1g2r: Difference between revisions

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-[[Image:1g2r.gif|left|200px]]<br /><applet load="1g2r" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1g2r, resolution 1.35&Aring;" />
-'''Structure of Cytosolic Protein of Unknown Function Coded by Gene from NUSA/INFB Region, a YlxR Homologue'''<br />
-==Overview==
+==Structure of Cytosolic Protein of Unknown Function Coded by Gene from NUSA/INFB Region, a YlxR Homologue==
-The structure of the YlxR protein of unknown function from Streptococcus, pneumonia was determined to 1.35 A. YlxR is expressed from the nusA/infB, operon in bacteria and belongs to a small protein family (COG2740) that, shares a conserved sequence motif GRGA(Y/W). The family shows no, significant amino-acid sequence similarity with other proteins., Three-wavelength diffraction MAD data were collected to 1.7 A from, orthorhombic crystals using synchrotron radiation and the structure was, determined using a semi-automated approach. The YlxR structure resembles a, two-layer alpha/beta sandwich with the overall shape of a cylinder and, shows no structural homology to proteins of known structure. Structural, analysis revealed that the YlxR structure represents a new protein fold, that belongs to the alpha-beta plait superfamily. The distribution of the, electrostatic surface potential shows a large positively charged patch on, one side of the protein, a feature often found in nucleic acid-binding, proteins. Three sulfate ions bind to this positively charged surface., Analysis of potential binding sites uncovered several substantial clefts, with the largest spanning 3/4 of the protein. A similar distribution of, binding sites and a large sharply bent cleft are observed in RNA-binding, proteins that are unrelated in sequence and structure. It is proposed that, YlxR is an RNA-binding protein.
+<StructureSection load='1g2r' size='340' side='right'caption='[[1g2r]], [[Resolution|resolution]] 1.35&Aring;' scene=''>
+== Structural highlights ==
-==About this Structure==
+<table><tr><td colspan='2'>[[1g2r]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G2R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1G2R FirstGlance]. <br>
-G2R is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Streptococcus_pneumoniae Streptococcus pneumoniae] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1G2R OCA].
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.35&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-==Reference==
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1g2r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1g2r OCA], [https://pdbe.org/1g2r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1g2r RCSB], [https://www.ebi.ac.uk/pdbsum/1g2r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1g2r ProSAT], [https://www.topsan.org/Proteins/MCSG/1g2r TOPSAN]</span></td></tr>
-Streptococcus pneumonia YlxR at 1.35 A shows a putative new fold., Osipiuk J, Gornicki P, Maj L, Dementieva I, Laskowski R, Joachimiak A, Acta Crystallogr D Biol Crystallogr. 2001 Nov;57(Pt 11):1747-51. Epub 2001, Oct 25. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11679764 11679764]
+</table>
-[[Category: Single protein]]
+== Function ==
+[https://www.uniprot.org/uniprot/A0A0H2UNW2_STRPN A0A0H2UNW2_STRPN]
+== 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/g2/1g2r_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=1g2r ConSurf].
+<div style="clear:both"></div>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Streptococcus pneumoniae]]
-[[Category: Gornicki, P.]]
+[[Category: Gornicki P]]
-[[Category: Joachimiak, A.]]
+[[Category: Joachimiak A]]
-[[Category: MCSG, Midwest.Center.for.Structural.Genomics.]]
+[[Category: Maj L]]
-[[Category: Maj, L.]]
+[[Category: Osipiuk J]]
-[[Category: Osipiuk, J.]]
-[[Category: SO4]]
-[[Category: hypothetical]]
-[[Category: mcsg]]
-[[Category: midwest center for structural genomics]]
-[[Category: nusa-infb operon]]
-[[Category: protein structure initiative]]
-[[Category: psi]]
-[[Category: streptococcus pneumoniae]]
-[[Category: structural genomics]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 00:44:48 2007''