3mw6: Difference between revisions

← Older edit

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

OCA

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:3mw6.png|left|200px]]
-<!--
+==Crystal structure of NMB1681 from Neisseria meningitidis MC58, a FinO-like RNA chaperone==
-The line below this paragraph, containing "STRUCTURE_3mw6", creates the "Structure Box" on the page.
+<StructureSection load='3mw6' size='340' side='right' caption='[[3mw6]], [[Resolution|resolution]] 2.21&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'>[[3mw6]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Neimb Neimb]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2hxj 2hxj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MW6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3MW6 FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
--->
+<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-{{STRUCTURE_3mw6|  PDB=3mw6  |  SCENE=  }}
+<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2hxj|2hxj]]</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">NMB1681 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=122586 NEIMB])</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=3mw6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3mw6 OCA], [http://pdbe.org/3mw6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3mw6 RCSB], [http://www.ebi.ac.uk/pdbsum/3mw6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3mw6 ProSAT]</span></td></tr>
+</table>
+== 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/mw/3mw6_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=3mw6 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The conjugative transfer of F-like plasmids between bacteria is regulated by the plasmid-encoded RNA chaperone, FinO, which facilitates sense - antisense RNA interactions to regulate plasmid gene expression. FinO was thought to adopt a unique structure, however many putative homologs have been identified in microbial genomes and are considered members of the FinO_conjugation_repressor superfamily. We were interested in determining whether other members were also able to bind RNA and promote duplex formation, suggesting that this motif does indeed identify a putative RNA chaperone. We determined the crystal structure of the N. meningitidis MC58 protein NMB1681. It revealed striking similarity to FinO, with a conserved fold and a large, positively charged surface that could function in RNA interactions. Using assays developed to study FinO-FinP sRNA interactions, NMB1681, like FinO, bound tightly to FinP RNA stem-loops with short 5' and 3' single-stranded tails but not to ssRNA. It also was able to catalyze strand exchange between an RNA duplex and a complementary single-strand, and facilitated duplexing between complementary RNA hairpins. Finally, NMB1681 was able to rescue a finO deficiency and repress F plasmid conjugation. This study strongly suggests that NMB1681 is a FinO-like RNA chaperone that likely regulates gene expression through RNA-based mechanisms in N. meningitidis.
-===Crystal structure of NMB1681 from Neisseria meningitidis MC58, a FinO-like RNA chaperone===
+N. meningitidis 1681 is a member of the FinO family of RNA chaperones.,Chaulk S, Lu J, Tan K, Arthur DC, Edwards RA, Frost LS, Joachimiak A, Glover JN RNA Biol. 2010 Nov 1;7(6):112-119. PMID:21045552<ref>PMID:21045552</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_21045552}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 3mw6" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 21045552 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_21045552}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Neimb]]
-MW6 is a 6 chains structure with sequences from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2hxj 2hxj]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MW6 OCA].
+[[Category: Abdullah, J]]
+[[Category: Duggan, E]]
-==Reference==
+[[Category: Joachimiak, A]]
-<ref group="xtra">PMID:21045552</ref><references group="xtra"/>
+[[Category: Structural genomic]]
-[[Category: Neisseria meningitidis]]
+[[Category: Tan, K]]
-[[Category: Abdullah, J.]]
+[[Category: Zhou, M]]
-[[Category: Duggan, E.]]
-[[Category: Joachimiak, A.]]
-[[Category: MCSG, Midwest Center for Structural Genomics.]]
-[[Category: Tan, K.]]
-[[Category: Zhou, M.]]
 [[Category: Mcsg]]
-[[Category: Midwest center for structural genomic]]
+[[Category: PSI, Protein structure initiative]]
-[[Category: Protein structure initiative]]
-[[Category: Psi-2]]
-[[Category: Structural genomic]]
 [[Category: Unknown function]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 15 08:11:19 2010''