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International journal of molecular sciences
Feb 05, 2023;24 (4):

Thinking on the Construction of Antimicrobial Peptide Databases: Powerful Tools for the Molecular Design and Screening.

Kun Zhang, Da Teng, Ruoyu Mao, Na Yang, Ya Hao, Jianhua Wang
Author Information
  1. Kun Zhang: Gene Engineering Laboratory, Feed Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
  2. Da Teng: Gene Engineering Laboratory, Feed Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
  3. Ruoyu Mao: Gene Engineering Laboratory, Feed Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
  4. Na Yang: Gene Engineering Laboratory, Feed Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
  5. Ya Hao: Gene Engineering Laboratory, Feed Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China.
  6. Jianhua Wang: Gene Engineering Laboratory, Feed Research Institute, Chinese Academy of Agricultural Sciences, Beijing 100081, China. ORCID
PMID: 36834553 DOI: 10.3390/ijms24043134

Abstract

With the accelerating growth of antimicrobial resistance (AMR), there is an urgent need for new antimicrobial agents with low or no AMR. Antimicrobial peptides (AMPs) have been extensively studied as alternatives to antibiotics (ATAs). Coupled with the new generation of high-throughput technology for AMP mining, the number of derivatives has increased dramatically, but manual running is time-consuming and laborious. Therefore, it is necessary to establish databases that combine computer algorithms to summarize, analyze, and design new AMPs. A number of AMP databases have already been established, such as the Antimicrobial Peptides Database (APD), the Collection of Antimicrobial Peptides (CAMP), the Database of Antimicrobial Activity and Structure of Peptides (DBAASP), and the Database of Antimicrobial Peptides (dbAMPs). These four AMP databases are comprehensive and are widely used. This review aims to cover the construction, evolution, characteristic function, prediction, and design of these four AMP databases. It also offers ideas for the improvement and application of these databases based on merging the various advantages of these four peptide libraries. This review promotes research and development into new AMPs and lays their foundation in the fields of druggability and clinical precision treatment.

Keywords

antimicrobial peptides characteristic function databases screening model

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Grants

  1. 31872393/National Natural Science Foundation of China
  2. CAAS-ASTIP-2017-FRI-02/Innovation Program of Agricultural Science and Technology (ASTIP) in CAAS
  3. CAAS-ZDRW202111 and Grant No.CAAS-ZDXT 201808/key projects of Innovation Program of Agricultural Science and Technology (ASTIP) in CAAS

MeSH Term

Antimicrobial Peptides
Anti-Infective Agents
Peptides
Anti-Bacterial Agents
Algorithms

Chemicals

Antimicrobial Peptides
Anti-Infective Agents
Peptides
Anti-Bacterial Agents
Journal Article Review
Article has an altmetric score of 1

Word Cloud

Created with Highcharts 10.0.0AntimicrobialdatabasesnewAMPPeptidesantimicrobialAMPsDatabasefourAMRpeptidesnumberdesignreviewcharacteristicfunctionacceleratinggrowthresistanceurgentneedagentslowextensivelystudiedalternativesantibioticsATAsCoupledgenerationhigh-throughputtechnologyminingderivativesincreaseddramaticallymanualrunningtime-consuminglaboriousThereforenecessaryestablishcombinecomputeralgorithmssummarizeanalyzealreadyestablishedAPDCollectionCAMPActivityStructureDBAASPdbAMPscomprehensivewidelyusedaimscoverconstructionevolutionpredictionalsooffersideasimprovementapplicationbasedmergingvariousadvantagespeptidelibrariespromotesresearchdevelopmentlaysfoundationfieldsdruggabilityclinicalprecisiontreatmentThinkingConstructionPeptideDatabases:PowerfulToolsMolecularDesignScreeningscreeningmodel

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