7miq
From Proteopedia
(Difference between revisions)
Line 1: | Line 1: | ||
==Crystal structure of a Glutathione S-transferase class Gtt2 of Vibrio parahaemolyticus (VpGSTT2)== | ==Crystal structure of a Glutathione S-transferase class Gtt2 of Vibrio parahaemolyticus (VpGSTT2)== | ||
- | <StructureSection load='7miq' size='340' side='right'caption='[[7miq]]' scene=''> | + | <StructureSection load='7miq' size='340' side='right'caption='[[7miq]], [[Resolution|resolution]] 1.92Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
- | <table><tr><td colspan='2'>This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6ed8 6ed8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7MIQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MIQ FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[7miq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/"oceanomonas_parahaemolytica"_(fujino_et_al._1951)_miyamoto_et_al._1961 "oceanomonas parahaemolytica" (fujino et al. 1951) miyamoto et al. 1961]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=6ed8 6ed8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7MIQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7MIQ FirstGlance]. <br> |
- | </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=7miq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7miq OCA], [https://pdbe.org/7miq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7miq RCSB], [https://www.ebi.ac.uk/pdbsum/7miq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7miq ProSAT]</span></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> |
+ | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">C1S91_22750 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=670 "Oceanomonas parahaemolytica" (Fujino et al. 1951) Miyamoto et al. 1961])</td></tr> | ||
+ | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glutathione_transferase Glutathione transferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.18 2.5.1.18] </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=7miq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7miq OCA], [https://pdbe.org/7miq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7miq RCSB], [https://www.ebi.ac.uk/pdbsum/7miq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7miq ProSAT]</span></td></tr> | ||
</table> | </table> | ||
+ | <div style="background-color:#fffaf0;"> | ||
+ | == Publication Abstract from PubMed == | ||
+ | Glutathione S-transferases are a family of detoxifying enzymes that catalyze the conjugation of reduced glutathione (GSH) with different xenobiotic compounds using either Ser, Tyr, or Cys as a primary catalytic residue. We identified a novel GST in the genome of the shrimp pathogen V. parahaemolyticus FIM- S1708(+), a bacterial strain associated with Acute Hepatopancreatic Necrosis Disease (AHPND)/Early Mortality Syndrome (EMS) in cultured shrimp. This new GST class was named Gtt2. It has an atypical catalytic mechanism in which a water molecule instead of Ser, Tyr, or Cys activates the sulfhydryl group of GSH. The biochemical properties of Gtt2 from Vibrio parahaemolyticus (VpGSTT2) were characterized using kinetic and crystallographic methods. Recombinant VpGSTT2 was enzymatically active using GSH and CDNB as substrates, with a specific activity of 5.7 units/mg. Low affinity for substrates was demonstrated using both Michaelis-Menten kinetics and isothermal titration calorimetry. The crystal structure showed a canonical two-domain structure comprising a glutathione binding G-domain and a hydrophobic ligand H domain. A water molecule was hydrogen-bonded to residues Thr9 and Ser 11, as reported for the yeast Gtt2, suggesting a primary role in the reaction. Molecular docking showed that GSH could bind at the G-site in the vicinity of Ser11. G-site mutationsT9A and S11A were analyzed. S11A retained 30% activity, while T9A/S11A showed no detectable activity. VpGSTT2 was the first bacterial Gtt2 characterized, in which residues Ser11 and Thr9 coordinated a water molecule as part of a catalytic mechanism that was characteristic of yeast GTT2. The GTT2 family has been shown to provide protection against metal toxicity; in some cases, excess heavy metals appear in shrimp ponds presenting AHPND/EMS. Further studies may address whether GTT2 in V. parahaemolyticus pathogenic strains may provide a competitive advantage as a novel detoxification mechanism. | ||
+ | |||
+ | A Novel Glutathione S-Transferase Gtt2 Class (VpGSTT2) Is Found in the Genome of the AHPND/EMS Vibrio parahaemolyticus Shrimp Pathogen.,Valenzuela-Chavira I, Corona-Martinez DO, Garcia-Orozco KD, Beltran-Torres M, Sanchez-Lopez F, Arvizu-Flores AA, Sugich-Miranda R, Lopez-Zavala AA, Robles-Zepeda RE, Islas-Osuna MA, Ochoa-Leyva A, Toney MD, Serrano-Posada H, Sotelo-Mundo RR Toxins (Basel). 2021 Sep 17;13(9). pii: toxins13090664. doi:, 10.3390/toxins13090664. PMID:34564668<ref>PMID:34564668</ref> | ||
+ | |||
+ | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
+ | </div> | ||
+ | <div class="pdbe-citations 7miq" style="background-color:#fffaf0;"></div> | ||
+ | |||
+ | ==See Also== | ||
+ | *[[Glutathione S-transferase 3D structures|Glutathione S-transferase 3D structures]] | ||
+ | == References == | ||
+ | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
+ | [[Category: Glutathione transferase]] | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
- | [[Category: Garcia-Orozco | + | [[Category: Garcia-Orozco, K D]] |
- | [[Category: Lopez-Zavala | + | [[Category: Lopez-Zavala, A A]] |
- | [[Category: Serrano-Posada H]] | + | [[Category: Serrano-Posada, H]] |
- | [[Category: Sotelo-Mundo | + | [[Category: Sotelo-Mundo, R R]] |
- | [[Category: Valenzuela-Chavira I]] | + | [[Category: Valenzuela-Chavira, I]] |
+ | [[Category: Gst folding]] | ||
+ | [[Category: Gtt2 class]] | ||
+ | [[Category: Thioredoxin domain]] | ||
+ | [[Category: Transferase]] |
Revision as of 07:38, 19 January 2022
Crystal structure of a Glutathione S-transferase class Gtt2 of Vibrio parahaemolyticus (VpGSTT2)
|