Biomedical Informatics Centre, ICMR-National Institute for Research in Reproductive and Child Health, Mumbai 400012, Maharashtra, India.
Department of Bioinformatics, Guru Nanak Khalsa College, Nathalal Parekh Marg, Matunga, Mumbai 400019, Maharashtra, India.
Nucleic Acids Res. 2023 Jan 6;51(D1):D377-D383. doi: 10.1093/nar/gkac933.
There has been an exponential increase in the design of synthetic antimicrobial peptides (AMPs) for its use as novel antibiotics. Synthetic AMPs are substantially enriched in residues with physicochemical properties known to be critical for antimicrobial activity; such as positive charge, hydrophobicity, and higher alpha helical propensity. The current prediction algorithms for AMPs have been developed using AMP sequences from natural sources and hence do not perform well for synthetic peptides. In this version of CAMP database, along with updating sequence information of AMPs, we have created separate prediction algorithms for natural and synthetic AMPs. CAMPR4 holds 24243 AMP sequences, 933 structures, 2143 patents and 263 AMP family signatures. In addition to the data on sequences, source organisms, target organisms, minimum inhibitory and hemolytic concentrations, CAMPR4 provides information on N and C terminal modifications and presence of unusual amino acids, as applicable. The database is integrated with tools for AMP prediction and rational design (natural and synthetic AMPs), sequence (BLAST and clustal omega), structure (VAST) and family analysis (PRATT, ScanProsite, CAMPSign). The data along with the algorithms of CAMPR4 will aid to enhance AMP research. CAMPR4 is accessible at http://camp.bicnirrh.res.in/.
人们一直在设计合成抗菌肽（AMPs），将其用作新型抗生素。合成 AMP 在物理化学性质上有很大的优势，这些性质被认为对抗菌活性至关重要，如正电荷、疏水性和更高的α螺旋倾向。目前的 AMP 预测算法是使用天然来源的 AMP 序列开发的，因此对合成肽的性能并不理想。在这个版本的 CAMP 数据库中，除了更新 AMP 序列信息外，我们还为天然和合成 AMP 创建了单独的预测算法。CAMPR4 包含 24243 个 AMP 序列、933 个结构、2143 项专利和 263 个 AMP 家族特征。除了序列、来源生物、目标生物、最小抑菌和溶血浓度的数据外，CAMPR4 还提供了 N 和 C 末端修饰和存在异常氨基酸的信息，如适用。该数据库与 AMP 预测和合理设计（天然和合成 AMP）、序列（BLAST 和 clustal omega）、结构（VAST）和家族分析（PRATT、ScanProsite、CAMPSign）的工具集成在一起。CAMPR4 的数据和算法将有助于增强 AMP 研究。CAMPR4 可在 http://camp.bicnirrh.res.in/ 访问。
