MolNFT v1 · #137950 · protein
Structure of S65D phosphomimetic ubiquitin refined at 1.2 ångströms resolution
5W46 · Polyubiquitin-B: “Structure of S65D phosphomimetic ubiquitin refined at 1.2 ångströms resolution”. X-ray diffraction, 1 ligand (MG), 1 pocket (best druggability 0.33). MolNFT v1 #137950 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5W46
- Type
- protein
- Length
- 150 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Polyubiquitin-B
- UniProt
- P0CG47
- Ligands
- MG
- Pockets
- 1 · best druggability 0.33
Structure
x-ray diffraction · 2 distinct chains · 24% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Polyubiquitin-B | protein | 74 | 24% helix, 34% strand | P0CG47 |
| B | Polyubiquitin-B | protein | 76 | 24% helix, 34% strand | P0CG47 |
Ligands and binding sites
- MG · Magnesium ion · metal · chains A
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 | 71 | 0.33 | 0.75 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 503 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 5W46 · Structure of S65D Phosphomimetic Ubiquitin Refined at 1.2 Angstroms Resolution · 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 P0CG47
- Elsewhere: RCSB PDB 5W46 · PDBe 5W46 · UniProt P0CG47
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