5HTX

Putative sugar kinases from Arabidopsis thaliana in complex with ADP

5HTX の概要

• エントリーDOI: 10.2210/pdb5htx/pdb
• 関連するPDBエントリー: 5HTJ 5HTN 5HTP 5HTR 5HTV 5HTY 5HU2 5HUX 5HV7
• 分子名称: Putative xylulose kinase, ADENOSINE-5'-DIPHOSPHATE (3 entities in total)
• 機能のキーワード: putative sugar kinases, arabidopsis thaliana, adp, transferase
• 由来する生物種: Arabidopsis thaliana (Mouse-ear cress)
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 48184.13

構造登録者

Xie, Y.,Li, M.,Chang, W. (登録日: 2016-01-27, 公開日: 2016-06-08, 最終更新日: 2024-03-20)

主引用文献

Xie, Y.,Li, M.,Chang, W.
Crystal Structures of Putative Sugar Kinases from Synechococcus Elongatus PCC 7942 and Arabidopsis Thaliana
Plos One, 11:e0156067-e0156067, 2016

PubMed Abstract: The genome of the Synechococcus elongatus strain PCC 7942 encodes a putative sugar kinase (SePSK), which shares 44.9% sequence identity with the xylulose kinase-1 (AtXK-1) from Arabidopsis thaliana. Sequence alignment suggests that both kinases belong to the ribulokinase-like carbohydrate kinases, a sub-family of FGGY family carbohydrate kinases. However, their exact physiological function and real substrates remain unknown. Here we solved the structures of SePSK and AtXK-1 in both their apo forms and in complex with nucleotide substrates. The two kinases exhibit nearly identical overall architecture, with both kinases possessing ATP hydrolysis activity in the absence of substrates. In addition, our enzymatic assays suggested that SePSK has the capability to phosphorylate D-ribulose. In order to understand the catalytic mechanism of SePSK, we solved the structure of SePSK in complex with D-ribulose and found two potential substrate binding pockets in SePSK. Using mutation and activity analysis, we further verified the key residues important for its catalytic activity. Moreover, our structural comparison with other family members suggests that there are major conformational changes in SePSK upon substrate binding, facilitating the catalytic process. Together, these results provide important information for a more detailed understanding of the cofactor and substrate binding mode as well as the catalytic mechanism of SePSK, and possible similarities with its plant homologue AtXK-1.

PubMed: 27223615
DOI: 10.1371/journal.pone.0156067

実験手法

X-RAY DIFFRACTION (1.492 Å)