6iz7: Difference between revisions

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 <SX load='6iz7' size='340' side='right' viewer='molstar' caption='[[6iz7]], [[Resolution|resolution]] 11.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6iz7]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IZ7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6IZ7 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6iz7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IZ7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IZ7 FirstGlance]. <br>
-</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Methionyl_aminopeptidase Methionyl aminopeptidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.11.18 3.4.11.18] </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]] 11.8&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6iz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iz7 OCA], [http://pdbe.org/6iz7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6iz7 RCSB], [http://www.ebi.ac.uk/pdbsum/6iz7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6iz7 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=6iz7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iz7 OCA], [https://pdbe.org/6iz7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6iz7 RCSB], [https://www.ebi.ac.uk/pdbsum/6iz7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6iz7 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/MAP1_ECOLI MAP1_ECOLI]] Removes the N-terminal methionine from nascent proteins. The N-terminal methionine is often cleaved when the second residue in the primary sequence is small and uncharged (Met-Ala-, Cys, Gly, Pro, Ser, Thr, or Val). Requires deformylation of the N(alpha)-formylated initiator methionine before it can be hydrolyzed.[HAMAP-Rule:MF_01974]<ref>PMID:20521764</ref> <ref>PMID:3027045</ref>
+[https://www.uniprot.org/uniprot/MAP1_ECOLI MAP1_ECOLI] Removes the N-terminal methionine from nascent proteins. The N-terminal methionine is often cleaved when the second residue in the primary sequence is small and uncharged (Met-Ala-, Cys, Gly, Pro, Ser, Thr, or Val). Requires deformylation of the N(alpha)-formylated initiator methionine before it can be hydrolyzed.[HAMAP-Rule:MF_01974]<ref>PMID:20521764</ref> <ref>PMID:3027045</ref>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-During protein biosynthesis in bacteria, one of the earliest events that a nascent polypeptide chain goes through is the co-translational enzymatic processing. The event includes two enzymatic pathways: deformylation of the N-terminal methionine by the enzyme peptide deformylase (PDF), followed by methionine excision catalyzed by methionine aminopeptidase (MetAP). During the enzymatic processing, the emerging nascent protein likely remains shielded by the ribosome-associated chaperone trigger factor. The ribosome tunnel exit serves as a stage for recruiting proteins involved in maturation processes of the nascent chain. Co-translational processing of nascent chains is a critical step for subsequent folding and functioning of mature proteins. Here, we present cryo-electron microscopy structures of Escherichia coli (E. coli) ribosome in complex with the nascent chain processing proteins. The structures reveal overlapping binding sites for PDF and MetAP when they bind individually at the tunnel exit site, where L22-L32 protein region provides primary anchoring sites for both proteins. In the absence of PDF, trigger factor can access ribosomal tunnel exit when MetAP occupies its primary binding site. Interestingly, however, in the presence of PDF, when MetAP's primary binding site is already engaged, MetAP has a remarkable ability to occupy an alternative binding site adjacent to PDF. Our study, thus, discloses an unexpected mechanism that MetAP adopts for context-specific ribosome association.
-Cryo-EM Structures Reveal Relocalization of MetAP in the Presence of Other Protein Biogenesis Factors at the Ribosomal Tunnel Exit.,Bhakta S, Akbar S, Sengupta J J Mol Biol. 2019 Mar 29;431(7):1426-1439. doi: 10.1016/j.jmb.2019.02.002. Epub, 2019 Feb 10. PMID:30753870<ref>PMID:30753870</ref>
+==See Also==
+*[[Aminopeptidase 3D structures|Aminopeptidase 3D structures]]
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 6iz7" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </SX>
+[[Category: Escherichia coli K-12]]
 [[Category: Large Structures]]
-[[Category: Methionyl aminopeptidase]]
+[[Category: Akbar S]]
-[[Category: Akbar, S]]
+[[Category: Bhakta S]]
-[[Category: Bhakta, S]]
+[[Category: Sengupta J]]
-[[Category: Sengupta, J]]
-[[Category: E. coli 70s ribosome]]
-[[Category: Methionine aminopeptidase]]
-[[Category: Methionine excision]]
-[[Category: Polypeptide exit tunnel]]
-[[Category: Protein biogenesis]]
-[[Category: Ribosome]]