› 3ebl

X-ray diffraction
1.9Å resolution

Crystal Structure of Rice GID1 complexed with GA4

Released:
DOI: 10.2210/pdb3ebl/pdb
PDB entry 3ebl coloured by chain, front view.
PDB entry 3ebl coloured by chain, side view.
PDB entry 3ebl coloured by chain, top view.
Source organism: Oryza sativa Japonica Group
Primary publication:
Structural basis for gibberellin recognition by its receptor GID1.
Shimada A, Ueguchi-Tanaka M, Nakatsu T, Nakajima M, Naoe Y, Ohmiya H, Kato H, Matsuoka M
Nature 456 520-3 (2008)
PMID: 19037316

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-179843 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Gibberellin receptor GID1 Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 365 amino acids
Theoretical weight: 40.9 KDa
Source organism: Oryza sativa Japonica Group
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6L545 (Residues: 2-354; Coverage: 100%)
Gene names: GID1, LOC_Os05g33730, OJ1657_H11.10, Os05g0407500, P0040B10.6
Sequence domains: alpha/beta hydrolase fold
Structure domains: alpha/beta hydrolase

Ligands and Environments

4 bound ligands:
Ligand GA4 6 x GA4
Ligand MPD 6 x MPD
Ligand NO3 18 x NO3
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P21
Unit cell:
a: 82.76Å b: 133.895Å c: 118.886Å
α: 90° β: 104.95° γ: 90°
R-values:
R R work R free
0.203 0.2 0.244
Expression system: Escherichia coli

Quick links

Citations

50 review citations

The ubiquitin-26S proteasome system at the nexus of plant biology.
Vierstra RD. (2009)
49 more

3 mentions without citation

Unveiling the functional diversity of the alpha/beta hydrolase superfamily in the plant kingdom.
Mindrebo et al. (2016)
2 more