› 1zgw

Solution NMR

NMR structure of E. Coli Ada protein in complex with DNA

Released:
DOI: 10.2210/pdb1zgw/pdb
PDB entry 1zgw coloured by chain, ensemble of 20 models, front view.
PDB entry 1zgw coloured by chain, ensemble of 20 models, side view.
PDB entry 1zgw coloured by chain, ensemble of 20 models, top view.
Source organism: Escherichia coli
Primary publication:
A methylation-dependent electrostatic switch controls DNA repair and transcriptional activation by E. coli ada.
He C, Hus JC, Sun LJ, Zhou P, Norman DP, Dötsch V, Wei H, Gross JD, Lane WS, Wagner G, Verdine GL
Mol Cell 20 117-29 (2005)
PMID: 16209950

Function and Biology Details

Reactions catalysed: 
DNA (containing 4-O-methylthymine) + protein L-cysteine = DNA (without 4-O-methylthymine) + protein S-methyl-L-cysteine
DNA (containing Sp-methylphosphotriester) + protein L-cysteine = DNA (without Sp-methylphosphotriester) + protein S-methyl-L-cysteine
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-114916 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Bifunctional transcriptional activator/DNA repair enzyme Ada Chain: A
Molecule details ›
Chain: A
Length: 139 amino acids
Theoretical weight: 15.91 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P06134 (Residues: 1-139; Coverage: 39%)
Gene names: JW2201, ada, b2213
Sequence domains:
Structure domains:
5'-D(*GP*CP*AP*AP*AP*TP*TP*AP*AP*AP*GP*CP*GP*CP*AP*AP*GP*A)-3' Chain: B
Molecule details ›
Chain: B
Length: 18 nucleotides
Theoretical weight: 5.57 KDa
Source organism: Escherichia coli
Expression system: Not provided
5'-D(*TP*CP*TP*TP*GP*CP*GP*CP*TP*TP*TP*AP*AP*TP*TP*TP*GP*C)-3' Chain: C
Molecule details ›
Chain: C
Length: 18 nucleotides
Theoretical weight: 5.46 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 1 x ZN
1 modified residue:
Ligand SMC 1 x SMC

Experiments and Validation Details

Entry percentile scores
Refinement method: simulated annealing
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

16 review citations

Chemical biology of mutagenesis and DNA repair: cellular responses to DNA alkylation.
Shrivastav et al. (2010)
15 more

4 mentions without citation

Ada response - a strategy for repair of alkylated DNA in bacteria.
Mielecki et al. (2014)
3 more