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De-novo Hybrid Protein Design for Biodegradation of Organophosphate Pesticides
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논문 기본 정보

Type
Academic journal
Author
Journal
한국미생물생명공학회 한국미생물·생명공학회지 한국미생물·생명공학회지 제47권 제2호 KCI Accredited Journals
Published
2019.1
Pages
278 - 288 (11page)

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De-novo Hybrid Protein Design for Biodegradation of Organophosphate Pesticides
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Abstract· Keywords

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In the present investigation, we attempted to design a protocol to develop a hybrid protein with better bioremediation capacity. Using in silico approaches, a Hybrid Open Reading Frame (Hybrid ORF) is developed targeting the genes of microorganisms known for degradation of organophosphates. Out of 21 genes identified through BLAST search, 8 structurally similar genes (opdA, opd, opaA, pte RO, pdeA, parC, mpd and phnE) involved in biodegradation were screened. Gene conservational analysis categorizes these organophosphates degrading 8 genes into 4 super families i.e., Metallo-dependent hydrolases, Lactamase B, MPP and TM_PBP2 superfamily. Hybrid protein structure was modeled using multi-template homology modeling (3S07_A; 99%, 1P9E_A; 98%, 2ZO9_B; 33%, 2DXL_A; 33%) by Schrödinger software suit version 10.4.018. Structural verification of protein models was done using Ramachandran plot, it was showing 96.0% residue in the favored region, which was verified using RAMPAGE. The phosphotriesterase protein was showing the highest structural similarity with hybrid protein having raw score 984. The 5 binding sites of hybrid protein were identified through binding site prediction. The docking study shows that hybrid protein potentially interacts with 10 different organophosphates. The study results indicate that the hybrid protein designed has the capability of degrading a wide range of organophosphate compounds.

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References (43)

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Fritsche W / 2005 / Aerobic degradation of recalcitrant organic compounds by microorganisms, Environmental Biotechnology: Concepts and Applications / Wiley-VCH Verlag GmbH & Co :203~227 google schola Kumar C / 2017 / Stability of a mixed microbial population in a biological reactor during long term atrazine degradation under carbon limiting conditions / Int. Biodeterior. Biodegradation 123:311~319 google schola Paul D / 2005 / Accessing microbial diversity for bioremediation and environmental restoration / Trends Biotechnol 23:135~142 google schola Sayler GS / 2000 / Field applications of genetically engineered microorganisms for bioremediation processes / Curr. Opin. Biotechnol 11:286~289 google schola Fujita M / 1991 / Feasibility of wastewater treatment using genetically engineered microorganisms / Water Res 25:979~984 google schola

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