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2vaz

From Proteopedia

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Current revision

Model of the S15-mRNA complex fitted into the cryo-EM map of the 70S entrapment complex.

2vaz, resolution 10.00Å

Structural highlights

2vaz is a 2 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Electron Microscopy, Resolution 10Å
Experimental data:	Check to display Experimental Data
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

RS15_ECOLI 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 by binding and bridging several RNA helices of the 16S rRNA.[HAMAP-Rule:MF_01343] In the E.coli 70S ribosome it has been modeled (PubMed:12809609) to contact the 23S rRNA of the 50S subunit forming part of bridge B4. In the two 3.5 A resolved ribosome structures (PubMed:16272117) there are minor differences between side-chain conformations.[HAMAP-Rule:MF_01343]

Evolutionary Conservation

Checkto colour the structure by Evolutionary Conservation, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Gene expression can be regulated at the level of initiation of protein biosynthesis via structural elements present at the 5' untranslated region of mRNAs. These folded mRNA segments may bind to the ribosome, thus blocking translation until the mRNA unfolds. Here, we report a series of cryo-electron microscopy snapshots of ribosomal complexes directly visualizing either the mRNA structure blocked by repressor protein S15 or the unfolded, active mRNA. In the stalled state, the folded mRNA prevents the start codon from reaching the peptidyl-tRNA (P) site inside the ribosome. Upon repressor release, the mRNA unfolds and moves into the mRNA channel allowing translation initiation. A comparative structure and sequence analysis suggests the existence of a universal stand-by site on the ribosome (the 30S platform) dedicated for binding regulatory 5' mRNA elements. Different types of mRNA structures may be accommodated during translation preinitiation and regulate gene expression by transiently stalling the ribosome.

Structured mRNAs regulate translation initiation by binding to the platform of the ribosome.,Marzi S, Myasnikov AG, Serganov A, Ehresmann C, Romby P, Yusupov M, Klaholz BP Cell. 2007 Sep 21;130(6):1019-31. PMID:17889647^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Marzi S, Myasnikov AG, Serganov A, Ehresmann C, Romby P, Yusupov M, Klaholz BP. Structured mRNAs regulate translation initiation by binding to the platform of the ribosome. Cell. 2007 Sep 21;130(6):1019-31. PMID:17889647 doi:10.1016/j.cell.2007.07.008

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2vaz"

@@ Line 3: / Line 3: @@
 <SX load='2vaz' size='340' side='right' viewer='molstar' caption='[[2vaz]], [[Resolution|resolution]] 10.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2vaz]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAZ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2VAZ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2vaz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VAZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VAZ FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1p6g|1p6g]], [[1p87|1p87]], [[2avy|2avy]], [[2aw7|2aw7]]</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 10&#8491;</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=2vaz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vaz OCA], [http://pdbe.org/2vaz PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2vaz RCSB], [http://www.ebi.ac.uk/pdbsum/2vaz PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2vaz ProSAT]</span></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=2vaz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vaz OCA], [https://pdbe.org/2vaz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vaz RCSB], [https://www.ebi.ac.uk/pdbsum/2vaz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vaz ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/RS15_ECOLI RS15_ECOLI] 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 by binding and bridging several RNA helices of the 16S rRNA.[HAMAP-Rule:MF_01343]  In the E.coli 70S ribosome it has been modeled (PubMed:12809609) to contact the 23S rRNA of the 50S subunit forming part of bridge B4. In the two 3.5 A resolved ribosome structures (PubMed:16272117) there are minor differences between side-chain conformations.[HAMAP-Rule:MF_01343]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 33: / Line 35: @@
 __TOC__
 </SX>
-[[Category: Bacillus coli migula 1895]]
+[[Category: Escherichia coli]]
 [[Category: Large Structures]]
-[[Category: Ehresmann, C]]
+[[Category: Ehresmann C]]
-[[Category: Klaholz, B P]]
+[[Category: Klaholz BP]]
-[[Category: Marzi, S]]
+[[Category: Marzi S]]
-[[Category: Myasnikov, A G]]
+[[Category: Myasnikov AG]]
-[[Category: Romby, P]]
+[[Category: Romby P]]
-[[Category: Serganov, A]]
+[[Category: Serganov A]]
-[[Category: Yusupov, M]]
+[[Category: Yusupov M]]
-[[Category: Gene expression regulation]]
-[[Category: Mrna structure]]
-[[Category: Platform-binding center]]
-[[Category: Protein synthesis]]
-[[Category: Repressor protein]]
-[[Category: Ribonucleoprotein]]
-[[Category: Ribosomal protein]]
-[[Category: Ribosome]]
-[[Category: Riboswitch]]
-[[Category: Rna pseudoknot]]
-[[Category: Rna-binding]]
-[[Category: Rrna-binding]]
-[[Category: Translation]]
-[[Category: Translation initiation]]

2vaz

From Proteopedia

Current revision

Model of the S15-mRNA complex fitted into the cryo-EM map of the 70S entrapment complex.

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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