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.

2j7o

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:35, 9 May 2024) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2j7o.jpg|left|200px]]<br /><applet load="2j7o" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="2j7o, resolution 3.5&Aring;" />
 
-
'''STRUCTURE OF THE RNAI POLYMERASE FROM NEUROSPORA CRASSA'''<br />
 
-
==Overview==
+
==STRUCTURE OF THE RNAI POLYMERASE FROM NEUROSPORA CRASSA==
-
RNA silencing refers to a group of RNA-induced gene-silencing mechanisms, that developed early in the eukaryotic lineage, probably for defence, against pathogens and regulation of gene expression. In plants, protozoa, fungi, and nematodes, but apparently not insects and vertebrates, it, involves a cell-encoded RNA-dependent RNA polymerase (cRdRP) that produces, double-stranded RNA triggers from aberrant single-stranded RNA. We report, the 2.3-A resolution crystal structure of QDE-1, a cRdRP from Neurospora, crassa, and find that it forms a relatively compact dimeric molecule, each, subunit of which comprises several domains with, at its core, a catalytic, apparatus and protein fold strikingly similar to the catalytic core of the, DNA-dependent RNA polymerases responsible for transcription. This, evolutionary link between the two enzyme types suggests that aspects of, RNA silencing in some organisms may recapitulate transcription/replication, pathways functioning in the ancient RNA-based world.
+
<StructureSection load='2j7o' size='340' side='right'caption='[[2j7o]], [[Resolution|resolution]] 3.50&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[2j7o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Neurospora_crassa Neurospora crassa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2J7O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2J7O FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.5&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=2j7o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2j7o OCA], [https://pdbe.org/2j7o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2j7o RCSB], [https://www.ebi.ac.uk/pdbsum/2j7o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2j7o ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q9Y7G6_NEUCS Q9Y7G6_NEUCS]
 +
== 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/j7/2j7o_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=2j7o ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
RNA silencing refers to a group of RNA-induced gene-silencing mechanisms that developed early in the eukaryotic lineage, probably for defence against pathogens and regulation of gene expression. In plants, protozoa, fungi, and nematodes, but apparently not insects and vertebrates, it involves a cell-encoded RNA-dependent RNA polymerase (cRdRP) that produces double-stranded RNA triggers from aberrant single-stranded RNA. We report the 2.3-A resolution crystal structure of QDE-1, a cRdRP from Neurospora crassa, and find that it forms a relatively compact dimeric molecule, each subunit of which comprises several domains with, at its core, a catalytic apparatus and protein fold strikingly similar to the catalytic core of the DNA-dependent RNA polymerases responsible for transcription. This evolutionary link between the two enzyme types suggests that aspects of RNA silencing in some organisms may recapitulate transcription/replication pathways functioning in the ancient RNA-based world.
-
==About this Structure==
+
The structure of an RNAi polymerase links RNA silencing and transcription.,Salgado PS, Koivunen MR, Makeyev EV, Bamford DH, Stuart DI, Grimes JM PLoS Biol. 2006 Dec;4(12):e434. PMID:17147473<ref>PMID:17147473</ref>
-
2J7O is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Neurospora_crassa Neurospora crassa] with MG as [http://en.wikipedia.org/wiki/ligand ligand]. Known structural/functional Site: <scene name='pdbsite=AC1:Mg Binding Site For Chain A'>AC1</scene>. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2J7O OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
The structure of an RNAi polymerase links RNA silencing and transcription., Salgado PS, Koivunen MR, Makeyev EV, Bamford DH, Stuart DI, Grimes JM, PLoS Biol. 2006 Dec;4(12):e434. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17147473 17147473]
+
</div>
-
[[Category: Neurospora crassa]]
+
<div class="pdbe-citations 2j7o" style="background-color:#fffaf0;"></div>
-
[[Category: Single protein]]
+
-
[[Category: Bamford, D.H.]]
+
-
[[Category: Grimes, J.M.]]
+
-
[[Category: Koivunen, M.R.L.]]
+
-
[[Category: Makeyev, E.V.]]
+
-
[[Category: Salgado, P.S.]]
+
-
[[Category: Stuart, D.I.]]
+
-
[[Category: MG]]
+
-
[[Category: hydrolase]]
+
-
[[Category: hypothetical protein]]
+
-
[[Category: rna dependent rna polymerase]]
+
-
[[Category: rna-directed rna polymerase]]
+
-
[[Category: rnai response]]
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Dec 18 19:53:31 2007''
+
==See Also==
 +
*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
 +
[[Category: Neurospora crassa]]
 +
[[Category: Bamford DH]]
 +
[[Category: Grimes JM]]
 +
[[Category: Koivunen MRL]]
 +
[[Category: Makeyev EV]]
 +
[[Category: Salgado PS]]
 +
[[Category: Stuart DI]]

Current revision

STRUCTURE OF THE RNAI POLYMERASE FROM NEUROSPORA CRASSA

PDB ID 2j7o

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/2j7o"
Personal tools