MolNFT v1 · #103496 · protein
X-ray crystal structure of the K33S mutant of ubiquitin
4PIH: “X-ray crystal structure of the K33S mutant of ubiquitin”. X-ray diffraction, 2 ligands (CA, CL), 1 pocket (best druggability 0.30). MolNFT v1 #103496 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4PIH
- Type
- protein
- Length
- 152 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ubiquitin
- UniProt
- P62987
- Ligands
- CA, CL
- Pockets
- 1 · best druggability 0.30
Structure
x-ray diffraction · 1 distinct chain · 24% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Ubiquitin | protein | 76 | 24% helix, 34% strand | P62987 |
Ligands and binding sites
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 | 54 | 0.30 | 0.76 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 468 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 4PIH · X-ray crystal structure of the K33S mutant of ubiquitin · the same entry in another collection · chain A against A, TM-score 1.00
- P62987 · AlphaFold monomer V2.0 prediction for ubiquitin-60S ribosomal protein L40 (P62987) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 P62987
- Elsewhere: RCSB PDB 4PIH · PDBe 4PIH · UniProt P62987
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