2fdo: Difference between revisions

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{{Seed}}
[[Image:2fdo.png|left|200px]]


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==Crystal Structure of the Conserved Protein of Unknown Function AF2331 from Archaeoglobus fulgidus DSM 4304 Reveals a New Type of Alpha/Beta Fold==
The line below this paragraph, containing "STRUCTURE_2fdo", creates the "Structure Box" on the page.
<StructureSection load='2fdo' size='340' side='right'caption='[[2fdo]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[2fdo]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Archaeoglobus_fulgidus_DSM_4304 Archaeoglobus fulgidus DSM 4304]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FDO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FDO FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
{{STRUCTURE_2fdo|  PDB=2fdo  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2fdo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fdo OCA], [https://pdbe.org/2fdo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fdo RCSB], [https://www.ebi.ac.uk/pdbsum/2fdo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fdo ProSAT], [https://www.topsan.org/Proteins/MCSG/2fdo TOPSAN]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Y2331_ARCFU Y2331_ARCFU]
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The structure of AF2331, a 11-kDa orphan protein of unknown function from Archaeoglobus fulgidus, was solved by Se-Met MAD to 2.4 A resolution. The structure consists of an alpha + beta fold formed by an unusual homodimer, where the two core beta-sheets are interdigitated, containing strands alternating from both subunits. The decrease in solvent-accessible surface area upon dimerization is unusually large (3960 A(2)) for a protein of its size. The percentage of the total surface area buried in the interface (41.1%) is one of the largest observed in a nonredundant set of homodimers in the PDB and is above the mean for nearly all other types of homo-oligomers. AF2331 has no sequence homologs, and no structure similar to AF2331 could be found in the PDB using the CE, TM-align, DALI, or SSM packages. The protein has been identified in Pfam 23.0 as the archetype of a new superfamily and is topologically dissimilar to all other proteins with the "3-Layer (BBA) Sandwich" fold in CATH. Therefore, we propose that AF2331 forms a novel alpha + beta fold. AF2331 contains multiple negatively charged surface clusters and is located on the same operon as the basic protein AF2330. We hypothesize that AF2331 and AF2330 may form a charge-stabilized complex in vivo, though the role of the negatively charged surface clusters is not clear.


===Crystal Structure of the Conserved Protein of Unknown Function AF2331 from Archaeoglobus fulgidus DSM 4304 Reveals a New Type of Alpha/Beta Fold===
The crystal structure of the AF2331 protein from Archaeoglobus fulgidus DSM 4304 forms an unusual interdigitated dimer with a new type of alpha + beta fold.,Wang S, Kirillova O, Chruszcz M, Gront D, Zimmerman MD, Cymborowski MT, Shumilin IA, Skarina T, Gorodichtchenskaia E, Savchenko A, Edwards AM, Minor W Protein Sci. 2009 Nov;18(11):2410-9. PMID:19768810<ref>PMID:19768810</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
2FDO is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Archaeoglobus_fulgidus Archaeoglobus fulgidus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FDO OCA].
<div class="pdbe-citations 2fdo" style="background-color:#fffaf0;"></div>
[[Category: Archaeoglobus fulgidus]]
== References ==
[[Category: Single protein]]
<references/>
[[Category: Chruszcz, M.]]
__TOC__
[[Category: Cymborowski, M T.]]
</StructureSection>
[[Category: Edwards, A M.]]
[[Category: Archaeoglobus fulgidus DSM 4304]]
[[Category: Gorodichtchenskaia, E.]]
[[Category: Large Structures]]
[[Category: Kirillova, O.]]
[[Category: Chruszcz M]]
[[Category: MCSG, Midwest Center for Structural Genomics.]]
[[Category: Cymborowski MT]]
[[Category: Minor, W.]]
[[Category: Edwards AM]]
[[Category: Savchenko, A.]]
[[Category: Gorodichtchenskaia E]]
[[Category: Skarina, T.]]
[[Category: Joachimiak A]]
[[Category: Wang, S.]]
[[Category: Kirillova O]]
[[Category: Archaeoglobus fulgidus]]
[[Category: Minor W]]
[[Category: Conserved hypothetical protein]]
[[Category: Savchenko A]]
[[Category: Mcsg]]
[[Category: Skarina T]]
[[Category: Midwest center for structural genomic]]
[[Category: Wang S]]
[[Category: Multiwavelength anomalous dispersion]]
[[Category: New type of alpha/beta fold]]
[[Category: Protein structure initiative]]
[[Category: Psi]]
[[Category: Structural genomic]]
[[Category: X-ray crystallography]]
 
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