3VMJ: 3-isopropylmalate dehydrogenase from Shewanella oneidensis MR-1

Organisms living in deep seas such as the Mariana Trench must be adapted to the extremely high pressure environment. For example, the 3-isopropylmalate dehydrogenase from the obligate piezophile Shewanella benthica DB21MT-2 (SbIPMDH) remains active in extreme conditions under which that from the land bacterium S. oneidensis MR-1 (SoIPMDH) becomes inactivated. In order to unravel the differences between these two IPMDHs, their structures were determined at ~1.5 A resolution. Comparison of the structures of the two enzymes shows that SbIPMDH is in a more open form and has a larger internal cavity volume than SoIPMDH at atmospheric pressure. This loosely packed structure of SbIPMDH could help it to avoid pressure-induced distortion of the native structure and to remain active at higher pressures than SoIPMDH.
PDB ID: 3VMJDownload
MMDB ID: 97668
PDB Deposition Date: 2011/12/13
Updated in MMDB: 2017/12
Experimental Method:
x-ray diffraction
Resolution: 1.56  Å
Source Organism:
Similar Structures:
Biological Unit for 3VMJ: dimeric; determined by author and by software (PISA)
Molecular Components in 3VMJ
Label Count Molecule
Proteins (2 molecules)
3-isopropylmalate Dehydrogenase(Gene symbol: leuB)
Molecule annotation
Chemicals (6 molecules)
* Click molecule labels to explore molecular sequence information.

Citing MMDB