6QBJ

Structure determination of transmembrane- C-terminal fragment of UL49.5 protein from bovine herpesvirus 1 by NMR spectroscopy and molecular dynamics

Summary for 6QBJ

• Entry DOI: 10.2210/pdb6qbj/pdb
• NMR Information: BMRB: 27730
• Descriptor: Envelope glycoprotein N (1 entity in total)
• Functional Keywords: bovine herpesvirus 1 (bhv-1), ul49.5 viral protein, transmembrane protein, viral protein
• Biological source: Bovine alphaherpesvirus 1
• Total number of polymer chains: 1
• Total formula weight: 4215.98

Authors

Karska, N.,Rodziewicz-Motowidlo, S. (deposition date: 2018-12-21, release date: 2019-02-27, Last modification date: 2023-11-15)

Primary citation

Karska, N.,Graul, M.,Sikorska, E.,Zhukov, I.,Slusarz, M.J.,Kasprzykowski, F.,Lipinska, A.D.,Rodziewicz-Motowidlo, S.
Structure determination of UL49.5 transmembrane protein from bovine herpesvirus 1 by NMR spectroscopy and molecular dynamics.
Biochim Biophys Acta Biomembr, 1861:926-938, 2019

PubMed Abstract: The transporter associated with antigen processing (TAP) directly participates in the immune response as a key component of the cytosolic peptide to major histocompatibility complex (MHC) class I protein loading machinery. This makes TAP an important target for viruses avoiding recognition by CD8+ T lymphocytes. Its activity can be suppressed by the UL49.5 protein produced by bovine herpesvirus 1, although the mechanism of this inhibition has not been understood so far. Therefore, the main goal of our study was to investigate the 3D structure of bovine herpesvirus 1 - encoded UL49.5 protein. The final structure of the inhibitor was established using circular dichroism (CD), 2D nuclear magnetic resonance (NMR), and molecular dynamics (MD) in membrane mimetic environments. In NMR studies, UL49.5 was represented by two fragments: the extracellular region (residues 1-35) and the transmembrane-intracellular fragment (residues 36-75), displaying various functions during viral invasion. After the empirical structure determination, a molecular docking procedure was used to predict the complex of UL49.5 with the TAP heterodimer. Our results revealed that UL49.5 adopted a highly flexible membrane-proximal helical structure in the extracellular part. In the transmembrane region, we observed two short α-helices. Furthermore, the cytoplasmic part had an unordered structure. Finally, we propose three different orientations of UL49.5 in the complex with TAP. Our studies provide, for the first time, the experimental structural information on UL49.5 and structure-based insight in its mechanism of action which might be helpful in designing new drugs against viral infections.

PubMed: 30772281
DOI: 10.1016/j.bbamem.2019.02.005

Experimental method

SOLUTION NMR