› 5z7i

X-ray diffraction
1.6Å resolution

Caulobacter crescentus GcrA DNA-binding domain(DBD)in complex with unmethylated dsDNA

Released:
DOI: 10.2210/pdb5z7i/pdb
PDB entry 5z7i coloured by chain, front view.
PDB entry 5z7i coloured by chain, side view.
PDB entry 5z7i coloured by chain, top view.
Source organisms:
Primary publication:
Structural insights into the unique mechanism of transcription activation by Caulobacter crescentus GcrA.
Wu X, Haakonsen DL, Sanderlin AG, Liu YJ, Shen L, Zhuang N, Laub MT, Zhang Y
Nucleic Acids Res 46 3245-3256 (2018)
PMID: 29514271

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero trimer (preferred)
monomeric
Assembly name:
PDBe Complex ID:
PDB-CPX-101825 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Cell cycle regulatory protein GcrA Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 49 amino acids
Theoretical weight: 5.32 KDa
Source organism: Caulobacter vibrioides NA1000
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A0A0H3C9J4 (Residues: 1-45; Coverage: 26%)
Gene names: CCNA_02328, gcrA
DNA (5'-D(*CP*CP*CP*TP*GP*AP*TP*TP*CP*GP*C*)-3') Chain: D
Molecule details ›
Chain: D
Length: 11 nucleotides
Theoretical weight: 3.29 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*CP*GP*AP*AP*TP*CP*AP*GP*G)-3') Chain: E
Molecule details ›
Chain: E
Length: 10 nucleotides
Theoretical weight: 3.09 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand BU3 1 x BU3
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: C2221
Unit cell:
a: 49.909Å b: 64.896Å c: 126.474Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.201 0.2 0.224
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

3 review citations

Diverse and unified mechanisms of transcription initiation in bacteria.
Chen et al. (2021)
2 more

3 mentions without citation

Timeless couples G-quadruplex detection with processing by DDX11 helicase during DNA replication.
Lerner et al. (2020)
2 more