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4urd

From Proteopedia

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Cryo-EM map of Trigger Factor bound to a translating ribosome

4urd, resolution 7.70Å

Structural highlights

4urd is a 1 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 7.7Å
Experimental data:	Check to display Experimental Data
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

TIG_ECOLI Involved in protein export. Acts as a chaperone by maintaining the newly synthesized secretory and non-secretory proteins in an open conformation. Binds to nascent polypeptide chains via ribosomal protein L23 (PubMed:12226666). Functions as a peptidyl-prolyl cis-trans isomerase in vitro, this activity is dispensible in vivo for chaperone activity.^[1] ^[2] ^[3]

Publication Abstract from PubMed

Trigger factor (TF) is the only ribosome-associated chaperone in bacteria. It interacts with hydrophobic segments in nascent chain (NCs) as they emerge from the ribosome. TF binds via its N-terminal ribosome-binding domain (RBD) mainly to ribosomal protein uL23 at the tunnel exit on the large ribosomal subunit. Whereas earlier structural data suggested that TF binds as a rigid molecule to the ribosome, recent comparisons of structural data on substrate-bound, ribosome-bound, and TF in solution from different species suggest that this chaperone is a rather flexible molecule. Here, we present two cryo-electron microscopy structures of TF bound to ribosomes translating an mRNA coding for a known TF substrate from Escherichia coli of a different length. The structures reveal distinct degrees of flexibility for the different TF domains, a conformational rearrangement of the RBD upon ribosome binding, and an increase in rigidity within TF when the NC is extended. Molecular dynamics simulations agree with these data and offer a molecular basis for these observations.

Dynamic Behavior of Trigger Factor on the Ribosome.,Deeng J, Chan KY, van der Sluis EO, Berninghausen O, Han W, Gumbart J, Schulten K, Beatrix B, Beckmann R J Mol Biol. 2016 Jun 16. pii: S0022-2836(16)30215-7. doi:, 10.1016/j.jmb.2016.06.007. PMID:27320387^[4]

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

References

↑ Hesterkamp T, Hauser S, Lutcke H, Bukau B. Escherichia coli trigger factor is a prolyl isomerase that associates with nascent polypeptide chains. Proc Natl Acad Sci U S A. 1996 Apr 30;93(9):4437-41. PMID:8633085
↑ Valent QA, Kendall DA, High S, Kusters R, Oudega B, Luirink J. Early events in preprotein recognition in E. coli: interaction of SRP and trigger factor with nascent polypeptides. EMBO J. 1995 Nov 15;14(22):5494-505. PMID:8521806
↑ Genevaux P, Keppel F, Schwager F, Langendijk-Genevaux PS, Hartl FU, Georgopoulos C. In vivo analysis of the overlapping functions of DnaK and trigger factor. EMBO Rep. 2004 Feb;5(2):195-200. Epub 2004 Jan 9. PMID:14726952 doi:10.1038/sj.embor.7400067
↑ Deeng J, Chan KY, van der Sluis EO, Berninghausen O, Han W, Gumbart J, Schulten K, Beatrix B, Beckmann R. Dynamic Behavior of Trigger Factor on the Ribosome. J Mol Biol. 2016 Jun 16. pii: S0022-2836(16)30215-7. doi:, 10.1016/j.jmb.2016.06.007. PMID:27320387 doi:http://dx.doi.org/10.1016/j.jmb.2016.06.007

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

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

@@ Line 1: / Line 1: @@
 ==Cryo-EM map of Trigger Factor bound to a translating ribosome==
-<StructureSection load='4urd' size='340' side='right' caption='[[4urd]], [[Resolution|resolution]] 7.70&Aring;' scene=''>
+<SX load='4urd' size='340' side='right' viewer='molstar' caption='[[4urd]], [[Resolution|resolution]] 7.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4urd]] is a 1 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=4URD OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4URD FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4urd]] is a 1 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=4URD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4URD FirstGlance]. <br>
-</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=4urd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4urd OCA], [http://pdbe.org/4urd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4urd RCSB], [http://www.ebi.ac.uk/pdbsum/4urd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4urd ProSAT]</span></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]] 7.7&#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=4urd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4urd OCA], [https://pdbe.org/4urd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4urd RCSB], [https://www.ebi.ac.uk/pdbsum/4urd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4urd ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/TIG_ECOLI TIG_ECOLI] Involved in protein export. Acts as a chaperone by maintaining the newly synthesized secretory and non-secretory proteins in an open conformation. Binds to nascent polypeptide chains via ribosomal protein L23 (PubMed:12226666). Functions as a peptidyl-prolyl cis-trans isomerase in vitro, this activity is dispensible in vivo for chaperone activity.<ref>PMID:8633085</ref> <ref>PMID:8521806</ref> <ref>PMID:14726952</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 18: / Line 21: @@
 <references/>
 __TOC__
-</StructureSection>
+</SX>
-[[Category: Bacillus coli migula 1895]]
+[[Category: Escherichia coli]]
-[[Category: Beatrix, B]]
+[[Category: Large Structures]]
-[[Category: Beckmann, R]]
+[[Category: Beatrix B]]
-[[Category: Berninghausen, O]]
+[[Category: Beckmann R]]
-[[Category: Bischoff, L]]
+[[Category: Berninghausen O]]
-[[Category: Chan, K Y]]
+[[Category: Bischoff L]]
-[[Category: Deeng, J]]
+[[Category: Chan KY]]
-[[Category: Gumbart, J]]
+[[Category: Deeng J]]
-[[Category: Han, W]]
+[[Category: Gumbart J]]
-[[Category: Schulten, K]]
+[[Category: Han W]]
-[[Category: Sluis, E van der]]
+[[Category: Schulten K]]
-[[Category: Co-translational protein folding]]
+[[Category: Van der Sluis E]]
-[[Category: Isomerase]]
-[[Category: Translation]]

4urd

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Current revision

Cryo-EM map of Trigger Factor bound to a translating ribosome

Structural highlights

Function

Publication Abstract from PubMed

References

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