Departamento de Ingeniería Genética, Centro de Investigación y de Estudios Avanzados del IPN, Unidad Irapuato, Irapuato, Gto., México.
Biotecnología Vegetal, Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, México.
PLoS One. 2018 Aug 31;13(8):e0203442. doi: 10.1371/journal.pone.0203442. eCollection 2018.
E3 ubiquitin ligases of the ubiquitin proteasome system (UPS) mediate recognition of substrates and later transfer the ubiquitin (Ub). They are the most expanded components of the system. The Really Interesting New Gene (RING) domain contains 40-60 residues that are highly represented among E3 ubiquitin ligases. The Arabidopsis thaliana E3 ubiquitin ligases with a RING finger primarily contain RING-HC or RING-H2 type domains or less frequently RING-v, RING-C2, RING-D, RING-S/T and RING-G type domains. Our previous work on three E3 ubiquitin ligase families with a RING-H2 type domain, ATL, BTL, and CTL, suggested that a phylogenetic distribution based on the RING domain allowed for the creation a catalog of known domains or unknown conserved motifs. This work provided a useful and comprehensive view of particular families of RING E3 ubiquitin ligases. We updated the annotation of A. thaliana RING proteins and surveyed RING proteins from 30 species across eukaryotes. Based on domain architecture profile of the A. thaliana proteins, we catalogued 4711 RING finger proteins into 107 groups, including 66 previously described gene families or single genes and 36 novel families or undescribed genes. Forty-four groups were specific to a plant lineage while 41 groups consisted of proteins found in all eukaryotic species. Our present study updates the current classification of plant RING finger proteins and reiterates the importance of these proteins in plant growth and adaptation.
泛素蛋白酶体系统 (UPS) 的 E3 泛素连接酶介导底物的识别，随后转移泛素 (Ub)。它们是该系统中扩展最多的成分。真核生物中发现的 RING 结构域含有 40-60 个氨基酸残基，高度存在于 E3 泛素连接酶中。拟南芥的 RING 指蛋白主要含有 RING-HC 或 RING-H2 型结构域，或者较少情况下含有 RING-v、RING-C2、RING-D、RING-S/T 和 RING-G 型结构域。我们之前对具有 RING-H2 型结构域的三个 E3 泛素连接酶家族（ATL、BTL 和 CTL）的研究表明，基于 RING 结构域的系统发育分布允许创建已知结构域或未知保守基序的目录。这项工作提供了对 RING E3 泛素连接酶特定家族的有用而全面的了解。我们更新了拟南芥 RING 蛋白的注释，并调查了来自真核生物 30 个物种的 RING 蛋白。基于拟南芥蛋白的结构域架构概况，我们将 4711 个 RING 指蛋白分类为 107 个组，包括 66 个先前描述的基因家族或单个基因和 36 个新家族或未描述的基因。44 个组是植物谱系特有的，而 41 个组由所有真核生物物种中发现的蛋白质组成。我们目前的研究更新了植物 RING 指蛋白的现行分类，再次强调了这些蛋白在植物生长和适应中的重要性。
