Research workbench
Lrr-F-box plant ubiquitin ligase
Analyse Lrr-F-box plant ubiquitin ligase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SA1
- Type
- protein
- Length
- 1,494 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SKP1-like protein 1A; F-BOX/LRR-repeat MAX2 homolog
- UniProt
- Q39255, Q5VMP0
- Pockets
- 19 · best druggability 0.49
Structure
x-ray diffraction · 3 distinct chains · 37% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SKP1-like protein 1A | protein | 122 | 57% helix, 2% strand | Q39255 |
| B, D | F-BOX/LRR-repeat MAX2 homolog | protein | 624 | 29% helix, 19% strand | Q5VMP0 |
| C | SKP1-like protein 1A | protein | 124 | 58% helix, 2% strand | Q39255 |
Ligands and binding sites
- PEG · Di(hydroxyethyl)ether · additive · 4 copies · chains A, B, C
- CIT · Citric acid · additive · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
19 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 213 | 0.49 | 0.75 | 35 | empty |
| 2 | 175 | 0.46 | 0.75 | 23 | empty |
| 3 | 162 | 0.45 | 0.75 | 26 | empty |
| 4 | 188 | 0.43 | 0.73 | 37 | empty |
| 5 | 122 | 0.41 | 0.75 | 20 | empty |
Interfaces
3 interfaces between chains.
- A–B · 2078 Ų buried · 25 hydrogen bonds · protein-protein
- C–D · 2074 Ų buried · 27 hydrogen bonds · protein-protein
- B–D · 374 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7SA1 · LRR-F-Box plant ubiquitin ligase · the same entry in another collection · chain A against A, TM-score 1.00
- Q5VMP0 · AlphaFold monomer V2.0 prediction for F-BOX/LRR-repeat MAX2 homolog (Q5VMP0) · a predicted model of the same protein · chain B against A, TM-score 0.98
- Q39255 · AlphaFold monomer V2.0 prediction for SKP1-like protein 1A (Q39255) · a predicted model of the same protein · chain C 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 Q39255
- Every structure of UniProt Q5VMP0
- Elsewhere: RCSB PDB 7SA1 · PDBe 7SA1 · UniProt Q39255 · UniProt Q5VMP0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.