6aa9: Difference between revisions
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New page: '''Unreleased structure''' The entry 6aa9 is ON HOLD Authors: Deka, G., Bharath, S.R., Shavithri, H.S., Murthy, M.R.N. Description: T166A mutant of D-Serine deaminase from Salmonella t... |
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The | ==T166A mutant of D-Serine deaminase from Salmonella typhimurium== | ||
<StructureSection load='6aa9' size='340' side='right'caption='[[6aa9]], [[Resolution|resolution]] 2.70Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[6aa9]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salmonella_enterica_subsp._enterica_serovar_Typhimurium_str._LT2 Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6AA9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6AA9 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]] 2.7Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LLP:(2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5-(PHOSPHONOOXYMETHYL)PYRIDIN-4-YL]METHYLIDENEAMINO]HEXANOIC+ACID'>LLP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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=6aa9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6aa9 OCA], [https://pdbe.org/6aa9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6aa9 RCSB], [https://www.ebi.ac.uk/pdbsum/6aa9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6aa9 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/SDHD_SALTY SDHD_SALTY] | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Enteric pathogens such as Salmonella typhimurium colonize the human gut in spite of the lethal acidic pH environment (pH < 2.5) due to the activation of inducible acid tolerance response (ATR) systems. The pyridoxal 5'-phosphate (PLP)-dependent enzyme, biodegradative arginine decarboxylase (ADC, encoded by AdiA), is a component of an ATR system. The enzyme consumes a cytoplasmic proton in the process of arginine degradation to agmatine. Arginine-agmatine antiporter (AdiC) exchanges the product agmatine for arginine. In this manuscript, we describe the structure of Salmonella typhimurium ADC (StADC). The decameric structure assembled from five dimers related by a non crystallographic 5-fold symmetry represents the first apo-form of the enzyme. The structure suggests that PLP-binding is not a prerequisite for oligomerization. Comparison with E. coli ADC reveals that PLP-binding is accompanied by the movement and ordering of two loops (residues 150-159 and 191-197) and a few active site residues such as His256 and Lys257. A number of residues important for substrate binding are disordered in the apo-StADC structure indicating that PLP binding is important for substrate binding. Unlike the interactions between 5-fold related protomers, interactions that stabilize the dimeric structure are not pH dependent. | |||
Structural studies on the decameric S. typhimurium arginine decarboxylase (ADC): Pyridoxal 5'-phosphate binding induces conformational changes.,Deka G, Bharath SR, Savithri HS, Murthy MRN Biochem Biophys Res Commun. 2017 Sep 2;490(4):1362-1368. doi:, 10.1016/j.bbrc.2017.07.032. Epub 2017 Jul 8. PMID:28694189<ref>PMID:28694189</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
[[Category: Bharath | <div class="pdbe-citations 6aa9" style="background-color:#fffaf0;"></div> | ||
[[Category: Deka | == References == | ||
[[Category: Murthy | <references/> | ||
[[Category: Shavithri | __TOC__ | ||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2]] | |||
[[Category: Bharath SR]] | |||
[[Category: Deka G]] | |||
[[Category: Murthy MRN]] | |||
[[Category: Shavithri HS]] | |||
Latest revision as of 09:22, 22 November 2023
T166A mutant of D-Serine deaminase from Salmonella typhimurium
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