3fhd: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,328,572 edits
No edit summary
 
Line 3: Line 3:
<StructureSection load='3fhd' size='340' side='right'caption='[[3fhd]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
<StructureSection load='3fhd' size='340' side='right'caption='[[3fhd]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_herpesvirus_8_type_m Human herpesvirus 8 type m]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FHD FirstGlance]. <br>
<table><tr><td colspan='2'>[[3fhd]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_herpesvirus_8_type_M Human herpesvirus 8 type M]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FHD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FHD FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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]] 1.85&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">orf37 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=435895 Human herpesvirus 8 type M])</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [https://pdbe.org/3fhd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [https://www.ebi.ac.uk/pdbsum/3fhd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhd 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=3fhd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fhd OCA], [https://pdbe.org/3fhd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fhd RCSB], [https://www.ebi.ac.uk/pdbsum/3fhd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fhd ProSAT]</span></td></tr>
</table>
</table>
== Function ==
[https://www.uniprot.org/uniprot/P88925_HHV8 P88925_HHV8]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Line 18: Line 20:
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3fhd ConSurf].
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3fhd ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The Kaposi's sarcoma-associated herpesvirus protein SOX (shut off and exonuclease) and its Epstein-Barr virus homolog, BGLF5, are active during the early lytic phase and belong to the alkaline nuclease family. Both proteins have been shown to be bifunctional, being responsible for DNA maturation as well as host shutoff at the mRNA level. We present the crystal structure of SOX determined at 1.85 A resolution. By modeling DNA binding, we have identified catalytic residues that explain the preferred 5'-exonuclease activity of the alkaline nucleases. The presence of a crevice suitable for binding duplex DNA supports a role for herpes alkaline nucleases in recombination events preceding packaging of viral DNA. Direct interaction with dsDNA is supported by oligonucleotide binding data. Mutations specifically affecting host shutoff map to a surface region of the N-terminal domain, implying an essential role in protein-protein interactions, and link the RNase activity of the enzyme to mRNA degradation pathways.
Crystal structure of the shutoff and exonuclease protein from the oncogenic Kaposi's sarcoma-associated herpesvirus.,Dahlroth SL, Gurmu D, Haas J, Erlandsen H, Nordlund P FEBS J. 2009 Nov;276(22):6636-45. Epub 2009 Oct 16. PMID:19843164<ref>PMID:19843164</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3fhd" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Human herpesvirus 8 type m]]
[[Category: Human herpesvirus 8 type M]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Dahlroth, S L]]
[[Category: Dahlroth SL]]
[[Category: Erlandsen, H]]
[[Category: Erlandsen H]]
[[Category: Gurmu, D]]
[[Category: Gurmu D]]
[[Category: Haas, J]]
[[Category: Haas J]]
[[Category: Nordlund, P]]
[[Category: Nordlund P]]
[[Category: Schmitzberger, F]]
[[Category: Schmitzberger F]]
[[Category: Hydrolase]]
Retrieved from "https://proteopedia.org/3fhd"