Research workbench
Structural basis for selection of glycosylated substrate by SCFFBS1 ubiquitin ligase
Analyse Structural basis for selection of glycosylated substrate by SCFFBS1 ubiquitin… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2E33
- Type
- protein
- Length
- 299 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- F-box only protein 2; Ribonuclease pancreatic
- EC
- 3.1.27.5
- UniProt
- Q80UW2, P61823
- Ligands
- NAG, MAN, BMA
- Pockets
- 1 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | F-box only protein 2 | protein | 175 | 3% helix, 42% strand | Q80UW2 |
| B | Ribonuclease pancreatic (EC 3.1.27.5) | protein | 124 | 19% helix, 35% strand | P61823 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A, B
- MAN · alpha-D-mannopyranose · sugar · 2 copies · chains A
- BMA · beta-D-mannopyranose · sugar · 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 | 121 | 0.38 | 0.74 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 210 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 4 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 2E33 · Structural basis for selection of glycosylated substrate by SCFFbs1 ubiquitin ligase · the same entry in another collection · chain A against A, TM-score 1.00
- Q80UW2 · AlphaFold monomer V2.0 prediction for F-box only protein 2 (Q80UW2) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q80UW2
- Every structure of UniProt P61823
- Elsewhere: RCSB PDB 2E33 · PDBe 2E33 · UniProt Q80UW2 · UniProt P61823
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