[Structure prediction and biological activity analysis of dybowskin-1ST antimicrobial peptide in Rana dybowskii].

系统发育树 蛋白质二级结构 跨膜结构域 信号肽 等电点 表位 抗菌剂 抗菌肽 生物 肽序列 同源建模 计算生物学 蛋白质三级结构 氨基酸 生物化学 化学
作者
Yue Liu,Xuechao Shao,Wang Tiantian,Xinying Wang,Nan Li,Yundong Zhao,Wei Xia,Liyuan Sun
出处
期刊:Chinese Journal of Biotechnology [Elsevier BV]
卷期号:37 (8): 2890-2902
标识
DOI:10.13345/j.cjb.200564
摘要

The evolution, structure and antigenic epitopes prediction of Rana dybowskii antimicrobial peptide dybowskin-1ST were carried out using bioinformatics software available online. Its antibacterial mechanism and structural properties were analyzed, and its activity was verified by applying wound healing assay in mice and bacteriostatic assay in vitro. This provides the theoretical basis for the improvement of parental peptide and the development of novel derivative peptides. The software MEGA_X were used to conduct homology alignment and to construct a phylogenetic tree. The online software ProtParam, ProtScale, PeptideCutter, signal, TMHMM Server were respectively used to predict the physicochemical parameters, hydrophilia/hydrophobicity, shear sites, signal peptides, and transmembrane domains of dybowskin-1ST. The online software SOPMA, Jpred4, DNAstar Protean were used to predict the secondary structure of dybowskin-1ST, and SWISS-MODEL, I-TASSER were used to predict the tertiary structure. ABCpred and SYFPEITHI were respectively used to predict its B-and T-cell epitopes. The effect of dybowskin-1ST on the wound healing was observed on experimental mice. Kirby-Bauer method and dilution method were used to determine the bacteriostatic activity of dybowskin-1ST. The dybowskin-1ST consists of 59 amino acid residues, of which leucine accounts for 16.9%, with a molecular formula of C₃₁₈H₅₁₀N₈₀O₉₃S₂. Its theoretical isoelectric point is 5.10 and the charge is -2. The dybowskin-1ST and dybowskin-1CDYa are closely related phylogenetically. The secondary structure of dybowskin-1ST predicted by the three methods were similar, which consisted of α-helix (44.07%), extended strand (16.95%), β-turns (3.39%), and random coil (35.39%). The prediction of tertiary structure showed that dybowskin-1ST was mainly composed of α-helix, and it was regarded as a hydrophilic protein with signal peptide sequence. Subcellular localization analysis showed that the probability of secreting the mitochondrial targeted peptides was 0.944. Dybowskin-1ST is an extracellular protein with no transmembrane structure region, but contains seven phosphorylation sites, three T-cell epitopes and eight B-cell epitopes. The dybowskin-1ST promoted wound healing and effectively inhibited the growth of Escherichia coli and Staphylococcus aureus. However, it had limited antibacterial activity against fungi and drug-resistant bacteria. Although the structure of dybowskin-1ST is rich in α-helix, the verification experiments showed that its antibacterial ability needs to be enhanced. The reason may be that it is a negatively charged and hydrophilic protein, and amino acid modification with the aim of increasing the number of positive charges and changing the hydrophobicity may be used to obtain derived peptides with enhanced activity.
最长约 10秒,即可获得该文献文件

科研通智能强力驱动
Strongly Powered by AbleSci AI
更新
PDF的下载单位、IP信息已删除 (2025-6-4)

科研通是完全免费的文献互助平台,具备全网最快的应助速度,最高的求助完成率。 对每一个文献求助,科研通都将尽心尽力,给求助人一个满意的交代。
实时播报
幽默的素阴完成签到 ,获得积分10
2秒前
小小鱼完成签到 ,获得积分10
9秒前
9秒前
甜美砖家完成签到 ,获得积分10
11秒前
superspace完成签到,获得积分10
12秒前
nn发布了新的文献求助10
14秒前
求助完成签到,获得积分10
15秒前
16秒前
翁雁丝完成签到 ,获得积分10
23秒前
郭义敏完成签到,获得积分0
23秒前
gyf完成签到,获得积分10
26秒前
李保龙完成签到 ,获得积分10
27秒前
31秒前
LJJ完成签到 ,获得积分10
32秒前
量子星尘发布了新的文献求助10
35秒前
阿姨洗铁路完成签到 ,获得积分10
40秒前
抹不掉的记忆完成签到,获得积分10
42秒前
42秒前
余杭村王小虎完成签到,获得积分10
43秒前
韭黄完成签到,获得积分20
47秒前
jeffrey完成签到,获得积分10
47秒前
Rondab应助机灵枕头采纳,获得10
53秒前
佳无夜完成签到,获得积分10
58秒前
摆哥完成签到,获得积分10
1分钟前
66完成签到,获得积分10
1分钟前
zlqq完成签到 ,获得积分10
1分钟前
Hardskills发布了新的文献求助10
1分钟前
1分钟前
之_ZH完成签到 ,获得积分10
1分钟前
gds2021完成签到 ,获得积分10
1分钟前
你好呀嘻嘻完成签到 ,获得积分10
1分钟前
梅特卡夫完成签到,获得积分10
1分钟前
熊雅完成签到,获得积分10
1分钟前
1分钟前
睡到自然醒完成签到 ,获得积分10
1分钟前
cis2014完成签到,获得积分10
1分钟前
独特的大有完成签到 ,获得积分10
1分钟前
量子星尘发布了新的文献求助10
1分钟前
1分钟前
xingyi完成签到,获得积分10
1分钟前
高分求助中
【提示信息,请勿应助】关于scihub 10000
Les Mantodea de Guyane: Insecta, Polyneoptera [The Mantids of French Guiana] 3000
徐淮辽南地区新元古代叠层石及生物地层 3000
The Mother of All Tableaux: Order, Equivalence, and Geometry in the Large-scale Structure of Optimality Theory 3000
Handbook of Industrial Diamonds.Vol2 1100
Global Eyelash Assessment scale (GEA) 1000
Picture Books with Same-sex Parented Families: Unintentional Censorship 550
热门求助领域 (近24小时)
化学 材料科学 医学 生物 工程类 有机化学 生物化学 物理 内科学 纳米技术 计算机科学 化学工程 复合材料 遗传学 基因 物理化学 催化作用 冶金 细胞生物学 免疫学
热门帖子
关注 科研通微信公众号,转发送积分 4038112
求助须知:如何正确求助?哪些是违规求助? 3575788
关于积分的说明 11373801
捐赠科研通 3305604
什么是DOI,文献DOI怎么找? 1819255
邀请新用户注册赠送积分活动 892655
科研通“疑难数据库(出版商)”最低求助积分说明 815022