Characterization of PAS domains in Frankia and selected Actinobacteria and their possible interaction with other co-domains for environmental adaptation

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• 作者：Indrani Sarkar ; Philippe Normand ; Louis S. Tisa ; Maher Gtari ; Asim Bothra…
• 刊名：Symbiosis
• 出版年：2016
• 出版时间：November 2016
• 年：2016
• 卷：70
• 期：1-3
• 页码：69-78
• 全文大小：829 KB
• 刊物主题：Evolutionary Biology; Developmental Biology; Microbiology; Plant Sciences; Ecology;
• 出版者：Springer Netherlands
• ISSN：1878-7665
• 卷排序：70

文摘

Functional domains are semi-autonomous parts of proteins. The Per-Arnt-Sim (PAS) domain functions as signal-sensor in two-component systems of several bacteria. This domain exhibits large sequence diversity and is linked to other co-domains to modulate their function. In the present study, we analyzed the PAS domains found in the proteomes of several actinobacteria representing a variety of niches. PAS-domain containing proteins were identified with the HMMER program and characterized via an in silico approach. In general, the PAS proteins were found to be in the COG T (signal transduction) category implying their role was indeed in signal transduction. Most of the PAS proteins were found to be structurally conserved and moderately expressed. However, they showed a strong bias towards the lagging strand which may be a result of their involvement in adaptive evolution. A structure based phylogenetic analysis showed that PAS domains with similar interacting co-domains grouped together in a cluster irrespective of the bacterial genus from which they were identified. Thus, we may say that the association of PAS with its co-domains is based upon the PAS domain structure and not on the sequence.KeywordsSignal transductionCo-domainStructure-based phylogenyDomain-domain interactionBiological network