› 4xdm

X-ray diffraction
1.5Å resolution

N-terminal domain of Hsp90 from Dictyostelium discoideum in complex with Geldanamycin

Released:
DOI: 10.2210/pdb4xdm/pdb
PDB entry 4xdm coloured by chain, front view.
PDB entry 4xdm coloured by chain, side view.
PDB entry 4xdm coloured by chain, top view.
Source organism: Dictyostelium discoideum
Primary publication:
First Structural View of a Peptide Interacting with the Nucleotide Binding Domain of Heat Shock Protein 90.
Raman S, Singh M, Tatu U, Suguna K
Sci Rep 5 17015 (2015)
PMID: 26599366

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-157069 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Heat shock cognate 90 kDa protein Chain: A
Molecule details ›
Chain: A
Length: 259 amino acids
Theoretical weight: 29.23 KDa
Source organism: Dictyostelium discoideum
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P54651 (Residues: 1-223; Coverage: 32%)
Gene names: DDB_G0267400, hsc90, hsp90, hspD
Sequence domains: Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
Structure domains: Histidine kinase-like ATPase, C-terminal domain

Ligands and Environments

2 bound ligands:
Ligand GDM 1 x GDM
Ligand PEG 1 x PEG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM14
Spacegroup: P21
Unit cell:
a: 41.4Å b: 44.63Å c: 60.16Å
α: 90° β: 107.93° γ: 90°
R-values:
R R work R free
0.184 0.182 0.224
Expression system: Escherichia coli BL21(DE3)

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Citations

3 citation in other articles

Anticancer activity and toxicity of new quaternary ammonium geldanamycin derivative salts and their mixtures with potentiators.
Skrzypczak et al. (2021)
2 more

3 mentions without citation

Methods to validate Hsp90 inhibitor specificity, to identify off-target effects, and to rethink approaches for further clinical development.
Neckers et al. (2018)
2 more