2qex

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "2qex" [edit=sysop:move=sysop])
Current revision (11:30, 30 August 2023) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2qex.png|left|200px]]
 
-
<!--
+
==Negamycin Binds to the Wall of the Nascent Chain Exit Tunnel of the 50S Ribosomal Subunit==
-
The line below this paragraph, containing "STRUCTURE_2qex", creates the "Structure Box" on the page.
+
<StructureSection load='2qex' size='340' side='right'caption='[[2qex]], [[Resolution|resolution]] 2.90&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'>[[2qex]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Haloarcula_marismortui Haloarcula marismortui]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QEX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QEX FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1MA:6-HYDRO-1-METHYLADENOSINE-5-MONOPHOSPHATE'>1MA</scene>, <scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NEG:NEGAMYCIN'>NEG</scene>, <scene name='pdbligand=OMG:O2-METHYLGUANOSINE-5-MONOPHOSPHATE'>OMG</scene>, <scene name='pdbligand=OMU:O2-METHYLURIDINE+5-MONOPHOSPHATE'>OMU</scene>, <scene name='pdbligand=PSU:PSEUDOURIDINE-5-MONOPHOSPHATE'>PSU</scene>, <scene name='pdbligand=UR3:3-METHYLURIDINE-5-MONOPHOSHATE'>UR3</scene></td></tr>
-
{{STRUCTURE_2qex| PDB=2qex | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2qex FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qex OCA], [https://pdbe.org/2qex PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qex RCSB], [https://www.ebi.ac.uk/pdbsum/2qex PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qex ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/RL2_HALMA RL2_HALMA] One of the primary rRNA binding proteins. Required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation. It has been suggested to have peptidyltransferase activity; this is somewhat controversial. Makes several contacts with the 16S rRNA in the 70S ribosome (By similarity).[HAMAP-Rule:MF_01320_A]
 +
== 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/qe/2qex_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=2qex ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Negamycin, a small-molecule inhibitor of protein synthesis, binds the Haloarcula marismortui 50S ribosomal subunit at a single site formed by highly conserved RNA nucleotides near the cytosolic end of the nascent chain exit tunnel. The mechanism of antibiotic action and the function of this unexplored tunnel region remain intriguingly elusive.
-
===Negamycin Binds to the Wall of the Nascent Chain Exit Tunnel of the 50S Ribosomal Subunit===
+
Negamycin binds to the wall of the nascent chain exit tunnel of the 50S ribosomal subunit.,Schroeder SJ, Blaha G, Moore PB Antimicrob Agents Chemother. 2007 Dec;51(12):4462-5. Epub 2007 Jul 30. PMID:17664317<ref>PMID:17664317</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_17664317}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 2qex" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 17664317 is the PubMed ID number.
+
-
-->
+
-
{{ABSTRACT_PUBMED_17664317}}
+
-
 
+
-
==About this Structure==
+
-
[[2qex]] is a 30 chain structure of [[Ribosomal protein L10]], [[Ribosomal protein L11]], [[Ribosomal protein L13]], [[Ribosomal protein L14]], [[Ribosomal protein L2]], [[Ribosomal protein L3]], [[Ribosomal protein L4]], [[Ribosomal protein L5]] and [[Ribosomal protein L6]] with sequence from [http://en.wikipedia.org/wiki/Haloarcula_marismortui Haloarcula marismortui]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QEX OCA].
+
==See Also==
==See Also==
-
*[[Ribosomal protein L10]]
+
*[[Ribosome 3D structures|Ribosome 3D structures]]
-
*[[Ribosomal protein L11]]
+
== References ==
-
*[[Ribosomal protein L13]]
+
<references/>
-
*[[Ribosomal protein L14]]
+
__TOC__
-
*[[Ribosomal protein L2]]
+
</StructureSection>
-
*[[Ribosomal protein L3]]
+
-
*[[Ribosomal protein L4]]
+
-
*[[Ribosomal protein L5]]
+
-
*[[Ribosomal protein L6]]
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:017664317</ref><references group="xtra"/>
+
-
[[Category: Haloarcula marismortui]]
+
-
[[Category: Blaha, G.]]
+
-
[[Category: Schroeder, S J.]]
+
-
[[Category: 50]]
+
[[Category: Haloarcula marismortui]]
[[Category: Haloarcula marismortui]]
-
[[Category: Large ribosomal subunit]]
+
[[Category: Large Structures]]
-
[[Category: Negamycin]]
+
[[Category: Blaha G]]
-
[[Category: Ribosome]]
+
[[Category: Schroeder SJ]]

Current revision

Negamycin Binds to the Wall of the Nascent Chain Exit Tunnel of the 50S Ribosomal Subunit

PDB ID 2qex

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/2qex"
Personal tools