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2l6q

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==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==
==New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH==
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<StructureSection load='2l6q' size='340' side='right' caption='[[2l6q]], [[NMR_Ensembles_of_Models | 20 NMR models]]' scene=''>
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<StructureSection load='2l6q' size='340' side='right'caption='[[2l6q]]' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacteriophage_lambda Bacteriophage lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>
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<table><tr><td colspan='2'>[[2l6q]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_Lambda Escherichia virus Lambda]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2L6Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2L6Q FirstGlance]. <br>
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</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2l6r|2l6r]]</td></tr>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">W ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10710 Bacteriophage lambda])</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [https://pdbe.org/2l6q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [https://www.ebi.ac.uk/pdbsum/2l6q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2l6q ProSAT]</span></td></tr>
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<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=2l6q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2l6q OCA], [http://pdbe.org/2l6q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2l6q RCSB], [http://www.ebi.ac.uk/pdbsum/2l6q PDBsum]</span></td></tr>
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</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/HCP_LAMBD HCP_LAMBD] Plays a role in morphogenesis of the virion head after genome packaging. Presumably interacts with the portal vertex to stabilize the packaged DNA within the head after packaging. Probably binds to the head-tail connector protein FII.<ref>PMID:14569303</ref> <ref>PMID:20660769</ref> <ref>PMID:5022189</ref>
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GpW is a 68-residue protein from bacteriophage lambda that participates in virus head morphogenesis. Previous NMR studies revealed a novel alpha+beta fold for this protein. Recent experiments have shown that gpW folds in microseconds by crossing a marginal free energy barrier (i.e., downhill folding). These features make gpW a highly desirable target for further experimental and computational folding studies. As a step in that direction, we have re-determined the high-resolution structure of gpW by multidimensional NMR on a construct that eliminates the purification tags and unstructured C-terminal tail present in the prior study. In contrast to the previous work, we have obtained a full manual assignment and calculated the structure using only unambiguous distance restraints. This new structure confirms the alpha+beta topology, but reveals important differences in tertiary packing. Namely, the two alpha-helices are rotated along their main axis to form a leucine zipper. The beta-hairpin is orthogonal to the helical interface rather than parallel, displaying most tertiary contacts through strand 1. There also are differences in secondary structure: longer and less curved helices and a hairpin that now shows the typical right-hand twist. Molecular dynamics simulations starting from both gpW structures, and calculations with CS-Rosetta, all converge to our gpW structure. This confirms that the original structure has strange tertiary packing and strained secondary structure. A comparison of NMR datasets suggests that the problems were mainly caused by incomplete chemical shift assignments, mistakes in NOE assignment and the inclusion of ambiguous distance restraints during the automated procedure used in the original study. The new gpW corrects these problems, providing the appropriate structural reference for future work. Furthermore, our results are a cautionary tale against the inclusion of ambiguous experimental information in the determination of protein structures.
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Revisiting the NMR structure of the ultrafast downhill folding protein gpW from bacteriophage lambda.,Sborgi L, Verma A, Munoz V, de Alba E PLoS One. 2011;6(11):e26409. doi: 10.1371/journal.pone.0026409. Epub 2011 Nov 4. PMID:22087227<ref>PMID:22087227</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 2l6q" style="background-color:#fffaf0;"></div>
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== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Bacteriophage lambda]]
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[[Category: Escherichia virus Lambda]]
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[[Category: Alba, E de]]
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[[Category: Large Structures]]
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[[Category: Munoz, V]]
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[[Category: Munoz V]]
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[[Category: Sborgi, L]]
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[[Category: Sborgi L]]
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[[Category: Verma, A]]
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[[Category: Verma A]]
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[[Category: Downhill protein folding]]
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[[Category: De Alba E]]
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[[Category: Fast protein folding]]
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[[Category: Folding simulation]]
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[[Category: Gpw]]
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[[Category: Viral protein]]
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Current revision

New high resolution NMR structure of gpW (W protein of bacteriophage lambda) at neutral pH

PDB ID 2l6q

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