Fructuronate-tagaturonate epimerase UxaE from Cohnella laeviribosi has a versatile TIM-barrel scaffold suitable for a sugar metabolizing biocatalyst

Choi, Moon Young; Shin, Kyung‐Chul; Ho, Thien-Hoang; Park, Hyunjae; Nguyen, Diem Quynh; Park, Yoon Sik; Kim, Dae Wook; Oh, Deok‐Kun; Kang, Lin‐Woo

doi:10.1016/j.ijbiomac.2020.07.285

Cited by 4 publications

(3 citation statements)

References 29 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The functional prediction might describe some bacterial metabolic processes that occurred during soybean fermentation. For example, the D-fructuronate degradation that was predicted for all three FSBs is a pathway that promotes the digestion of pectate and pectin through the D-glucuronate and D-galacturonate pathways [ 54 , 55 ]. These pathways were found in some species of Bacillus [ 56 ], and they might help release more nutrients from the digestion of soybeans.…”

Section: Discussionmentioning

confidence: 99%

Bacterial Communities in Lanna Fermented Soybeans from Three Different Ethnolinguistic Groups in Northern Thailand

et al. 2023

View full text Add to dashboard Cite

Northern Thailand, the main part of the Lanna region, is home to a diverse range of ethnic groups, each with their own food and cultural heritage. The bacterial compositions in fermented soybean (FSB) products indigenous to three Lanna ethnolinguistic groups, including Karen, Lawa, and Shan, were investigated in this study. Bacterial DNA was extracted from the FSB samples and subjected to 16S rRNA gene sequencing using the Illumina sequencing platform. Metagenomic data showed that the predominant bacteria in all FSBs were members of the genus Bacillus (49.5–86.8%), and the Lawa FSB had the greatest bacterial diversity. The presence of genera Ignatzschineria, Yaniella, Atopostipes in the Karen and Lawa FSBs and Proteus in the Shan FSB might be indicators of food hygiene problems during processing. The network analysis predicted antagonistic effects of Bacillus against some indicator and pathogenic bacteria. The functional prediction revealed some potential functional properties of these FSBs. The presence of Bacillus in all FSBs and Vagococcus in the Shan FSB suggests that these FSBs could potentially be good sources of beneficial bacteria, and they should be conserved and promoted for health and food security reasons. However, food processing hygiene measures should be introduced and monitored to warrant their properties as health foods.

show abstract

Section: Discussionmentioning

confidence: 99%

Bacterial Communities in Lanna Fermented Soybeans from Three Different Ethnolinguistic Groups in Northern Thailand

et al. 2023

View full text Add to dashboard Cite

show abstract

“…The fact that G3P can dock in two different orientations is of interest, as it would explain the occasionally observed lower stereospecificity of aldolases for this carbon (Marsden et al 2020 , 2021 ). This relaxed stereospecificity at the same time seems to be the functional basis of epimerase UxaE from Cohnella laeviribosi (Choi et al 2020 ). This enzyme utilizes Zn(II) and similar divalent metals such as Mn(II) as cofactor and the proposed mechanism makes use of the relaxed docking of the aldehyde, such as in Hp FBAP.…”

Section: Class II Dhap-dependent Aldolasesmentioning

confidence: 95%

“…(C) Full view of overlay of PDB-ID 1DOS, 5GK3, and 5GK4. The high flexibility of the loops Cys176 to Leu195 and Gly223 to Val234 causes them to be ill-defined seems to be the functional basis of epimerase UxaE from Cohnella laeviribosi (Choi et al 2020). This enzyme utilizes Zn(II) and similar divalent metals such as Mn(II) as cofactor and the proposed mechanism makes use of the relaxed docking of the aldehyde, such as in HpFBAP.…”

Section: Class II Dhap-dependent Aldolasesmentioning

confidence: 99%

The metal cofactor: stationary or mobile?

Hagedoorn,

Pabst,

Hanefeld

2024

Appl Microbiol Biotechnol

View full text Add to dashboard Cite

Metal cofactors are essential for catalysis and enable countless conversions in nature. Interestingly, the metal cofactor is not always static but mobile with movements of more than 4 Å. These movements of the metal can have different functions. In the case of the xylose isomerase and medium-chain dehydrogenases, it clearly serves a catalytic purpose. The metal cofactor moves during substrate activation and even during the catalytic turnover. On the other hand, in class II aldolases, the enzymes display resting states and active states depending on the movement of the catalytic metal cofactor. This movement is caused by substrate docking, causing the metal cofactor to take the position essential for catalysis. As these metal movements are found in structurally and mechanistically unrelated enzymes, it has to be expected that this metal movement is more common than currently perceived. Key points • Metal ions are essential cofactors that can move during catalysis. • In class II aldolases, the metal cofactors can reside in a resting state and an active state. • In MDR, the movement of the metal cofactor is essential for substrate docking. Graphical abstract

show abstract

Efficient conversion of xylan to l-arabinose by multi-enzymatic cascade reaction including d-xylulose 4-epimerase as a new stereoselectivity-exchange enzyme

Lee,

Shin,

2024

Bioresource Technology

View full text Add to dashboard Cite

Fructuronate-tagaturonate epimerase UxaE from Cohnella laeviribosi has a versatile TIM-barrel scaffold suitable for a sugar metabolizing biocatalyst

Cited by 4 publications

References 29 publications

Bacterial Communities in Lanna Fermented Soybeans from Three Different Ethnolinguistic Groups in Northern Thailand

Bacterial Communities in Lanna Fermented Soybeans from Three Different Ethnolinguistic Groups in Northern Thailand

The metal cofactor: stationary or mobile?

Efficient conversion of xylan to l-arabinose by multi-enzymatic cascade reaction including d-xylulose 4-epimerase as a new stereoselectivity-exchange enzyme

Contact Info

Product

Resources

About