1kqs

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:56, 15 November 2023) (edit) (undo)
 
(6 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Large structure}}
 
-
{{STRUCTURE_1kqs| PDB=1kqs | SCENE= }}
 
-
===The Haloarcula marismortui 50S Complexed with a Pretranslocational Intermediate in Protein Synthesis===
 
-
{{ABSTRACT_PUBMED_11828326}}
 
-
==About this Structure==
+
==The Haloarcula marismortui 50S Complexed with a Pretranslocational Intermediate in Protein Synthesis==
-
[[1kqs]] is a 31 chain structure 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=1KQS OCA].
+
<StructureSection load='1kqs' size='340' side='right'caption='[[1kqs]], [[Resolution|resolution]] 3.10&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1kqs]] 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=1KQS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KQS 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]] 3.1&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACA:6-AMINOHEXANOIC+ACID'>ACA</scene>, <scene name='pdbligand=BTN:BIOTIN'>BTN</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=PHA:PHENYLALANINAL'>PHA</scene>, <scene name='pdbligand=PPU:PUROMYCIN-5-MONOPHOSPHATE'>PPU</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=1kqs FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kqs OCA], [https://pdbe.org/1kqs PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kqs RCSB], [https://www.ebi.ac.uk/pdbsum/1kqs PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kqs 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/kq/1kqs_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=1kqs ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The large ribosomal subunit catalyzes peptide bond formation during protein synthesis. Its peptidyl transferase activity has often been studied using a 'fragment assay' that depends on high concentrations of methanol or ethanol. Here we describe a version of this assay that does not require alcohol and use it to show, both crystallographically and biochemically, that crystals of the large ribosomal subunits from Haloarcula marismortui are enzymatically active. Addition of these crystals to solutions containing substrates results in formation of products, which ceases when crystals are removed. When substrates are diffused into large subunit crystals, the subsequent structure shows that products have formed. The CC-puromycin-peptide product is found bound to the A-site and the deacylated CCA is bound to the P-site, with its 3prime prime or minute OH near N3 A2486 (Escherichia coli A2451). Thus, this structure represents a state that occurs after peptide bond formation but before the hybrid state of protein synthesis.
-
==See Also==
+
A pre-translocational intermediate in protein synthesis observed in crystals of enzymatically active 50S subunits.,Schmeing TM, Seila AC, Hansen JL, Freeborn B, Soukup JK, Scaringe SA, Strobel SA, Moore PB, Steitz TA Nat Struct Biol. 2002 Mar;9(3):225-30. PMID:11828326<ref>PMID:11828326</ref>
-
*[[Ribosomal protein L10|Ribosomal protein L10]]
+
-
*[[Ribosomal protein L13|Ribosomal protein L13]]
+
-
*[[Ribosomal protein L14|Ribosomal protein L14]]
+
-
*[[Ribosomal protein L15|Ribosomal protein L15]]
+
-
*[[Ribosomal protein L18|Ribosomal protein L18]]
+
-
*[[Ribosomal protein L19|Ribosomal protein L19]]
+
-
*[[Ribosomal protein L2|Ribosomal protein L2]]
+
-
*[[Ribosomal protein L21|Ribosomal protein L21]]
+
-
*[[Ribosomal protein L22|Ribosomal protein L22]]
+
-
*[[Ribosomal protein L23|Ribosomal protein L23]]
+
-
*[[Ribosomal protein L24|Ribosomal protein L24]]
+
-
*[[Ribosomal protein L3|Ribosomal protein L3]]
+
-
*[[Ribosomal protein L30|Ribosomal protein L30]]
+
-
*[[Ribosomal protein L34|Ribosomal protein L34]]
+
-
*[[Ribosomal protein L4|Ribosomal protein L4]]
+
-
*[[Ribosomal protein L5|Ribosomal protein L5]]
+
-
*[[Ribosomal protein L6|Ribosomal protein L6]]
+
-
*[[Ribosomal protein L7|Ribosomal protein L7]]
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<ref group="xtra">PMID:011828326</ref><references group="xtra"/>
+
</div>
 +
<div class="pdbe-citations 1kqs" style="background-color:#fffaf0;"></div>
 +
 
 +
==See Also==
 +
*[[Ribosome 3D structures|Ribosome 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
[[Category: Haloarcula marismortui]]
[[Category: Haloarcula marismortui]]
-
[[Category: Freeborn, B.]]
+
[[Category: Large Structures]]
-
[[Category: Hansen, J L.]]
+
[[Category: Freeborn B]]
-
[[Category: Moore, P B.]]
+
[[Category: Hansen JL]]
-
[[Category: Scaringe, S A.]]
+
[[Category: Moore PB]]
-
[[Category: Schmeing, T M.]]
+
[[Category: Scaringe SA]]
-
[[Category: Seila, A C.]]
+
[[Category: Schmeing TM]]
-
[[Category: Soukup, J K.]]
+
[[Category: Seila AC]]
-
[[Category: Steitz, T A.]]
+
[[Category: Soukup JK]]
-
[[Category: Strobel, S A.]]
+
[[Category: Steitz TA]]
-
[[Category: Peptidyl transferase]]
+
[[Category: Strobel SA]]
-
[[Category: Protein synthesis]]
+
-
[[Category: Protein-protein]]
+
-
[[Category: Protein-rna]]
+
-
[[Category: Ribosome]]
+
-
[[Category: Ribosome assembly]]
+
-
[[Category: Rna-rna]]
+

Current revision

The Haloarcula marismortui 50S Complexed with a Pretranslocational Intermediate in Protein Synthesis

PDB ID 1kqs

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/1kqs"
Personal tools