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4zu9

From Proteopedia

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Crystal structure of bacterial selenocysteine-specific elongation factor EF-Sec

Structural highlights

4zu9 is a 1 chain structure with sequence from Aquifex aeolicus VF5. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

O67141_AQUAE

Publication Abstract from PubMed

Selenocysteine (Sec), the 21(st) amino acid in translation, uses its specific tRNA (tRNA(Sec)) to recognize the UGA codon. The Sec-specific elongation factor SelB brings the selenocysteinyl-tRNA(Sec) (Sec-tRNA(Sec)) to the ribosome, dependent on both an in-frame UGA and a Sec-insertion sequence (SECIS) in the mRNA. The bacterial SelB binds mRNA through its C-terminal region, for which crystal structures have been reported. In this study, we determined the crystal structure of the full-length SelB from the bacterium Aquifex aeolicus, in complex with a GTP analog, at 3.2-A resolution. SelB consists of three EF-Tu-like domains (D1-3), followed by four winged-helix domains (WHD1-4). The spacer region, connecting the N- and C-terminal halves, fixes the position of WHD1 relative to D3. The binding site for the Sec moiety of Sec-tRNA(Sec) is located on the interface between D1 and D2, where a cysteine molecule from the crystallization solution is coordinated by Arg residues, which may mimic Sec binding. The Sec-binding site is smaller and more exposed than the corresponding site of EF-Tu. Complex models of Sec-tRNA(Sec), SECIS RNA, and the 70S ribosome suggest that the unique secondary structure of tRNA(Sec) allows SelB to specifically recognize tRNA(Sec) and characteristically place it at the ribosomal A-site.

Crystal structure of the full-length bacterial selenocysteine-specific elongation factor SelB.,Itoh Y, Sekine S, Yokoyama S Nucleic Acids Res. 2015 Oct 15;43(18):9028-38. doi: 10.1093/nar/gkv833. Epub 2015, Aug 24. PMID:26304550^[1]

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

References

↑ Itoh Y, Sekine S, Yokoyama S. Crystal structure of the full-length bacterial selenocysteine-specific elongation factor SelB. Nucleic Acids Res. 2015 Oct 15;43(18):9028-38. doi: 10.1093/nar/gkv833. Epub 2015, Aug 24. PMID:26304550 doi:http://dx.doi.org/10.1093/nar/gkv833

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4zu9"

Categories: Aquifex aeolicus VF5 | Large Structures | Itoh Y | Sekine S | Yokoyama S

@@ Line 1: / Line 1: @@
 ==Crystal structure of bacterial selenocysteine-specific elongation factor EF-Sec==
-<StructureSection load='4zu9' size='340' side='right' caption='[[4zu9]], [[Resolution|resolution]] 3.19&Aring;' scene=''>
+<StructureSection load='4zu9' size='340' side='right'caption='[[4zu9]], [[Resolution|resolution]] 3.19&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4zu9]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aquae Aquae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZU9 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4ZU9 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4zu9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus_VF5 Aquifex aeolicus VF5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4ZU9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4ZU9 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CYS:CYSTEINE'>CYS</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CYS:CYSTEINE'>CYS</scene>, <scene name='pdbligand=GNP:PHOSPHOAMINOPHOSPHONIC+ACID-GUANYLATE+ESTER'>GNP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</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=4zu9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zu9 OCA], [https://pdbe.org/4zu9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4zu9 RCSB], [https://www.ebi.ac.uk/pdbsum/4zu9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4zu9 ProSAT]</span></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">selB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224324 AQUAE])</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=4zu9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4zu9 OCA], [http://pdbe.org/4zu9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4zu9 RCSB], [http://www.ebi.ac.uk/pdbsum/4zu9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4zu9 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/O67141_AQUAE O67141_AQUAE]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 18: / Line 18: @@
 </div>
 <div class="pdbe-citations 4zu9" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Elongation factor 3D structures|Elongation factor 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Aquae]]
+[[Category: Aquifex aeolicus VF5]]
-[[Category: Itoh, Y]]
+[[Category: Large Structures]]
-[[Category: Sekine, S]]
+[[Category: Itoh Y]]
-[[Category: Yokoyama, S]]
+[[Category: Sekine S]]
-[[Category: Ef-tu like]]
+[[Category: Yokoyama S]]
-[[Category: Small gtpase]]
-[[Category: Translation]]

4zu9

From Proteopedia

Current revision

Crystal structure of bacterial selenocysteine-specific elongation factor EF-Sec

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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