MolNFT v1 · #148761 · protein
Crystal structure of the BIR3 - SERK1 complex from arabidopsis thaliana.
6FG8 · Somatic embryogenesis receptor kinase 1: “Crystal structure of the BIR3 - SERK1 complex from arabidopsis thaliana.”. X-ray diffraction, 3 ligands (NAG, BMA, FUC), 1 pocket (best druggability 0.43). MolNFT v1 #148761 on GenesisL1: 3D…
- PDB
- 6FG8
- Type
- protein
- Length
- 377 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Somatic embryogenesis receptor kinase 1; Probable inactive receptor kinase AT1G27190
- EC
- 2.7.10.1, 2.7.11.1
- UniProt
- Q94AG2, O04567
- Ligands
- NAG, BMA, FUC
- Pockets
- 1 · best druggability 0.43
Structure
x-ray diffraction · 2 distinct chains · 22% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Somatic embryogenesis receptor kinase 1 (EC 2.7.10.1, 2.7.11.1) | protein | 188 | 23% helix, 24% strand | Q94AG2 |
| B | Probable inactive receptor kinase AT1G27190 | protein | 189 | 21% helix, 19% strand | O04567 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 12 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar
- FUC · alpha-L-fucopyranose · sugar · chains B
- PEG · Di(hydroxyethyl)ether · additive · 4 copies · chains A, B
- 1PE · Pentaethylene glycol · additive · chains A, B
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 | 144 | 0.43 | 0.75 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 734 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 6 glycan (disulfide, N-glycosylation).
Compared structures
- 6FG8 · Crystal structure of the BIR3 - SERK1 complex from Arabidopsis thaliana. · the same entry in another collection · chain A against A, TM-score 1.00
- Q94AG2 · AlphaFold monomer V2.0 prediction for somatic embryogenesis receptor kinase 1 (Q94AG2) · a predicted model of the same protein · chain A against A, TM-score 0.98
- O04567 · AlphaFold monomer V2.0 prediction for probable inactive receptor kinase AT1G27190 (O04567) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 Q94AG2
- Every structure of UniProt O04567
- Elsewhere: RCSB PDB 6FG8 · PDBe 6FG8 · UniProt Q94AG2 · UniProt O04567
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