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Acta Biochimica Polonica
Article . 2014 . Peer-reviewed
Data sources: Crossref
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https://dx.doi.org/10.60692/44...
Other literature type . 2014
Data sources: Datacite
https://dx.doi.org/10.60692/rr...
Other literature type . 2014
Data sources: Datacite
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Characterisation and molecular dynamic simulations of J15 asparaginase from Photobacterium sp. strain J15.

توصيف ومحاكاة الديناميكية الجزيئية للأسباراجيناز J15 من سلالة Photobacterium sp. J15.
Authors: Mohd Adilin Yaacob; Wan Zuha Wan Hasan; Mohd Shukuri Mohamad Ali; Raja Noor Zaliha Raja Abdul Rahman; Abu Bakar Salleh; Mahiran Basri; Thean Chor Leow;

Characterisation and molecular dynamic simulations of J15 asparaginase from Photobacterium sp. strain J15.

Abstract

Genome mining revealed a 1011 nucleotide-long fragment encoding a type I L-asparaginase (J15 asparaginase) from the halo-tolerant Photobacterium sp. strain J15. The gene was overexpressed in pET-32b (+) vector in E. coli strain Rosetta-gami B (DE3) pLysS and purified using two-step chromatographic methods: Ni(2+)-Sepharose affinity chromatography and Q-Sepharose anion exchange chromatography. The final specific activity and yield of the enzyme achieved from these steps were 20 U/mg and 49.2%, respectively. The functional dimeric form of J15-asparaginase was characterised with a molecular weight of ~70 kDa. The optimum temperature and pH were 25°C and pH 7.0, respectively. This protein was stable in the presence of 1 mM Ni(2+) and Mg(2+), but it was inhibited by Mn(2+), Fe(3+) and Zn(2+) at the same concentration. J15 asparaginase actively hydrolysed its native substrate, l-asparagine, but had low activity towards l-glutamine. The melting temperature of J15 asparaginase was ~51°C, which was determined using denatured protein analysis of CD spectra. The Km, Kcat, Kcat/Km of J15 asparaginase were 0.76 mM, 3.2 s(-1), and 4.21 s(-1) mM(-1), respectively. Conformational changes of the J15 asparaginase 3D structure at different temperatures (25°C, 45°C, and 65°C) were analysed using Molecular Dynamic simulations. From the analysis, residues Tyr₂₄ , His₂₂, Gly₂₃, Val₂₅ and Pro₂₆ may be directly involved in the 'open' and 'closed' lid-loop conformation, facilitating the conversion of substrates during enzymatic reactions. The properties of J15 asparaginase, which can work at physiological pH and has low glutaminase activity, suggest that this could be a good candidate for reducing toxic effects during cancer treatment.

Country
Malaysia
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Keywords

Molecular Dynamics Simulation, Affinity chromatography, Biochemistry, Molecular Mechanisms of Photosynthesis and Photoprotection, Photosynthetic Acclimation, Bacterial Proteins, Rheumatology, Stereochemistry, Biochemistry, Genetics and Molecular Biology, Health Sciences, Asparaginase, Molecular Biology, Biology, Ecology, Photobacterium, Active site, Sepharose, Enzyme kinetics, 500, Life Sciences, Role of Homocysteine in Health and Disease, Nucleotide Metabolism and Enzyme Regulation, Chemistry, Enzyme, FOS: Biological sciences, Medicine, Asparagine, Substrate (aquarium)

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
20
Top 10%
Top 10%
Top 10%
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