6v33
From Proteopedia
(Difference between revisions)
(New page: '''Unreleased structure''' The entry 6v33 is ON HOLD Authors: Girardi, N.M., Thoden, J.B., Holden, H.M. Description: X-ray structure of a sugar N-formyltransferase from Pseudomonas con...) |
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| - | '''Unreleased structure''' | ||
| - | + | ==X-ray structure of a sugar N-formyltransferase from Pseudomonas congelans== | |
| + | <StructureSection load='6v33' size='340' side='right'caption='[[6v33]], [[Resolution|resolution]] 2.03Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[6v33]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_congelans Pseudomonas congelans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6V33 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6V33 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]] 2.03Å</td></tr> | ||
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0FX:DTDP-4-AMINO-4,6-DIDEOXYGLUCOSE'>0FX</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=FOL:FOLIC+ACID'>FOL</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=6v33 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6v33 OCA], [https://pdbe.org/6v33 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6v33 RCSB], [https://www.ebi.ac.uk/pdbsum/6v33 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6v33 ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/A0A0N8R1B2_9PSED A0A0N8R1B2_9PSED] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Tens of thousands of bacterial genome sequences are now known due to the development of rapid and inexpensive sequencing technologies. An important key to utilizing these vast amounts of data in a biologically meaningful way is to infer the function of the proteins encoded in the genomes via bioinformatics techniques. Whereas these approaches are absolutely critical to the annotation of gene function, there are still issues of misidentifications, which must be experimentally corrected. For example, many of the bacterial DNA sequences encoding sugar N-formyltransferases have been annotated as l-methionyl-tRNA transferases in the databases. These mistakes may be due in part to the fact that until recently the structures and functions of these enzymes were not well known. Herein we describe the misannotation of two genes, WP_088211966.1 and WP_096244125.1, from Shewanella spp. and Pseudomonas congelans, respectively. Although the proteins encoded by these genes were originally suggested to function as l-methionyl-tRNA transferases, we demonstrate that they actually catalyze the conversion of dTDP-4-amino-4,6-dideoxy-d-glucose to dTDP-4-formamido-4,6-dideoxy-d-glucose utilizing N(10) -formyltetrahydrofolate as the carbon source. For this analysis, the genes encoding these enzymes were cloned and the corresponding proteins purified. X-ray structures of the two proteins were determined to high resolution and kinetic analyses were conducted. Both enzymes display classical Michaelis-Menten kinetics and adopt the characteristic three-dimensional structure fold previously observed for other sugar N-formyltransferases. The results presented herein will aid in the future annotation of these fascinating enzymes. This article is protected by copyright. All rights reserved. | ||
| - | + | Misannotations of the Genes Encoding Sugar N-formyltransferases.,Girardi NM, Thoden JB, Holden HM Protein Sci. 2019 Dec 23. doi: 10.1002/pro.3807. PMID:31867814<ref>PMID:31867814</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | [[Category: | + | </div> |
| - | [[Category: | + | <div class="pdbe-citations 6v33" style="background-color:#fffaf0;"></div> |
| - | [[Category: | + | == References == |
| - | [[Category: Holden | + | <references/> |
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Pseudomonas congelans]] | ||
| + | [[Category: Girardi NM]] | ||
| + | [[Category: Holden HM]] | ||
| + | [[Category: Thoden JB]] | ||
Current revision
X-ray structure of a sugar N-formyltransferase from Pseudomonas congelans
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