4uab: Difference between revisions
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<StructureSection load='4uab' size='340' side='right'caption='[[4uab]], [[Resolution|resolution]] 1.40Å' scene=''> | <StructureSection load='4uab' size='340' side='right'caption='[[4uab]], [[Resolution|resolution]] 1.40Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[4uab]] is a 2 chain structure with sequence from [ | <table><tr><td colspan='2'>[[4uab]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Chromohalobacter_salexigens_DSM_3043 Chromohalobacter salexigens DSM 3043]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=4n5w 4n5w]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4UAB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4UAB FirstGlance]. <br> | ||
</td></tr><tr id=' | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.4Å</td></tr> | ||
<tr id=' | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=ETA:ETHANOLAMINE'>ETA</scene>, <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=4uab FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4uab OCA], [https://pdbe.org/4uab PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4uab RCSB], [https://www.ebi.ac.uk/pdbsum/4uab PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4uab ProSAT]</span></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | |||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/Q1QZR9_CHRSD Q1QZR9_CHRSD] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: | [[Category: Chromohalobacter salexigens DSM 3043]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: | [[Category: Al Obaidi NF]] | ||
[[Category: | [[Category: Almo SC]] | ||
[[Category: | [[Category: Attonito JD]] | ||
[[Category: | [[Category: Chowdhury S]] | ||
[[Category: Evans | [[Category: Evans B]] | ||
[[Category: Gerlt | [[Category: Gerlt JA]] | ||
[[Category: Hillerich B]] | |||
[[Category: Hillerich | [[Category: Imker HJ]] | ||
[[Category: Imker | [[Category: Love J]] | ||
[[Category: Love | [[Category: Morisco LL]] | ||
[[Category: Morisco | [[Category: Scott Glenn A]] | ||
[[Category: | [[Category: Seidel RD]] | ||
[[Category: Seidel | [[Category: Sojitra S]] | ||
[[Category: Sojitra | [[Category: Stead M]] | ||
[[Category: Stead | [[Category: Vetting MW]] | ||
[[Category: Vetting | [[Category: Wasserman SR]] | ||
[[Category: Wasserman | |||
Latest revision as of 12:22, 15 November 2023
Crystal structure of a TRAP periplasmic solute binding protein from Chromohalobacter salexigens DSM 3043 (Csal_0678), Target EFI-501078, with bound ethanolamineCrystal structure of a TRAP periplasmic solute binding protein from Chromohalobacter salexigens DSM 3043 (Csal_0678), Target EFI-501078, with bound ethanolamine
Structural highlights
FunctionPublication Abstract from PubMedThe rate at which genome sequencing data is accruing demands enhanced methods for functional annotation and metabolism discovery. Solute binding proteins (SBPs) facilitate the transport of the first reactant in a metabolic pathway, thereby constraining the regions of chemical space and the chemistries that must be considered for pathway reconstruction. We describe high-throughput protein production and differential scanning fluorimetry platforms, which enabled the screening of 158 SBPs against a 189 component library specifically tailored for this class of proteins. Like all screening efforts, this approach is limited by the practical constraints imposed by construction of the library, i.e., we can study only those metabolites that are known to exist and which can be made in sufficient quantities for experimentation. To move beyond these inherent limitations, we illustrate the promise of crystallographic- and mass spectrometric-based approaches for the unbiased use of entire metabolomes as screening libraries. Together, our approaches identified 40 new SBP ligands, generated experiment-based annotations for 2084 SBPs in 71 isofunctional clusters, and defined numerous metabolic pathways, including novel catabolic pathways for the utilization of ethanolamine as sole nitrogen source and the use of d-Ala-d-Ala as sole carbon source. These efforts begin to define an integrated strategy for realizing the full value of amassing genome sequence data. Experimental strategies for functional annotation and metabolism discovery: targeted screening of solute binding proteins and unbiased panning of metabolomes.,Vetting MW, Al-Obaidi N, Zhao S, San Francisco B, Kim J, Wichelecki DJ, Bouvier JT, Solbiati JO, Vu H, Zhang X, Rodionov DA, Love JD, Hillerich BS, Seidel RD, Quinn RJ, Osterman AL, Cronan JE, Jacobson MP, Gerlt JA, Almo SC Biochemistry. 2015 Jan 27;54(3):909-31. doi: 10.1021/bi501388y. Epub 2015 Jan 16. PMID:25540822[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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