› 6kks

X-ray diffraction
2.15Å resolution

Structural insights into target DNA recognition by R2R3-type MYB transcription factor

Released:
DOI: 10.2210/pdb6kks/pdb
PDB entry 6kks coloured by chain, front view.
PDB entry 6kks coloured by chain, side view.
PDB entry 6kks coloured by chain, top view.
Source organism: Arabidopsis thaliana
Primary publication:
Structural insights into target DNA recognition by R2R3-MYB transcription factors.
Wang B, Luo Q, Li Y, Yin L, Zhou N, Li X, Gan J, Dong A
Nucleic Acids Res 48 460-471 (2020)
PMID: 31733060

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-120159 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Transcription factor WER Chain: A
Molecule details ›
Chain: A
Length: 119 amino acids
Theoretical weight: 14.07 KDa
Source organism: Arabidopsis thaliana
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9SEI0 (Residues: 12-130; Coverage: 59%)
Gene names: At5g14750, MYB66, T9L3.50, WER
Sequence domains: Myb-like DNA-binding domain
DNA (5'-D(*AP*AP*AP*TP*TP*CP*TP*CP*CP*AP*AP*CP*CP*GP*CP*AP*TP*TP*TP*TP*C)-3') Chain: B
Molecule details ›
Chain: B
Length: 21 nucleotides
Theoretical weight: 6.32 KDa
Source organism: Arabidopsis thaliana
Expression system: Not provided
DNA (5'-D(*CP*GP*AP*AP*AP*AP*TP*GP*CP*GP*GP*TP*TP*GP*GP*AP*GP*AP*AP*TP*T)-3') Chain: C
Molecule details ›
Chain: C
Length: 21 nucleotides
Theoretical weight: 6.55 KDa
Source organism: Arabidopsis thaliana
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand MG 1 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: P212121
Unit cell:
a: 52.084Å b: 63.927Å c: 73.956Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.215 0.214 0.246
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

6 review citations

MYB-Mediated Regulation of Anthocyanin Biosynthesis.
Yan et al. (2021)
5 more

5 mentions without citation

Structural insights into target DNA recognition by R2R3-MYB transcription factors.
Wang et al. (2020)
4 more