6NN4 image
Entry Detail
PDB ID:
6NN4
Keywords:
Title:
The structure of human liver pyruvate kinase, hLPYK-D499N, in complex with Fru-1,6-BP
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2019-01-14
Release Date:
2019-06-19
Method Details:
Experimental Method:
Resolution:
2.15 Å
R-Value Free:
0.25
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
P 21 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Pyruvate kinase PKLR
Mutations:D499N
Chain IDs:A, B, C, D
Chain Length:543
Number of Molecules:4
Biological Source:Homo sapiens
Primary Citation
Changes in the allosteric site of human liver pyruvate kinase upon activator binding include the breakage of an intersubunit cation-pi bond.
Acta Crystallogr.,Sect.F 75 461 469 (2019)
PMID: 31204694 DOI: 10.1107/S2053230X19007209

Abstact

Human liver pyruvate kinase (hLPYK) converts phosphoenolpyruvate to pyruvate in the final step of glycolysis. hLPYK is allosterically activated by fructose-1,6-bisphosphate (Fru-1,6-BP). The allosteric site, as defined by previous structural studies, is located in domain C between the phosphate-binding loop (residues 444-449) and the allosteric loop (residues 527-533). In this study, the X-ray crystal structures of four hLPYK variants were solved to make structural correlations with existing functional data. The variants are D499N, W527H, Δ529/S531G (called GGG here) and S531E. The results revealed a conformational toggle between the open and closed positions of the allosteric loop. In the absence of Fru-1,6-BP the open position is stabilized, in part, by a cation-π bond between Trp527 and Arg538' (from an adjacent monomer). In the S531E variant glutamate binds in place of the 6'-phosphate of Fru-1,6-BP in the allosteric site, leading to partial allosteric activation. Finally, the structure of the D499N mutant does not provide structural evidence for the previously observed allosteric activation of the D499N variant.

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