工业微生物2024,Vol.54Issue(1) :171-176.DOI:10.3969/j.issn.1001-6678.2024.01.047

嗜热链球菌c-di-AMP合成酶的结构预测

Analysis of Structural Prediction of c-di-AMP Synthase in Streptococcus thermophilus

范艺周 骆思羽 朱浩伟 薛珍 艾连中 熊智强
工业微生物2024,Vol.54Issue(1) :171-176.DOI:10.3969/j.issn.1001-6678.2024.01.047

嗜热链球菌c-di-AMP合成酶的结构预测

Analysis of Structural Prediction of c-di-AMP Synthase in Streptococcus thermophilus

范艺周 1骆思羽 1朱浩伟 1薛珍 1艾连中 1熊智强1
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作者信息

  • 1. 上海理工大学健康科学与工程学院,上海食品微生物工程技术研究中心,上海 200093
  • 折叠

摘要

作为一种新兴第二信使分子,c-di-AMP具有全局调控胞内渗透压平衡、DNA损伤和生物膜形成等生理功能.本实验室在实验前期筛选出了一株高产胞外多糖的嗜热链球菌菌株S-3,但未对其进行c-di-AMP信号通路研究.本研究在嗜热链球菌S-3 全基因组中筛选出c-di-AMP合成酶(StDAC),对其二级结构进行预测,结果显示StDAC二级结构包含 42.98%α-螺旋、15.32%β-折叠和38.30%无规则卷曲.利用SWISS-MODEL和Modeller对StDAC进行单模板和多模板同源建模,由SWISS-MODEL建立的模型通过了Ramachandran、Errat和Verify-3D评估,表明其结构较为合理;而Modeller建立的模型仅通过了Ramachandran评估,总体结构评分较低.本研究预测的嗜热链球菌StDAC三维模型为解析其结构和功能奠定了基础.

Abstract

c-di-AMP,as an emerging second messenger molecule,has physiological functions such as global regulation of intracellular osmotic pressure balance,DNA damage,and biofilm formation.Our laboratory initially screened a thermophilic Streptococcus strain S-3 with high extracellular polysaccharide production,but lacked research on its c-di-AMP signaling pathway.This study screened the c-di-AMP synthase(StDAC)from the entire genome of Streptococcus thermophilus S-3 and predicted its secondary structure;The results show that the secondary structure of StDAC contains 42.98%α-Spiral,15.32%β-Folding and 38.30%irregular curling.Using SWISS-MODEL and Modeler for single template and multi template homologous modeling of StDAC,the model established by SWISS-MODEL was validated by Ramachandran,Errat,and Verify-3D evaluation indicates that its structure is relatively reasonable;The model established by Modeller was only evaluated by Ramachandran,with a low overall structural score.The predicted three-dimensional model of Streptococcus thermophilus StDAC in this study lays the foundation for analyzing its structure and function.

关键词

嗜热链球菌/c-di-AMP/生物信息学/二级结构/同源建模

Key words

Streptococcus thermophilus/c-di-AMP/bioinformatics/secondary structure/homologous modeling

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基金项目

国家自然科学基金面上项目(32272300)

上海市自然科学基金面上项目(22ZR1444000)

出版年

2024
工业微生物
全国工业微生物信息中心 上海市工业微生物研究所

工业微生物

影响因子:0.293
ISSN:1001-6678
参考文献量23
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