8FTT

Crystal structure of a glycosylase specific nanobody

8FTT の概要

• エントリーDOI: 10.2210/pdb8ftt/pdb
• 分子名称: Anti-NEIL1 Nanobody, SULFATE ION (3 entities in total)
• 機能のキーワード: endonuclease viii-like 1, nanobody, vhh, pseudomerahedral twin, protein binding
• 由来する生物種: synthetic construct
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 59261.01

構造登録者

Thompson, M.K.,Prakash, A. (登録日: 2023-01-13, 公開日: 2023-10-11, 最終更新日: 2025-03-19)

主引用文献

Thompson, M.K.,Sharma, N.,Thorn, A.,Prakash, A.
Deciphering the crystal structure of a novel nanobody against the NEIL1 DNA glycosylase.
Acta Crystallogr D Struct Biol, 80:137-146, 2024

PubMed Abstract: Nanobodies (VHHs) are single-domain antibodies with three antigenic CDR regions and are used in diverse scientific applications. Here, an ∼14 kDa nanobody (A5) specific for the endonuclease VIII (Nei)-like 1 or NEIL1 DNA glycosylase involved in the first step of the base-excision repair pathway was crystallized and its structure was determined to 2.1 Å resolution. The crystals posed challenges due to potential twinning and anisotropic diffraction. Despite inconclusive twinning indicators, reprocessing in an orthorhombic setting and molecular replacement in space group P222 enabled the successful modeling of 96% of residues in the asymmetric unit, with final R and R values of 0.199 and 0.229, respectively.

PubMed: 38289715
DOI: 10.1107/S205979832400038X

実験手法

X-RAY DIFFRACTION (2.08 Å)