1emi

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1emi" size="450" color="white" frame="true" align="right" spinBox="true" caption="1emi, resolution 7.50&Aring;" /> '''STRUCTURE OF 16S RRN...)
Current revision (07:04, 7 February 2024) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1emi.jpg|left|200px]]<br /><applet load="1emi" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1emi, resolution 7.50&Aring;" />
 
-
'''STRUCTURE OF 16S RRNA IN THE REGION AROUND RIBOSOMAL PROTEIN S8.'''<br />
 
-
==Overview==
+
==STRUCTURE OF 16S RRNA IN THE REGION AROUND RIBOSOMAL PROTEIN S8.==
-
Ribosomal protein S8, which is essential for the assembly of the central, domain of 16S rRNA, is one of the most thoroughly studied RNA-binding, proteins. To map its surrounding RNA in the ribosome, we carried out, directed hydroxyl radical probing of 16S rRNA using Fe(II) tethered to, nine different positions on the surface of protein S8 in 70S ribosomes., Hydroxyl radical-induced cleavage was observed near the classical, S8-binding site in the 620 stem, and flanking the other S8-footprinted, regions of the central domain at the three-helix junction near position, 650 and the 825 and 860 stems. In addition, cleavage near the 5' terminus, of 16S rRNA, in the 300 region of its 5' domain, and in the 1070 region of, its 3'-major domain provide information about the proximity to S8 of RNA, elements not directly involved in its binding. These data, along with, previous footprinting and crosslinking results, allowed positioning of, protein S8 and its surrounding RNA elements in a 7.8-A map of the Thermus, thermophilus 70S ribosome. The resulting model is in close agreement with, the extensive body of data from previous studies using protein-protein and, protein-RNA crosslinking, chemical and enzymatic footprinting, and, genetics.
+
<StructureSection load='1emi' size='340' side='right'caption='[[1emi]], [[Resolution|resolution]] 7.50&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1emi]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1EMI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1EMI 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]] 7.5&#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=1emi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1emi OCA], [https://pdbe.org/1emi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1emi RCSB], [https://www.ebi.ac.uk/pdbsum/1emi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1emi ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/RS8_THET8 RS8_THET8] One of the primary rRNA binding proteins, it binds directly to 16S rRNA where it helps nucleate assembly of the platform of the 30S subunit central domain. The combined cluster of proteins S8, S12 and S17 appears to hold together the shoulder and platform of the 30S subunit.[HAMAP-Rule:MF_01302_B]
 +
== 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/em/1emi_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=1emi ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1EMI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1EMI OCA].
+
*[[Ribosomal protein S8|Ribosomal protein S8]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
The location of protein S8 and surrounding elements of 16S rRNA in the 70S ribosome from combined use of directed hydroxyl radical probing and X-ray crystallography., Lancaster L, Culver GM, Yusupova GZ, Cate JH, Yusupov MM, Noller HF, RNA. 2000 May;6(5):717-29. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10836793 10836793]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
-
[[Category: Cate, J.H.]]
+
[[Category: Cate JH]]
-
[[Category: Culver, G.M.]]
+
[[Category: Culver GM]]
-
[[Category: Lancaster, L.]]
+
[[Category: Lancaster L]]
-
[[Category: Noller, H.F.]]
+
[[Category: Noller HF]]
-
[[Category: Yuspov, M.M.]]
+
[[Category: Yuspov MM]]
-
[[Category: Yusupova, G.Z.]]
+
[[Category: Yusupova GZ]]
-
[[Category: 16s rrna]]
+
-
[[Category: ribosomal protein]]
+
-
[[Category: ribosome]]
+
-
[[Category: rna]]
+
-
[[Category: rrna]]
+
-
[[Category: s8]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 14:07:43 2007''
+

Current revision

STRUCTURE OF 16S RRNA IN THE REGION AROUND RIBOSOMAL PROTEIN S8.

PDB ID 1emi

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/1emi"
Personal tools