Pramanik K, Mandal NC. Structural heterogeneity assessment among the isoforms of fungal 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase: a comparative in silico perspective.
JOURNAL OF GENETIC ENGINEERING AND BIOTECHNOLOGY 2022;
20:18. [PMID:
35103879 PMCID:
PMC8807812 DOI:
10.1186/s43141-021-00294-0]
[Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/25/2021] [Accepted: 12/23/2021] [Indexed: 11/25/2022]
Abstract
Background
The primary amino acid sequence of a protein is a translated version from its gene sequence which carries important messages and information concealed therein. The present study unveils the structure-function and evolutionary aspects of 1-aminocyclopropane-1-carboxylic acid deaminase (ACCD) proteins of fungal origin. ACCD, an important plant growth-promoting microbial enzyme, is less frequent in fungi compared to bacteria. Hence, an inclusive understanding of fungal ACC deaminases (fACCD) has brought forth here.
Results
In silico investigation of 40 fACCD proteins recovered from NCBI database reveals that fACCD are prevalent in Colletotrichum (25%), Fusarium (15%), and Trichoderma (10%). The fACCD were found 16.18–82.47 kDa proteins having 149–750 amino acid residues. The enzyme activity would be optimum in a wide range of pH having isoelectric points 4.76–10.06. Higher aliphatic indices (81.49–100.13) and instability indices > 40 indicated the thermostability nature. The secondary structural analysis further validates the stability owing to higher α-helices. Built tertiary protein models designated as ACCNK1–ACCNK40 have been deposited in the PMDB with accessions PM0083418–39 and PM0083476–93. All proteins were found as homo-dimer except ACCNK13, a homo-tetramer.
Conclusions
Hence, these anticipated features would facilitate to explore and identify novel variants of fungal ACCD in vitro aiming to industrial-scale applications.
Supplementary Information
The online version contains supplementary material available at 10.1186/s43141-021-00294-0.
• First comprehensive in silico annotation of fungal ACC deaminases (fACCD).
• Colletotrichum, Fusarium, and Trichoderma are predominant to possess fACCD.
• fACCD are 16.18–82.47 kDa proteins with optimal pH between 4.76 and 10.06.
• Majority are thermostable with higher aliphatic indices and instability indices < 40.
• fACCD are found as homo-dimer except ACCNK13, a homo-tetramer.
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