› 6qtt

X-ray diffraction
1.51Å resolution

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

Released:
DOI: 10.2210/pdb6qtt/pdb
PDB entry 6qtt coloured by chain, front view.
PDB entry 6qtt coloured by chain, side view.
PDB entry 6qtt 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
OpenAccess logo 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-155008 (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
Transcription factor HY5-like Chain: B
Molecule details ›
Chain: B
Length: 10 amino acids
Theoretical weight: 1.14 KDa
Source organism: Arabidopsis thaliana
Expression system: Not provided
UniProt:
  • Canonical: Q8W191 (Residues: 27-35; Coverage: 6%)
Gene names: At3g17609, BZIP64, HYH, MKP6.27

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: 48.57Å b: 55.163Å c: 102.822Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.155 0.154 0.185
Expression systems:
  • Spodoptera frugiperda
  • Not provided

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Citations

11 review citations

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