5UUN image
Entry Detail
PDB ID:
5UUN
Keywords:
Title:
Crystal structure of SARO_2595 from Novosphingobium aromaticivorans
Biological Source:
PDB Version:
Deposition Date:
2017-02-17
Release Date:
2018-02-28
Method Details:
Experimental Method:
Resolution:
1.45 Å
R-Value Free:
0.13
R-Value Work:
0.11
R-Value Observed:
0.11
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Glutathione S-transferase-like protein
Chain IDs:A (auth: B), B (auth: A)
Chain Length:293
Number of Molecules:2
Biological Source:Novosphingobium aromaticivorans (strain ATCC 700278 / DSM 12444 / CIP 105152 / NBRC 16084 / F199)
Primary Citation
Novosphingobium aromaticivoransuses a Nu-class glutathioneS-transferase as a glutathione lyase in breaking the beta-aryl ether bond of lignin.
J. Biol. Chem. 293 4955 4968 (2018)
PMID: 29449375 DOI: 10.1074/jbc.RA117.001268

Abstact

As a major component of plant cell walls, lignin is a potential renewable source of valuable chemicals. Several sphingomonad bacteria have been identified that can break the beta-aryl ether bond connecting most phenylpropanoid units of the lignin heteropolymer. Here, we tested three sphingomonads predicted to be capable of breaking the beta-aryl ether bond of the dimeric aromatic compound guaiacylglycerol-beta-guaiacyl ether (GGE) and found that Novosphingobium aromaticivorans metabolizes GGE at one of the fastest rates thus far reported. After the ether bond of racemic GGE is broken by replacement with a thioether bond involving glutathione, the glutathione moiety must be removed from the resulting two stereoisomers of the phenylpropanoid conjugate beta-glutathionyl-gamma-hydroxypropiovanillone (GS-HPV). We found that the Nu-class glutathione S-transferase NaGST(Nu) is the only enzyme needed to remove glutathione from both (R)- and (S)-GS-HPV in N. aromaticivorans We solved the crystal structure of NaGST(Nu) and used molecular modeling to propose a mechanism for the glutathione lyase (deglutathionylation) reaction in which an enzyme-stabilized glutathione thiolate attacks the thioether bond of GS-HPV, and the reaction proceeds through an enzyme-stabilized enolate intermediate. Three residues implicated in the proposed mechanism (Thr(51), Tyr(166), and Tyr(224)) were found to be critical for the lyase reaction. We also found that Nu-class GSTs from Sphingobium sp. SYK-6 (which can also break the beta-aryl ether bond) and Escherichia coli (which cannot break the beta-aryl ether bond) can also cleave (R)- and (S)-GS-HPV, suggesting that glutathione lyase activity may be common throughout this widespread but largely uncharacterized class of glutathione S-transferases.

Legend

Protein

Chemical

Disease

Primary Citation of related structures