1ne8: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
← Older edit
No edit summary
No edit summary
 
(16 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1ne8.gif|left|200px]]<br /><applet load="1ne8" size="350" color="white" frame="true" align="right" spinBox="true"
caption="1ne8, resolution 2.1&Aring;" />
'''YDCE protein from Bacillus subtilis'''<br />


==About this Structure==
==YDCE protein from Bacillus subtilis==
1NE8 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis] with <scene name='pdbligand=1PG:'>1PG</scene> and <scene name='pdbligand=ACY:'>ACY</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NE8 OCA].  
<StructureSection load='1ne8' size='340' side='right'caption='[[1ne8]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 
== Structural highlights ==
==Reference==
<table><tr><td colspan='2'>[[1ne8]] is a 1 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=1NE8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NE8 FirstGlance]. <br>
Crystal structure of YdcE protein from Bacillus subtilis., Gogos A, Mu H, Bahna F, Gomez CA, Shapiro L, Proteins. 2003 Nov 1;53(2):320-2. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14517982 14517982]
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PG:2-(2-{2-[2-(2-METHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHANOL'>1PG</scene>, <scene name='pdbligand=ACY:ACETIC+ACID'>ACY</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=1ne8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ne8 OCA], [https://pdbe.org/1ne8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ne8 RCSB], [https://www.ebi.ac.uk/pdbsum/1ne8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ne8 ProSAT], [https://www.topsan.org/Proteins/NYSGXRC/1ne8 TOPSAN]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/ENDOA_BACSU ENDOA_BACSU] Toxic component of a toxin-antitoxin (TA) module. Has specificity for UACAU sequences, claving after the first U and yielding cleavage products with 3' phosphate and 5' hydroxyl groups. Overexpression is toxic for cell growth, probably by inhibiting protein synthesis through the cleavage of single-stranded RNA. The toxicity is reversed by the antitoxin EndoAI. Toxin activity cannot be inhibited by MazE from E.coli.<ref>PMID:15882409</ref> <ref>PMID:21763692</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ne/1ne8_consurf.spt"</scriptWhenChecked>
    <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=1ne8 ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Bahna, F.]]
[[Category: Bahna F]]
[[Category: Burley, S K.]]
[[Category: Burley SK]]
[[Category: Gogos, A.]]
[[Category: Gogos A]]
[[Category: Gomez, C A.]]
[[Category: Gomez CA]]
[[Category: Mu, H.]]
[[Category: Mu H]]
[[Category: NYSGXRC, New York Structural GenomiX Research Consortium.]]
[[Category: Shapiro L]]
[[Category: Shapiro, L.]]
[[Category: 1PG]]
[[Category: ACY]]
[[Category: conserved hypothetical protein ydce]]
[[Category: new york structural genomix research consortium]]
[[Category: nysgxrc]]
[[Category: protein structure initiative]]
[[Category: psi]]
[[Category: structural genomics]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:05:07 2008''

Latest revision as of 10:55, 14 February 2024

YDCE protein from Bacillus subtilisYDCE protein from Bacillus subtilis

Structural highlights

1ne8 is a 1 chain structure with sequence from Bacillus subtilis. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.1Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT, TOPSAN

Function

ENDOA_BACSU Toxic component of a toxin-antitoxin (TA) module. Has specificity for UACAU sequences, claving after the first U and yielding cleavage products with 3' phosphate and 5' hydroxyl groups. Overexpression is toxic for cell growth, probably by inhibiting protein synthesis through the cleavage of single-stranded RNA. The toxicity is reversed by the antitoxin EndoAI. Toxin activity cannot be inhibited by MazE from E.coli.[1] [2]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

References

  1. ↑ Pellegrini O, Mathy N, Gogos A, Shapiro L, Condon C. The Bacillus subtilis ydcDE operon encodes an endoribonuclease of the MazF/PemK family and its inhibitor. Mol Microbiol. 2005 Jun;56(5):1139-48. PMID:15882409 doi:MMI4606
  2. ↑ Park JH, Yamaguchi Y, Inouye M. Bacillus subtilis MazF-bs (EndoA) is a UACAU-specific mRNA interferase. FEBS Lett. 2011 Aug 4;585(15):2526-32. doi: 10.1016/j.febslet.2011.07.008. Epub, 2011 Jul 13. PMID:21763692 doi:http://dx.doi.org/10.1016/j.febslet.2011.07.008

1ne8, resolution 2.10Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=1ne8&oldid=4052422"