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6qan

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Revision as of 11:00, 14 June 2023

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

Structural highlights

6qan is a 1 chain structure with sequence from Bovine alphaherpesvirus 1. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q89806_9ALPH

Publication Abstract from PubMed

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 alpha-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.

Structure determination of UL49.5 transmembrane protein from bovine herpesvirus 1 by NMR spectroscopy and molecular dynamics.,Karska N, Graul M, Sikorska E, Zhukov I, Slusarz MJ, Kasprzykowski F, Lipinska AD, Rodziewicz-Motowidlo S Biochim Biophys Acta Biomembr. 2019 Feb 14;1861(5):926-938. doi:, 10.1016/j.bbamem.2019.02.005. PMID:30772281^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Karska N, Graul M, Sikorska E, Zhukov I, Slusarz MJ, Kasprzykowski F, Lipinska AD, Rodziewicz-Motowidlo S. Structure determination of UL49.5 transmembrane protein from bovine herpesvirus 1 by NMR spectroscopy and molecular dynamics. Biochim Biophys Acta Biomembr. 2019 Feb 14;1861(5):926-938. doi:, 10.1016/j.bbamem.2019.02.005. PMID:30772281 doi:http://dx.doi.org/10.1016/j.bbamem.2019.02.005

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6qan"

Categories: Bovine alphaherpesvirus 1 | Large Structures | Karska N | Rodziewicz-Motowidlo S

@@ Line 1: / Line 1: @@
 ==Structure determination of N-terminal fragment of UL49.5 protein from bovine herpesvirus 1 by NMR spectroscopy and molecular dynamics==
-<StructureSection load='6qan' size='340' side='right'caption='[[6qan]], [[NMR_Ensembles_of_Models | 18 NMR models]]' scene=''>
+<StructureSection load='6qan' size='340' side='right'caption='[[6qan]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6qan]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QAN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QAN FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6qan]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bovine_alphaherpesvirus_1 Bovine alphaherpesvirus 1]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QAN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QAN FirstGlance]. <br>
-</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ABA:ALPHA-AMINOBUTYRIC+ACID'>ABA</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ABA:ALPHA-AMINOBUTYRIC+ACID'>ABA</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=NLE:NORLEUCINE'>NLE</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6qan FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qan OCA], [http://pdbe.org/6qan PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qan RCSB], [http://www.ebi.ac.uk/pdbsum/6qan PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qan ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6qan FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qan OCA], [https://pdbe.org/6qan PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qan RCSB], [https://www.ebi.ac.uk/pdbsum/6qan PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qan ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q89806_9ALPH Q89806_9ALPH]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 20: / Line 22: @@
 __TOC__
 </StructureSection>
+[[Category: Bovine alphaherpesvirus 1]]
 [[Category: Large Structures]]
-[[Category: Karska, N]]
+[[Category: Karska N]]
-[[Category: Rodziewicz-Motowidlo, S]]
+[[Category: Rodziewicz-Motowidlo S]]
-[[Category: Herpesvirus]]
-[[Category: Membrane protein]]
-[[Category: Nmr spectroscopy]]
-[[Category: Transmembrane protein]]

6qan

From Proteopedia

Revision as of 11:00, 14 June 2023

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

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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