› 2kmk

Solution NMR

Gfi-1 Zinc Fingers 3-5 complexed with DNA

Released:
DOI: 10.2210/pdb2kmk/pdb
PDB entry 2kmk coloured by chain, ensemble of 12 models, front view.
PDB entry 2kmk coloured by chain, ensemble of 12 models, side view.
PDB entry 2kmk coloured by chain, ensemble of 12 models, top view.
Source organism: Rattus norvegicus
Primary publication:
Solution structure of Gfi-1 zinc domain bound to consensus DNA.
Lee S, Doddapaneni K, Hogue A, McGhee L, Meyers S, Wu Z
J Mol Biol 397 1055-66 (2010)
PMID: 20153336

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-115490 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Zinc finger protein Gfi-1 Chain: A
Molecule details ›
Chain: A
Length: 82 amino acids
Theoretical weight: 9.4 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q07120 (Residues: 312-393; Coverage: 19%)
Gene names: Gfi-1, Gfi1
Sequence domains: Zinc finger, C2H2 type
DNA (5'-D(*CP*AP*TP*AP*AP*AP*TP*CP*AP*CP*TP*GP*CP*CP*TP*A)-3') Chain: B
Molecule details ›
Chain: B
Length: 16 nucleotides
Theoretical weight: 4.83 KDa
Source organism: Rattus norvegicus
Expression system: Not provided
DNA (5'-D(*TP*AP*GP*GP*CP*AP*GP*TP*GP*AP*TP*TP*TP*AP*TP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 16 nucleotides
Theoretical weight: 4.97 KDa
Source organism: Rattus norvegicus
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 3 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Refinement method: simulated annealing, distance geometry
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

6 review citations

Gfi1 and Gfi1b: key regulators of hematopoiesis.
van der Meer et al. (2010)
5 more

4 mentions without citation

Genomic analyses of PMBL reveal new drivers and mechanisms of sensitivity to PD-1 blockade.
Chapuy et al. (2019)
3 more