4dyr: Difference between revisions

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==Crystal structure of terminase small subunit gp1 of the bacterial virus sf6 with CAPS PH10.5 buffer==
==Crystal structure of terminase small subunit gp1 of the bacterial virus sf6 with CAPS PH10.5 buffer==
<StructureSection load='4dyr' size='340' side='right' caption='[[4dyr]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
<StructureSection load='4dyr' size='340' side='right'caption='[[4dyr]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[4dyr]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bpsfv Bpsfv]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DYR OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4DYR FirstGlance]. <br>
<table><tr><td colspan='2'>[[4dyr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Shigella_virus_Sf6 Shigella virus Sf6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DYR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4DYR FirstGlance]. <br>
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3hef|3hef]], [[4dyc|4dyc]], [[4dzj|4dzj]], [[4dzp|4dzp]]</td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gp1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10761 BPSFV])</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=4dyr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4dyr OCA], [https://pdbe.org/4dyr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4dyr RCSB], [https://www.ebi.ac.uk/pdbsum/4dyr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4dyr ProSAT]</span></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=4dyr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4dyr OCA], [http://pdbe.org/4dyr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4dyr RCSB], [http://www.ebi.ac.uk/pdbsum/4dyr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4dyr ProSAT]</span></td></tr>
</table>
</table>
<div style="background-color:#fffaf0;">
== Function ==
== Publication Abstract from PubMed ==
[https://www.uniprot.org/uniprot/Q716H4_BPSFV Q716H4_BPSFV]
In many DNA viruses, genome packaging is initiated by the small subunit of the packaging terminase, which specifically binds to the packaging signal on viral DNA and directs assembly of the terminase holoenzyme. We have experimentally mapped the DNA-interacting region on Shigella virus Sf6 terminase small subunit gp1, which occupies extended surface areas encircling the gp1 octamer, indicating that DNA wraps around gp1 through extensive contacts. High-resolution structures reveal large-scale motions of the gp1 DNA-binding domain mediated by the curved helix formed by residues 54-81 and an intermolecular salt bridge formed by residues Arg67 and Glu73, indicating remarkable structural plasticity underlying multivalent, pleomorphic gp1:DNA interactions. These results provide spatial restraints for protein:DNA interactions, which enable construction of a three-dimensional pseudo-atomic model for a DNA-packaging initiation complex assembled from the terminase small subunit and the packaging region on viral DNA. Our results suggest that gp1 functions as a DNA-spooling device, which may transform DNA into a specific architecture appropriate for interaction with and cleavage by the terminase large subunit prior to DNA translocation into viral procapsid. This may represent a common mechanism for the initiation step of DNA packaging in tailed double-stranded DNA bacterial viruses.


Structural and Functional Studies of the Phage Sf6 Terminase Small Subunit Reveal a DNA-Spooling Device Facilitated by Structural Plasticity.,Zhao H, Kamau YN, Christensen TE, Tang L J Mol Biol. 2012 Oct 26;423(3):413-26. doi: 10.1016/j.jmb.2012.07.016. Epub 2012 , Jul 31. PMID:22858866<ref>PMID:22858866</ref>
==See Also==
 
*[[Terminase 3D Structures|Terminase 3D Structures]]
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4dyr" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Bpsfv]]
[[Category: Large Structures]]
[[Category: Tang, L]]
[[Category: Shigella virus Sf6]]
[[Category: Zhao, H]]
[[Category: Tang L]]
[[Category: Caps buffer]]
[[Category: Zhao H]]
[[Category: Dna-binding]]
[[Category: Gp1]]
[[Category: Octamer]]
[[Category: Viral protein]]

Latest revision as of 17:06, 13 March 2024

Crystal structure of terminase small subunit gp1 of the bacterial virus sf6 with CAPS PH10.5 bufferCrystal structure of terminase small subunit gp1 of the bacterial virus sf6 with CAPS PH10.5 buffer

Structural highlights

4dyr is a 2 chain structure with sequence from Shigella virus Sf6. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.65Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q716H4_BPSFV

See Also

4dyr, resolution 1.65Å

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