Journal Article

Classification and Expression Analysis of <i>Arabidopsis</i> F-Box-Containing Protein Genes

Hirofumi Kuroda, Naoki Takahashi, Hiroaki Shimada, Motoaki Seki, Kazuo Shinozaki and Minami Matsui

in Plant and Cell Physiology

Published on behalf of Japanese Society of Plant Physiologists

Volume 43, issue 10, pages 1073-1085
Published in print October 2002 | ISSN: 0032-0781
Published online October 2002 | e-ISSN: 1471-9053 | DOI: https://dx.doi.org/10.1093/pcp/pcf151
Classification and Expression Analysis of Arabidopsis F-Box-Containing Protein Genes

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  • Biochemistry
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F-box proteins regulate diverse cellular processes, including cell cycle transition, transcriptional regulation and signal transduction, by playing roles in Skp1p-cullin-F-box protein (SCF) complexes or non-SCF complexes. F-box proteins are encoded by a large gene family. Our database search revealed that at least 568 F-box protein genes are present in the Arabidopsis thaliana (Arabidopsis) genome. Domain search analysis using SMART and Pfam-A databases revealed that 67 of the F-box proteins contained Kelch repeats and 29 contained leucine-rich repeats (LRRs). Interestingly only two F-box proteins contained WD40 repeats that are found in many F-box proteins of other organisms. Kelch repeats, LRRs and WD40 repeats are implicated in protein–protein interactions. This analysis also resulted in the finding of several unique functional domains; however, 448 of the F-box proteins did not contain any known domains. Therefore, these proteins were used to search the Pfam-B database to find novel domains, and three putative ones were found. These domain search analyses led us to classify the Arabidopsis F-box proteins into at least 19 groups based on their domain structures. Macro array analysis showed that several F-box protein genes are expressed in a tissue-specific manner.

Keywords: Keywords: Arabidopsis thaliana — Domain — F-box protein — Gene family — Ubiquitin system.; Abbreviations: ARM, armadillo repeats; CRFA, conserved region of F-box protein A; CRFB, conserved region of F-box protein B; CRFC, conserved region of F-box protein C; HSF, heat shock factor; HLH, helix-loop-helix DNA-binding domain; HELICc, helicase superfamily C-terminal domain; LRRs, leucine-rich repeats; SNF2-N, SNF2 and other N-terminal domains; PPR, pentatricopeptide repeat; RVT, reverse transcriptase; zf-MYND, MYND zinc finger.

Journal Article.  7499 words.  Illustrated.

Subjects: Biochemistry ; Molecular and Cell Biology ; Plant Sciences and Forestry

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