› 6qtu

X-ray diffraction
1.3Å resolution

Crystal structure of Arabidopsis WD40 domain in complex with a BBX transcription factor

Released:
DOI: 10.2210/pdb6qtu/pdb
PDB entry 6qtu coloured by chain, front view.
PDB entry 6qtu coloured by chain, side view.
PDB entry 6qtu coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Plant photoreceptors and their signaling components compete for COP1 binding via VP peptide motifs.
Lau K, Podolec R, Chappuis R, Ulm R, Hothorn M
EMBO J 38 e102140 (2019)
PMID: 31304983

Function and Biology Details

Reaction catalysed: 
S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155009 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
E3 ubiquitin-protein ligase COP1 Chain: A
Molecule details ›
Chain: A
Length: 330 amino acids
Theoretical weight: 37.2 KDa
Source organism: Arabidopsis thaliana
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P43254 (Residues: 349-675; Coverage: 48%)
Gene names: At2g32950, COP1, T21L14.11
Sequence domains: WD domain, G-beta repeat
B-box zinc finger protein 24 Chain: B
Molecule details ›
Chain: B
Length: 10 amino acids
Theoretical weight: 1.16 KDa
Source organism: Arabidopsis thaliana
Expression system: Not provided
UniProt:
  • Canonical: Q96288 (Residues: 240-248; Coverage: 4%)
Gene names: At1g06040, BBX24, STO, T21E18.8, T21E18.9

Ligands and Environments

2 bound ligands:
Ligand MLI 2 x MLI
Ligand GOL 1 x GOL
1 modified residue:
Ligand CSO 1 x CSO

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06DA
Spacegroup: P212121
Unit cell:
a: 48.679Å b: 54.992Å c: 102.664Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.143 0.141 0.176
Expression systems:
  • Spodoptera frugiperda
  • Not provided

Quick links

Citations

11 review citations

The Photomorphogenic Central Repressor COP1: Conservation and Functional Diversification during Evolution.
Han et al. (2020)
10 more