7VXT

Crystal structure of a selenomethionine-labeled BPSL1038 from Burkholderia pseudomallei

7VXT の概要

• エントリーDOI: 10.2210/pdb7vxt/pdb
• 分子名称: BPSL1038, BETA-MERCAPTOETHANOL, SODIUM ION, ... (4 entities in total)
• 機能のキーワード: nuclease, cas2, dsst motif, hydrolase
• 由来する生物種: Burkholderia pseudomallei K96243
• タンパク質・核酸の鎖数: 2
• 化学式量合計: 25050.53

構造登録者

Shaibullah, S.,Mohd-Sharif, M.,Ho, K.L.,Firdaus-Raih, M.,Nathan, S.,Mohamed, R.,Teh, A.K.,Waterman, J.,Ng, C.L. (登録日: 2021-11-13, 公開日: 2023-08-16, 最終更新日: 2023-11-15)

主引用文献

Shaibullah, S.,Shuhaimi, N.,Ker, D.S.,Mohd-Sharif, N.,Ho, K.L.,Teh, A.H.,Waterman, J.,Tang, T.H.,Wong, R.R.,Nathan, S.,Mohamed, R.,Ng, M.J.,Fung, S.Y.,Jonet, M.A.,Firdaus-Raih, M.,Ng, C.L.
Structural and functional analyses of Burkholderia pseudomallei BPSL1038 reveal a Cas-2/VapD nuclease sub-family.
Commun Biol, 6:920-920, 2023

PubMed Abstract: Burkholderia pseudomallei is a highly versatile pathogen with ~25% of its genome annotated to encode hypothetical proteins. One such hypothetical protein, BPSL1038, is conserved across seven bacterial genera and 654 Burkholderia spp. Here, we present a 1.55 Å resolution crystal structure of BPSL1038. The overall structure folded into a modified βαββαβα ferredoxin fold similar to known Cas2 nucleases. The Cas2 equivalent catalytic aspartate (D11) pairs are conserved in BPSL1038 although B. pseudomallei has no known CRISPR associated system. Functional analysis revealed that BPSL1038 is a nuclease with endonuclease activity towards double-stranded DNA. The DNase activity is divalent ion independent and optimum at pH 6. The concentration of monovalent ions (Na and K) is crucial for nuclease activity. An active site with a unique D(X20)SST motif was identified and proposed for BPSL1038 and its orthologs. Structure modelling indicates the catalytic role of the D(X20)SST motif and that the arginine residues R10 and R30 may interact with the nucleic acid backbone. The structural similarity of BPSL1038 to Cas2 proteins suggests that BPSL1038 may represent a sub-family of nucleases that share a common ancestor with Cas2.

PubMed: 37684342
DOI: 10.1038/s42003-023-05265-4

実験手法

X-RAY DIFFRACTION (1.88 Å)