5TR2 image
Entry Detail
PDB ID:
5TR2
Keywords:
Title:
Crystal structure of the D263G missense variant of human PGM1
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2016-10-25
Release Date:
2017-02-08
Method Details:
Experimental Method:
Resolution:
2.50 Å
R-Value Free:
0.29
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 41 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Phosphoglucomutase-1
Mutations:D263G
Chain IDs:A, B
Chain Length:585
Number of Molecules:2
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
SEP A SER modified residue
Primary Citation
Asp263 missense variants perturb the active site of human phosphoglucomutase 1.
FEBS J. 284 937 947 (2017)
PMID: 28117557 DOI: 10.1111/febs.14025

Abstact

UNLABELLED The enzyme phosphoglucomutase 1 (PGM1) plays a central role in glucose homeostasis. Clinical studies have identified mutations in human PGM1 as the cause of PGM1 deficiency, an inherited metabolic disease. One residue, Asp263, has two known variants associated with disease: D263G and D263Y. Biochemical studies have shown that these mutants are soluble and well folded, but have significant catalytic impairment. To better understand this catalytic defect, we determined crystal structures of these two missense variants, both of which reveal a similar and indirect structural change due to the loss of a conserved salt bridge between Asp263 and Arg293. The arginine reorients into the active site, making interactions with residues responsible for substrate binding. Biochemical studies also show that the catalytic phosphoserine of the missense variants is more stable to hydrolysis relative to wild-type enzyme. The structural perturbation resulting from mutation of this single amino acid reveals the molecular mechanism underlying PGM1 deficiency in these missense variants. DATABASE Structural data are available in the PDB under the accession numbers 5JN5 and 5TR2.

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Primary Citation of related structures