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Издатель : Taylor & Francis ✕Ученые : Yılmaz KAYA ✕
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Тематический рубрикатор [35]
Yrd. Doç. Dr. Yılmaz KAYAFen Fakültesi
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Comparative modeling and enzymatic affinity of novel haloacid dehalogenase from Bacillus megaterium strain BHS1 isolated from alkaline Blue Lake in Turkey

Yılmaz KAYA

This study presents the initial structural model of L-haloacid dehalogenase (DehLBHS1) from Bacillus megaterium BHS1, an alkalotolerant bacterium known for its ability to degrade halogenated environmental pollutants. The model provides insights into the structural features of DehLBHS1 and expands our understanding of the enzymatic mechanisms involved in the degradation of these hazardous pollutants. Key amino acid residues (Arg40, Phe59, Asn118, Asn176, and Trp178) in DehLBHS1 were identified to play critical roles in catalysis and molecular recognition of haloalkanoic acid, essential for effi ...Более

Статья 2023 Fen Fakültesi Journal of Biomolecular Structure and Dynamics42 ( 3 ) 54 Просмотры
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A 2,2-dichloropropionic acid-degrading novel Pseudomonas fluorescence strain fatsa001: isolation, identification, and characterization

Gülbübü KURMANBEKOVA | Yılmaz KAYA

There are mounting concerns over the high concentrations of non-biogenic, toxic halogenated organic compounds being liberated into the ecosystem. Therefore, this study’s isolation of a novel bacterium from a contaminated stream in Fatsa, Ordu, Turkey, adept in degrading 2,2-dichloropropionic (of 2,2-DCP) is a welcome endeavor. The ability of the bacterial isolate to utilize 2,2-DCP as the sole carbon and energy source was discovered when the bacterium was observed to grow well on liquid minimal media containing 20 mM of 2,2-DCP, showing a doubling time of 14.2 h. The following genetic and bioc ...Более

Статья 2024 Fen Fakültesi Bioremediation Journal ( Published online: 27 Feb 2024 ) 5 Просмотры
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Cotton Biotechnology: An Efficient Gene Transfer Protocol via Agrobacterium tumefaciens for a Greater Transgenic Recovery

İbrahim İlker ÖZYİĞİT | Yılmaz KAYA

Due to its economic worth, cotton (Gossypium hirsutum L.) is grown in almost 70 countries and provides income for more than 250 million people. Therefore, producing cotton with having some desired characteristics that includes extended biotic and abiotic stress tolerance, improved fiber quality, promoted nutritional content and increased yield is the main objective for cotton biotechnology. To achieve this goal, many tissue culture and gene transfer techniques are being developed and used throughout the years. As applications for the gene transfer, the Agrobacterium-mediated, particle bombardm ...Более

Обзор 2022 Fen Fakültesi Journal of Natural Fibers19 ( 15 ) 115 Просмотры
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Biodegradation of 3-chloropropionic acid (3-CP) by Bacillus cereus WH2 and its in silico enzyme-substrate docking analysis

Yılmaz KAYA

KeyWords Plus:ALPHA-HALOALKANOIC ACID; DEHALOGENASE; DEGRADATION

Письмо 2019 Fen Fakültesi Journal of Biomolecular Structure and Dynamics38 ( 11 ) 136 Просмотры
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Haloadaptation: insights from comparative modeling studies between halotolerant and non-halotolerant dehalogenases

Yılmaz KAYA

Halophiles are extremophilic microorganisms that grow optimally at high salt concentrations by producing a myriad of equally halotolerant enzymes. Structural haloadaptation of these enzymes adept to thriving under high-salt environments, though are not fully understood. Herein, the study attempts an in silico investigation to identify and comprehend the evolutionary structural adaptation of a halotolerant dehalogenase, DehHX (GenBank accession number: KR297065) of the halotolerant Pseudomonas halophila, over its non-halotolerant counterpart, DehMX1 (GenBank accession number KY129692) produced ...Более

Статья 2019 Fen Fakültesi Journal of Biomolecular Structure and Dynamics38 ( 12 ) 113 Просмотры
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Substrate docking and molecular dynamic simulation for prediction of fungal enzymes from Trichoderma species-assisted extraction of nanocellulose from oil palm leaves

Yılmaz KAYA

Fungi of the Trichoderma species are valued industrial enzymes in support of the

Статья 2019 Fen Fakültesi Journal of Biomolecular Structure and Dynamics38 ( 14 ) 132 Просмотры
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Functional profiling of bacterial communities in Lake Tuz using 16S rRNA gene sequences

Yılmaz KAYA

The 16S rRNA amplicon sequencing technique is a key aspect of studies of microbial communities but does not provide direct evidence of a community

Статья 2021 Fen Fakültesi Biotechnology and Biotechnological Equipment35 ( 1 ) 158 Просмотры
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Molecular docking and molecular dynamics simulations studies on beta-glucosidase and xylanase Trichoderma asperellum to predict degradation order of cellulosic components in oil palm leaves for nanocellulose preparation

Yılmaz KAYA

Literature has shown that oil palm leaves (OPL) can be transformed into nanocellulose (NC) by fungal lignocellulosic enzymes, particularly those produced by the Trichoderma species. However, mechanism of beta-glucosidase and xylanase selectivity to degrade lignin, hemicellulose and cellulose in OPL for NC production remains relatively vague. The study aimed to comprehend this aspect by an in silico approach of molecular docking, molecular dynamics (MD) simulation and Molecular-mechanics Poisson-Boltzmann surface area (MM-PBSA) analysis, to compare interactions between the beta-glucosidase- and ...Более

Статья 2020 Fen Fakültesi Journal of Biomolecular Structure and Dynamics39 ( 7 ) 77 Просмотры
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