5KVA image
Deposition Date 2016-07-14
Release Date 2016-08-10
Last Version Date 2024-03-06
Entry Detail
PDB ID:
5KVA
Keywords:
Title:
Crystal Structure of sorghum caffeoyl-CoA O-methyltransferase (CCoAOMT)
Biological Source:
Source Organism:
Sorghum bicolor (Taxon ID: 4558)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.83 Å
R-Value Free:
0.19
R-Value Work:
0.15
R-Value Observed:
0.16
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:caffeoyl-CoA O-methyltransferase
Gene (Uniprot):SORBI_3010G052200
Chain IDs:A, B
Chain Length:278
Number of Molecules:2
Biological Source:Sorghum bicolor
Primary Citation
The Structure and Catalytic Mechanism of Sorghum bicolor Caffeoyl-CoA O-Methyltransferase.
Plant Physiol. 172 78 92 (2016)
PMID: 27457122 DOI: 10.1104/pp.16.00845

Abstact

Caffeoyl-coenzyme A 3-O-methyltransferase (CCoAOMT) is an S-adenosyl methionine (SAM)-dependent O-methyltransferase responsible for methylation of the meta-hydroxyl group of caffeoyl-coenzyme A (CoA) on the pathway to monolignols, with their ring methoxylation status characteristic of guaiacyl or syringyl units in lignin. In order to better understand the unique class of type 2 O-methyltransferases from monocots, we have characterized CCoAOMT from sorghum (Sorghum bicolor; SbCCoAOMT), including the SAM binary complex crystal structure and steady-state enzyme kinetics. Key amino acid residues were validated with site-directed mutagenesis. Isothermal titration calorimetry data indicated a sequential binding mechanism for SbCCoAOMT, wherein SAM binds prior to caffeoyl-CoA, and the enzyme showed allosteric behavior with respect to it. 5-Hydroxyferuloyl-CoA was not a substrate for SbCCoAOMT. We propose a catalytic mechanism in which lysine-180 acts as a catalytic base and deprotonates the reactive hydroxyl group of caffeoyl-CoA. This deprotonation is facilitated by the coordination of the reactive hydroxyl group by Ca(2+) in the active site, lowering the pKa of the 3'-OH group. Collectively, these data give a new perspective on the catalytic mechanism of CCoAOMTs and provide a basis for the functional diversity exhibited by type 2 plant OMTs that contain a unique insertion loop (residues 208-231) conferring affinity for phenylpropanoid-CoA thioesters. The structural model of SbCCoAOMT can serve as the basis for protein engineering approaches to enhance the nutritional, agronomic, and industrially relevant properties of sorghum.

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