9pi6: Difference between revisions

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'''Unreleased structure'''


The entry 9pi6 is ON HOLD  until Paper Publication
==Single stranded DNA-binding protein (ICP8) from Herpes simplex virus-1, apo form.Mutations: K166A, E167A, C254S, C455S==
<StructureSection load='9pi6' size='340' side='right'caption='[[9pi6]], [[Resolution|resolution]] 2.75&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[9pi6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_alphaherpesvirus_1 Human alphaherpesvirus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9PI6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9PI6 FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.75&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=9pi6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9pi6 OCA], [https://pdbe.org/9pi6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9pi6 RCSB], [https://www.ebi.ac.uk/pdbsum/9pi6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9pi6 ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The HSV-1 single-strand annealing protein ICP8 (UL29) is essential for viral DNA replication and recombination. Although its overall architecture has been described, the molecular basis of single-stranded DNA (ssDNA) recognition was unknown. We report crystal structures of C-terminally truncated ICP8 (ICP8Delta60) bound to poly(dT)25 or poly(dA)25 ssDNA at 3.0-3.1 A resolution, along with higher-resolution apo structures of surface-entropy-reduction variants. ssDNA binds within the neck region between the head and shoulder domains, contacting conserved OB-fold residues via base-specific hydrogen bonds, pi-stacking and phosphate backbone interactions. In the poly(dT)25 complex, coordination of a Zn(2+) ion stabilizes the zinc finger motif; whereas, in the poly(dA)25 complex, Zn(2+) displacement promotes disulfide bond formation that effectively locks the protein into an altered conformation. Microscale thermophoresis and label-free differential scanning fluorimetry reveal a strong preference for pyrimidine-rich sequences, with nanomolar affinity for poly(dT)25 and micromolar for poly(dA)25. Structural modeling identified Y543, R576, R772, R793, Y988, and F998 as key DNA-contact residues. Alanine substitutions caused severe replication defects, particularly for R772A, Y988A, and F998A. ssDNA binding induces approximately 26 A displacement and approximately 35 degree rotation of the C-terminal domain and ordering of flexible loops, suggesting a mechanism for cooperative filament assembly. These structures define the molecular determinants of ICP8-ssDNA recognition, reveal thymidine bias and provide a framework for targeting ICP8-mediated functions in herpesvirus replication.


Authors: Erlandsen, H., Wright, D., Weller, S., Wilderman, R., Krucinska, J.
The crystal structure of the herpes virus ICP8 protein in complex with single-stranded DNA reveals the molecular determinants of nucleotide recognition.,Erlandsen H, Krucinska J, Wilderman PR, Makkay AM, Szczepaniak R, Wright LR, Weller SK, Wright DL J Biol Chem. 2026 Mar 13:111366. doi: 10.1016/j.jbc.2026.111366. PMID:41833734<ref>PMID:41833734</ref>


Description: Single stranded DNA-binding protein (ICP8) from Herpes simplex virus-1, apo form.Mutations: K166A, E167A, C254S, C455S
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
[[Category: Unreleased Structures]]
</div>
[[Category: Krucinska, J]]
<div class="pdbe-citations 9pi6" style="background-color:#fffaf0;"></div>
[[Category: Weller, S]]
== References ==
[[Category: Wilderman, R]]
<references/>
[[Category: Erlandsen, H]]
__TOC__
[[Category: Wright, D]]
</StructureSection>
[[Category: Human alphaherpesvirus 1]]
[[Category: Large Structures]]
[[Category: Erlandsen H]]
[[Category: Krucinska J]]
[[Category: Weller S]]
[[Category: Wilderman R]]
[[Category: Wright D]]
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