Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis

Abstract. Hidayat H, Haryadi W, Raharjo TJ. 2020. Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis. Biodiversitas 21: 3156-3162. This study aimed to characterize the protease encoding gene of Leuconost...

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Autores principales:	Habibi HIdayat, Winarto Haryadi, TRI JOKO RAHARJO
Formato:	article
Lenguaje:	EN
Publicado:	MBI & UNS Solo 2020
Materias:	in silico modeling, kelengkeng, leuconostoc mesenteroides k7, pcr, protease Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/8f3e1ef5852c4866b8ac02fd7ab0bb04
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spelling	oai:doaj.org-article:8f3e1ef5852c4866b8ac02fd7ab0bb042021-11-22T00:40:51ZThree-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis1412-033X2085-472210.13057/biodiv/d210737https://doaj.org/article/8f3e1ef5852c4866b8ac02fd7ab0bb042020-06-01T00:00:00Zhttps://smujo.id/biodiv/article/view/5840https://doaj.org/toc/1412-033Xhttps://doaj.org/toc/2085-4722Abstract. Hidayat H, Haryadi W, Raharjo TJ. 2020. Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis. Biodiversitas 21: 3156-3162. This study aimed to characterize the protease encoding gene of Leuconostoc mesenteroides K7 isolated from Kelengkeng (Dimocarpus longan) fruit as well as to predict the structure of the protein using in silico approach. Gene characterization was performed using PCR employs primers designed based on protease gene of other Leuconostoc species, followed by cloning and sequencing of the PCR product. Protein structural modeling was targeted to the deduced amino acid sequence of the gene employ multiple sequence alignment and SWISS-Model online software. As a result, the sequence of the PCR product contains an open reading frame with a size of 1,140 bp, which can be translated into 379 amino acids. The amino acid sequence shares 98.60% identity with protease from Leuconostoc suionicum (AP017935.1). Three conserved sequences of QTDA, INPGNSGGPL, and FAIP are known as the signature from the Serine endoprotease DegS family are detected. The three-dimensional modeling structure application shows that the protein share similarity of 37.62% to Protease Do-like I chloroplastic that belong to serine protease.Habibi HIdayatWinarto HaryadiTRI JOKO RAHARJOMBI & UNS Soloarticlein silico modeling, kelengkeng, leuconostoc mesenteroides k7, pcr, proteaseBiology (General)QH301-705.5ENBiodiversitas, Vol 21, Iss 7 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	in silico modeling, kelengkeng, leuconostoc mesenteroides k7, pcr, protease Biology (General) QH301-705.5
spellingShingle	in silico modeling, kelengkeng, leuconostoc mesenteroides k7, pcr, protease Biology (General) QH301-705.5 Habibi HIdayat Winarto Haryadi TRI JOKO RAHARJO Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis
description	Abstract. Hidayat H, Haryadi W, Raharjo TJ. 2020. Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis. Biodiversitas 21: 3156-3162. This study aimed to characterize the protease encoding gene of Leuconostoc mesenteroides K7 isolated from Kelengkeng (Dimocarpus longan) fruit as well as to predict the structure of the protein using in silico approach. Gene characterization was performed using PCR employs primers designed based on protease gene of other Leuconostoc species, followed by cloning and sequencing of the PCR product. Protein structural modeling was targeted to the deduced amino acid sequence of the gene employ multiple sequence alignment and SWISS-Model online software. As a result, the sequence of the PCR product contains an open reading frame with a size of 1,140 bp, which can be translated into 379 amino acids. The amino acid sequence shares 98.60% identity with protease from Leuconostoc suionicum (AP017935.1). Three conserved sequences of QTDA, INPGNSGGPL, and FAIP are known as the signature from the Serine endoprotease DegS family are detected. The three-dimensional modeling structure application shows that the protein share similarity of 37.62% to Protease Do-like I chloroplastic that belong to serine protease.
format	article
author	Habibi HIdayat Winarto Haryadi TRI JOKO RAHARJO
author_facet	Habibi HIdayat Winarto Haryadi TRI JOKO RAHARJO
author_sort	Habibi HIdayat
title	Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis
title_short	Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis
title_full	Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis
title_fullStr	Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis
title_full_unstemmed	Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis
title_sort	three-dimensional structure modeling of a protease from lactic acid bacteria leuconostoc mesenteroides k7 using automated protein homology analysis
publisher	MBI & UNS Solo
publishDate	2020
url	https://doaj.org/article/8f3e1ef5852c4866b8ac02fd7ab0bb04
work_keys_str_mv	AT habibihidayat threedimensionalstructuremodelingofaproteasefromlacticacidbacterialeuconostocmesenteroidesk7usingautomatedproteinhomologyanalysis AT winartoharyadi threedimensionalstructuremodelingofaproteasefromlacticacidbacterialeuconostocmesenteroidesk7usingautomatedproteinhomologyanalysis AT trijokoraharjo threedimensionalstructuremodelingofaproteasefromlacticacidbacterialeuconostocmesenteroidesk7usingautomatedproteinhomologyanalysis
_version_	1718418537132851200

Three-dimensional structure modeling of a protease from lactic acid bacteria Leuconostoc mesenteroides K7 using automated protein homology analysis

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