6I06 image
Deposition Date 2018-10-25
Release Date 2019-06-12
Last Version Date 2024-01-24
Entry Detail
PDB ID:
6I06
Keywords:
Title:
Crystal structure of psychrophilic phosphoglycerate kinase from Pseudomonas TACII18
Biological Source:
Source Organism:
Pseudomonas (Taxon ID: 286)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.00 Å
R-Value Free:
0.22
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
P 32
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Phosphoglycerate kinase
Gene (Uniprot):pgk
Chain IDs:A
Chain Length:387
Number of Molecules:1
Biological Source:Pseudomonas
Primary Citation
Structural determinants increasing flexibility confer cold adaptation in psychrophilic phosphoglycerate kinase.
Extremophiles 23 495 506 (2019)
PMID: 31147836 DOI: 10.1007/s00792-019-01102-x

Abstact

Crystal structures of phosphoglycerate kinase (PGK) from the psychrophile Pseudomonas sp. TACII 18 have been determined at high resolution by X-ray crystallography methods and compared with mesophilic, thermophilic and hyperthermophilic counterparts. PGK is a two-domain enzyme undergoing large domain movements to catalyze the production of ATP from 1,3-biphosphoglycerate and ADP. Whereas the conformational dynamics sustaining the catalytic mechanism of this hinge-bending enzyme now seems rather clear, the determinants which underlie high catalytic efficiency at low temperatures of this psychrophilic PGK were unknown. The comparison of the three-dimensional structures shows that multiple (global and local) specific adaptations have been brought about by this enzyme. Together, these reside in an overall increased flexibility of the cold-adapted PGK thereby allowing a better accessibility to the active site, but also a potentially more disordered transition state of the psychrophilic enzyme, due to the destabilization of some catalytic residues.

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Primary Citation of related structures