› 5d3q

X-ray diffraction
1.7Å resolution

Dynamin 1 GTPase-BSE fusion dimer complexed with GDP

Released:
DOI: 10.2210/pdb5d3q/pdb
PDB entry 5d3q coloured by chain, front view.
PDB entry 5d3q coloured by chain, side view.
PDB entry 5d3q coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of the GTPase domain and the bundle signalling element of dynamin in the GDP state.
Anand R, Eschenburg S, Reubold TF
Biochem Biophys Res Commun 469 76-80 (2016)
PMID: 26612256

Function and Biology Details

Reaction catalysed: 
GTP + H(2)O = GDP + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-170156 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Dynamin-1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 345 amino acids
Theoretical weight: 38.53 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q05193 (Residues: 5-320, 726-746; Coverage: 39%)
Gene names: DNM, DNM1
Sequence domains:
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

2 bound ligands:
Ligand GDP 2 x GDP
Ligand EDO 2 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PETRA III, DESY BEAMLINE P11
Spacegroup: P1
Unit cell:
a: 44.22Å b: 49.96Å c: 82.52Å
α: 99.4° β: 87.18° γ: 105.18°
R-values:
R R work R free
0.174 0.173 0.206
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

The structural biology of the dynamin-related proteins: New insights into a diverse, multitalented family.
Ford et al. (2019)
1 more

8 mentions without citation

Invited review: Mechanisms of GTP hydrolysis and conformational transitions in the dynamin superfamily.
Daumke et al. (2016)
7 more