NDLI: Distribution of Protein Superfamilies in the Three Superkingdoms of Life

Content Provider	IEEE Xplore Digital Library
Author	Guan Wei Zou Xian-Wu
Copyright Year	2008
Description	Author affiliation: Dept. Phys., Wuhan Univ. of Sci. & Eng., Wuhan (Guan Wei)
Abstract	The Superfamily database provides structural assignments to protein sequences. This assignment enable us to analyze the distribution of specific superfamilies within and across the genomes. Here, we focus on the distributions of superfamilies in archaeal, bacterial and eukaryotic genomes. The distribution of the most common superfamilies in archaea and bacteria are very similar (6 of the top 10 superfamilies are the same) but distinct in eukaryotes. But there is only p-loop superfamily in the top 10 superfamilies in the three superkingdoms. When the total number of domains in a genome is larger, duplication of the 6 common superfamilies in archaea and bacteria are more but relative abundant distribution is lower. This phenomenon is more obvious in metazoa. The 6 superfamilies occur almost in all discussial completed genomes, and the structures are lined to $^{alpha/beta}$ structural class, and their functions are mainly enzyme. So these superfamilies are important for more genomes, even eukaryote genome, although these superfamilies are not mainly duplicated in eukaryote genomes.
Starting Page	109
Ending Page	112
File Size	833383
Page Count	4
File Format	PDF
ISBN	9781424417476
DOI	10.1109/ICBBE.2008.33
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2008-05-16
Publisher Place	China
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Fungi Protein engineering Microorganisms Animals Genomics Archaea Hidden Markov models Spatial databases Bioinformatics Physics
Content Type	Text
Resource Type	Article

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3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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