3iey

From Proteopedia

(Difference between revisions)

Revision as of 13:50, 7 February 2016

Crystal Structure of the functional Nanoarchaeum equitans tRNA splicing endonuclease

Structural highlights

3iey is a 2 chain structure with sequence from "nanoarchaeum_equitans"_huber_et_al._2002 "nanoarchaeum equitans" huber et al. 2002. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Related:	3if0
Gene:	endA, NEQ205 ("Nanoarchaeum equitans" Huber et al. 2002), NEQ261 ("Nanoarchaeum equitans" Huber et al. 2002)
Activity:	tRNA-intron endonuclease, with EC number 3.1.27.9
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum

Function

[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

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

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 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^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Mitchell M, Xue S, Erdman R, Randau L, Soll D, Li H. Crystal structure and assembly of the functional Nanoarchaeum equitans tRNA splicing endonuclease. Nucleic Acids Res. 2009 Sep;37(17):5793-802. Epub 2009 Jul 3. PMID:19578064 doi:10.1093/nar/gkp537

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

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

@@ Line 2: / Line 2: @@
 <StructureSection load='3iey' size='340' side='right' caption='[[3iey]], [[Resolution|resolution]] 2.11&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3iey]] is a 2 chain structure with sequence 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]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IEY FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3iey]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"nanoarchaeum_equitans"_huber_et_al._2002 "nanoarchaeum equitans" huber et al. 2002]. 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3IEY FirstGlance]. <br>
 </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3if0|3if0]]</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">endA, NEQ205 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=160232 Nanoarchaeum equitans]), NEQ261 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=160232 Nanoarchaeum equitans])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">endA, NEQ205 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=160232 "Nanoarchaeum equitans" Huber et al. 2002]), NEQ261 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=160232 "Nanoarchaeum equitans" Huber et al. 2002])</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/tRNA-intron_endonuclease tRNA-intron endonuclease], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.27.9 3.1.27.9] </span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3iey FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iey OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3iey RCSB], [http://www.ebi.ac.uk/pdbsum/3iey PDBsum]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3iey FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3iey OCA], [http://pdbe.org/3iey PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3iey RCSB], [http://www.ebi.ac.uk/pdbsum/3iey PDBsum]</span></td></tr>
 </table>
 == Function ==
@@ Line 18: / Line 18: @@
     <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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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;">
@@ Line 28: / Line 28: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3iey" style="background-color:#fffaf0;"></div>
 ==See Also==
@@ Line 35: / Line 36: @@
 __TOC__
 </StructureSection>
-[[Category: Nanoarchaeum equitans]]
+[[Category: Nanoarchaeum equitans huber et al. 2002]]
 [[Category: TRNA-intron endonuclease]]
 [[Category: Li, H]]

3iey

From Proteopedia

Revision as of 13:50, 7 February 2016

Crystal Structure of the functional Nanoarchaeum equitans tRNA splicing endonuclease

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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