UPF0758 protein YfjY is a putative DNA repair protein homologue of the RadC protein family, as identified in a study by [1]. This protein shares 40% sequence identity with a hypothetical protein encoded by Smu18B in Escherichia coli [2]. The functional classification of proteins and protein variants by Lau & Chasman [3] suggests that proteins with diverse functions may exist in various contexts, indicating the potential for diverse functions for YfjY. Predicting protein function is crucial for understanding cellular processes, as highlighted by [4]. Furthermore, the study by Kolker et al. [5] emphasizes the importance of improving functional annotations for hypothetical proteins. Protein function prediction can be inferred by matching the inter-genomic profiles of the unknown protein to those that are known, as mentioned by [6]. Additionally, structure is a useful indicator of function, as most known protein folds are associated with a particular function or functional milieu, as discussed by [7].
References:
[1] H. Yang, E. Wolff, M. Kim, A. Diep, & J. Miller, "Identification of mutator genes and mutational pathways in escherichia coli using a multicopy cloning approach", Molecular Microbiology, vol. 53, no. 1, p. 283-295, 2004. https://doi.org/10.1111/j.1365-2958.2004.04125.x
[2] H. Yang, K. To, S. Aguila, & J. Miller, "Metagenomic dna fragments that affect escherichia coli mutational pathways", Molecular Microbiology, vol. 61, no. 4, p. 960-977, 2006. https://doi.org/10.1111/j.1365-2958.2006.05268.x
[3] A. Lau and D. Chasman, "Functional classification of proteins and protein variants", Proceedings of the National Academy of Sciences, vol. 101, no. 17, p. 6576-6581, 2004. https://doi.org/10.1073/pnas.0305043101
[4] R. Higdon, B. Louie, & E. Kolker, "Modeling sequence and function similarity between proteins for protein functional annotation",, 2010. https://doi.org/10.1145/1851476.1851548
[5] E. Kolker, A. Picone, M. Galperin, M. Romine, R. Higdon, K. Makarovaet al., "Global profiling of shewanella oneidensis mr-1: expression of hypothetical genes and improved functional annotations", Proceedings of the National Academy of Sciences, vol. 102, no. 6, p. 2099-2104, 2005. https://doi.org/10.1073/pnas.0409111102
[6] I. Friedberg, "Automated protein function prediction--the genomic challenge", Briefings in Bioinformatics, vol. 7, no. 3, p. 225-242, 2006. https://doi.org/10.1093/bib/bbl004
[7] R. Sleator, "Prediction of protein functions",, p. 15-24, 2011. https://doi.org/10.1007/978-1-61779-424-7_2
