9p55

Structure of DNA-free long form XPD from Thermoplasma acidophilum

spinqualitylabelsall models 9p55, resolution 2.13Å Show:Asymmetric Unit Biological Assembly Drag the structure with the mouse to rotate   Export Animated Image   Print3D Structural highlights 9p55 is a 1 chain structure with sequence from Thermoplasma acidophilum DSM 1728. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance. Method: X-ray diffraction, Resolution 2.127Å Ligands: CL Resources: FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT Function XPD_THEAC ATP-dependent 5'-3' DNA helicase involved in nucleotide excision repair (NER) of DNA (By similarity). Publication Abstract from PubMed The XPD helicase plays a critical role in DNA repair and serves as a model for structural studies of superfamily 2 (SF2) helicases. We report a novel orthorhombic crystal form of DNA-free Thermoplasma acidophilum XPD (TaXPD) obtained under high ionic strength conditions generated by sodium potassium tartrate and NaCl-based vapor-diffusion conditions, in contrast to earlier previously reported conditions that used polyols (PEG) or diols (MPD). The crystals belonged to space group P2(1)2(1)2(1) (a = 59.53, b = 96.00, c = 159.09 A) and diffracted to 2.13 A resolution, yielding the highest resolution TaXPD structure to date. Structural analysis showed that this crystal form contains fewer intermolecular interfaces than the previously reported hexagonal lattice, as supported by Protein Interfaces, Surfaces and Assemblies (PISA) analysis. This supports the determination of the 510-514 loop in the long-form DNA-free TaXPD, which was previously disordered in other structures. This work highlights how crystallization conditions influence lattice organization, structural completeness and diffraction quality. In this structure, Tyr425 adopts a conformation that may regulate DNA access in the DNA-free state. A new crystal form of the DNA-free full-length XPD helicase from Thermoplasma acidophilum.,Bravo M, Fan L Acta Crystallogr F Struct Biol Commun. 2026 Feb 1;82(Pt 2):42-48. doi: , 10.1107/S2053230X26000105. Epub 2026 Jan 13. PMID:41528811 From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

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