2fk6: Difference between revisions

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[[Image:2fk6.gif|left|200px]]


{{Structure
==Crystal Structure of RNAse Z/tRNA(Thr) complex==
|PDB= 2fk6 |SIZE=350|CAPTION= <scene name='initialview01'>2fk6</scene>, resolution 2.90&Aring;
<StructureSection load='2fk6' size='340' side='right'caption='[[2fk6]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene> and <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>
<table><tr><td colspan='2'>[[2fk6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. The September 2008 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Ribonuclease A''  by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2008_9 10.2210/rcsb_pdb/mom_2008_9]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2FK6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2FK6 FirstGlance]. <br>
|ACTIVITY= [http://en.wikipedia.org/wiki/Ribonuclease_Z Ribonuclease Z], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.26.11 3.1.26.11]  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
|GENE= RNZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=2fk6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2fk6 OCA], [https://pdbe.org/2fk6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2fk6 RCSB], [https://www.ebi.ac.uk/pdbsum/2fk6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2fk6 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/RNZ_BACSU RNZ_BACSU] Zinc phosphodiesterase, which displays some tRNA 3'-processing endonuclease activity. Probably involved in tRNA maturation, by removing a 3'-trailer from precursor tRNA.<ref>PMID:12941704</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/fk/2fk6_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=2fk6 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The highly conserved ribonuclease RNase Z catalyzes the endonucleolytic removal of the 3' extension of the majority of tRNA precursors. Here we present the structure of the complex between Bacillus subtilis RNase Z and tRNA(Thr), the first structure of a ribonucleolytic processing enzyme bound to tRNA. Binding of tRNA to RNase Z causes conformational changes in both partners to promote reorganization of the catalytic site and tRNA cleavage.


'''Crystal Structure of RNAse Z/tRNA(Thr) complex'''
Structure of the ubiquitous 3' processing enzyme RNase Z bound to transfer RNA.,Li de la Sierra-Gallay I, Mathy N, Pellegrini O, Condon C Nat Struct Mol Biol. 2006 Apr;13(4):376-7. Epub 2006 Mar 5. PMID:16518398<ref>PMID:16518398</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2fk6" style="background-color:#fffaf0;"></div>


==Overview==
==See Also==
The highly conserved ribonuclease RNase Z catalyzes the endonucleolytic removal of the 3' extension of the majority of tRNA precursors. Here we present the structure of the complex between Bacillus subtilis RNase Z and tRNA(Thr), the first structure of a ribonucleolytic processing enzyme bound to tRNA. Binding of tRNA to RNase Z causes conformational changes in both partners to promote reorganization of the catalytic site and tRNA cleavage.
*[[Ribonuclease 3D structures|Ribonuclease 3D structures]]
 
*[[Transfer RNA (tRNA)|Transfer RNA (tRNA)]]
==About this Structure==
== References ==
2FK6 is a [[Protein complex]] structure of sequences 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=2FK6 OCA].
<references/>
 
__TOC__
==Reference==
</StructureSection>
Structure of the ubiquitous 3' processing enzyme RNase Z bound to transfer RNA., Li de la Sierra-Gallay I, Mathy N, Pellegrini O, Condon C, Nat Struct Mol Biol. 2006 Apr;13(4):376-7. Epub 2006 Mar 5. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16518398 16518398]
[[Category: Bacillus subtilis]]
[[Category: Bacillus subtilis]]
[[Category: Protein complex]]
[[Category: Large Structures]]
[[Category: Ribonuclease Z]]
[[Category: RCSB PDB Molecule of the Month]]
[[Category: Condon, C.]]
[[Category: Ribonuclease A]]
[[Category: Mathy, N.]]
[[Category: Condon C]]
[[Category: Pellegrini, O.]]
[[Category: Li de la Sierra-Gallay I]]
[[Category: Sierra-Gallay, I Li de la.]]
[[Category: Mathy N]]
[[Category: GOL]]
[[Category: Pellegrini O]]
[[Category: MES]]
[[Category: ZN]]
[[Category: protein-trna complex; zinc-dependent metal hydrolase; trna maturase]]
 
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Retrieved from "https://proteopedia.org/2fk6"