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[[Image:2bps.gif|left|200px]]


{{Structure
==Ubiquitin-like protein YukD of Bacillus subtilis==
|PDB= 2bps |SIZE=350|CAPTION= <scene name='initialview01'>2bps</scene>, resolution 2.7&Aring;
<StructureSection load='2bps' size='340' side='right'caption='[[2bps]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND=  
<table><tr><td colspan='2'>[[2bps]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BPS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BPS FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#8491;</td></tr>
|GENE=  
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2bps FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bps OCA], [https://pdbe.org/2bps PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2bps RCSB], [https://www.ebi.ac.uk/pdbsum/2bps PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2bps ProSAT]</span></td></tr>
|DOMAIN=
</table>
|RELATEDENTRY=
== Function ==
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2bps FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bps OCA], [http://www.ebi.ac.uk/pdbsum/2bps PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2bps RCSB]</span>
[https://www.uniprot.org/uniprot/YUKD_BACSU YUKD_BACSU] Required for YukE secretion. Probable component or regulator of the ESX/ESAT-6-like secretion system (BsEss).<ref>PMID:23861817</ref> <ref>PMID:24798022</ref>
}}
== Evolutionary Conservation ==
 
[[Image:Consurf_key_small.gif|200px|right]]
'''UBIQUITIN-LIKE PROTEIN YUKD OF BACILLUS SUBTILIS'''
Check<jmol>
 
  <jmolCheckbox>
 
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bp/2bps_consurf.spt"</scriptWhenChecked>
==Overview==
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=2bps ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The YukD protein in Bacillus subtilis was identified in a hidden Markov model (HMM) search as being related in sequence to ubiquitin. By solving the crystal structure we show that YukD adopts a fold that is most closely related to ubiquitin, yet has the shortest C-terminal tail of all known ubiquitin-like proteins. The endogenous gene of yukD in B. subtilis was disrupted without an obvious phenotypic effect and an inducible copy encoding a C-Myc and His-tagged version of the protein was introduced at the ectopic locus amyE. Conjugation assays performed both in vitro and in vivo indicate that YukD lacks the capacity for covalent bond formation with other proteins.
The YukD protein in Bacillus subtilis was identified in a hidden Markov model (HMM) search as being related in sequence to ubiquitin. By solving the crystal structure we show that YukD adopts a fold that is most closely related to ubiquitin, yet has the shortest C-terminal tail of all known ubiquitin-like proteins. The endogenous gene of yukD in B. subtilis was disrupted without an obvious phenotypic effect and an inducible copy encoding a C-Myc and His-tagged version of the protein was introduced at the ectopic locus amyE. Conjugation assays performed both in vitro and in vivo indicate that YukD lacks the capacity for covalent bond formation with other proteins.


==About this Structure==
Crystal structure of the ubiquitin-like protein YukD from Bacillus subtilis.,van den Ent F, Lowe J FEBS Lett. 2005 Jul 4;579(17):3837-41. PMID:15978580<ref>PMID:15978580</ref>
2BPS is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BPS OCA].


==Reference==
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
Crystal structure of the ubiquitin-like protein YukD from Bacillus subtilis., van den Ent F, Lowe J, FEBS Lett. 2005 Jul 4;579(17):3837-41. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15978580 15978580]
</div>
<div class="pdbe-citations 2bps" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Ent, F Van Den.]]
[[Category: Lowe J]]
[[Category: Lowe, J.]]
[[Category: Van den Ent F]]
[[Category: ubiquitin]]
[[Category: ubiquitin-like protein]]
[[Category: yukd]]
 
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