We apologize for Proteopedia being slow to respond. For the past two years, a new implementation of Proteopedia has been being built. Soon, it will replace this 18-year old system. All existing content will be moved to the new system at a date that will be announced here.

3iey

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:45, 6 September 2023) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3iey.jpg|left|200px]]
 
-
<!--
+
==Crystal Structure of the functional Nanoarchaeum equitans tRNA splicing endonuclease==
-
The line below this paragraph, containing "STRUCTURE_3iey", creates the "Structure Box" on the page.
+
<StructureSection load='3iey' size='340' side='right'caption='[[3iey]], [[Resolution|resolution]] 2.11&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[3iey]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Nanoarchaeum_equitans Nanoarchaeum equitans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IEY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3IEY 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]] 2.11&#8491;</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=3iey FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iey OCA], [https://pdbe.org/3iey PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3iey RCSB], [https://www.ebi.ac.uk/pdbsum/3iey PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3iey ProSAT]</span></td></tr>
-
{{STRUCTURE_3iey| PDB=3iey | SCENE= }}
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/ENDA_NANEQ ENDA_NANEQ] Endonuclease that removes tRNA introns. Cleaves pre-tRNA at the 5'- and 3'-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-OH termini. Recognizes a pseudosymmetric substrate in which 2 bulged loops of 3 bases are separated by a stem of 4 bp (By similarity).
 +
== 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/ie/3iey_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=3iey ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The RNA splicing and processing endonuclease from Nanoarchaeum equitans (NEQ) belongs to the recently identified (alphabeta)(2) family of splicing endonucleases that require two different subunits for splicing activity. N. equitans splicing endonuclease comprises the catalytic subunit (NEQ205) and the structural subunit (NEQ261). Here, we report the crystal structure of the functional NEQ enzyme at 2.1 A containing both subunits, as well as that of the NEQ261 subunit alone at 2.2 A. The functional enzyme resembles previously known alpha(2) and alpha(4) endonucleases but forms a heterotetramer: a dimer of two heterodimers of the catalytic subunit (NEQ205) and the structural subunit (NEQ261). Surprisingly, NEQ261 alone forms a homodimer, similar to the previously known homodimer of the catalytic subunit. The homodimers of isolated subunits are inhibitory to heterodimerization as illustrated by a covalently linked catalytic homodimer that had no RNA cleavage activity upon mixing with the structural subunit. Detailed structural comparison reveals a more favorable hetero- than homodimerization interface, thereby suggesting a possible regulation mechanism of enzyme assembly through available subunits. Finally, the uniquely flexible active site of the NEQ endonuclease provides a possible explanation for its broader substrate specificity.
-
===Crystal Structure of the functional Nanoarchaeum equitans tRNA splicing endonuclease===
+
Crystal structure and assembly of the functional Nanoarchaeum equitans tRNA splicing endonuclease.,Mitchell M, Xue S, Erdman R, Randau L, Soll D, Li H Nucleic Acids Res. 2009 Sep;37(17):5793-802. Epub 2009 Jul 3. PMID:19578064<ref>PMID:19578064</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_19578064}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 3iey" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 19578064 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_19578064}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
3IEY is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Nanoarchaeum_equitans Nanoarchaeum equitans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3IEY OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:19578064</ref><references group="xtra"/>
+
[[Category: Nanoarchaeum equitans]]
[[Category: Nanoarchaeum equitans]]
-
[[Category: TRNA-intron endonuclease]]
+
[[Category: Li H]]
-
[[Category: Li, H.]]
+
[[Category: Mitchell M]]
-
[[Category: Mitchell, M.]]
+
-
[[Category: Endonuclease]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Hydrolase/rna binding protein complex]]
+
-
[[Category: Nuclease]]
+
-
[[Category: Protein heterodimer]]
+
-
[[Category: Trna processing]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Sep 3 15:38:08 2009''
+

Current revision

Crystal Structure of the functional Nanoarchaeum equitans tRNA splicing endonuclease

PDB ID 3iey

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3iey"
Personal tools