8FTT
Crystal structure of a glycosylase specific nanobody
Summary for 8FTT
| Entry DOI | 10.2210/pdb8ftt/pdb |
| Descriptor | Anti-NEIL1 Nanobody, SULFATE ION (3 entities in total) |
| Functional Keywords | endonuclease viii-like 1, nanobody, vhh, pseudomerahedral twin, protein binding |
| Biological source | synthetic construct |
| Total number of polymer chains | 4 |
| Total formula weight | 59261.01 |
| Authors | Thompson, M.K.,Prakash, A. (deposition date: 2023-01-13, release date: 2023-10-11, Last modification date: 2025-03-19) |
| Primary citation | 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 Cited by 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: 38289715DOI: 10.1107/S205979832400038X PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.08 Å) |
Structure validation
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