCSB PDB 2ZCC · PDBe 2ZCC · UniProt P62974
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