Research workbench
Crystal structure of BRL1 (lrr) in complex with brassinolide
Analyse Crystal structure of BRL1 (lrr) in complex with brassinolide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4J0M
- Type
- protein
- Length
- 1,448 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase BRI1-like 1
- EC
- 2.7.11.1
- UniProt
- Q9ZWC8
- Ligands
- BLD, NAG, MAN, BMA
- Pockets
- 8 · best druggability 0.76
Structure
x-ray diffraction · 1 distinct chain · 16% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | SERINE/THREONINE-protein kinase BRI1-like 1 (EC 2.7.11.1) | protein | 724 | 16% helix, 23% strand | Q9ZWC8 |
Ligands and binding sites
- BLD · Brassinolide · ligand · 2 copies · chains A, B
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 22 copies · chains A, B
- MAN · alpha-D-mannopyranose · sugar · 6 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar · 2 copies
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 712 | 0.76 | 0.81 | 62 | BLD |
| 2 | 705 | 0.76 | 0.81 | 67 | BLD |
| 3 | 87 | 0.44 | 0.79 | 20 | empty |
| 4 | 88 | 0.43 | 0.79 | 16 | empty |
| 5 | 50 | 0.35 | 0.79 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 33 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide, 13 glycan (disulfide, N-glycosylation).
Compared structures
- 4J0M · Crystal structure of BRL1 (LRR) in complex with brassinolide · the same entry in another collection · chain A against A, TM-score 1.00
- Q9ZWC8 · AlphaFold monomer V2.0 prediction for SERINE/THREONINE-protein kinase BRI1-like 1 (Q9ZWC8) · a predicted model of the same protein · 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 Q9ZWC8
- Elsewhere: RCSB PDB 4J0M · PDBe 4J0M · UniProt Q9ZWC8
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