5od2: Difference between revisions
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<StructureSection load='5od2' size='340' side='right' caption='[[5od2]], [[Resolution|resolution]] 1.98Å' scene=''> | <StructureSection load='5od2' size='340' side='right' caption='[[5od2]], [[Resolution|resolution]] 1.98Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[5od2]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OD2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OD2 FirstGlance]. <br> | <table><tr><td colspan='2'>[[5od2]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Metja Metja]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5OD2 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5OD2 FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5ID:(2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL'>5ID</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=5ID:(2R,3R,4S,5R)-2-(4-AMINO-5-IODO-7H-PYRROLO[2,3-D]PYRIMIDIN-7-YL)-5-(HYDROXYMETHYL)TETRAHYDROFURAN-3,4-DIOL'>5ID</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">pfkC, glkA, MJ1604 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=243232 METJA])</td></tr> | |||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5od2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5od2 OCA], [http://pdbe.org/5od2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5od2 RCSB], [http://www.ebi.ac.uk/pdbsum/5od2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5od2 ProSAT]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5od2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5od2 OCA], [http://pdbe.org/5od2 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5od2 RCSB], [http://www.ebi.ac.uk/pdbsum/5od2 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5od2 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Metja]] | |||
[[Category: Grudnik, P]] | [[Category: Grudnik, P]] | ||
[[Category: Tokarz, P]] | [[Category: Tokarz, P]] | ||
Revision as of 10:09, 28 February 2018
Crystal structure of ADP-dependent glucokinase from Methanocaldococcus jannaschiiCrystal structure of ADP-dependent glucokinase from Methanocaldococcus jannaschii
Structural highlights
Function[K6PF_METJA] Catalyzes the phosphorylation of fructose 6-phosphate and D-glucose to fructose 1,6-bisphosphate and D-glucose 6-phosphate, respectively, using ADP as the phosphate donor. Publication Abstract from PubMedADP-dependent glucokinase (ADPGK) is an alternative novel glucose phosphorylating enzyme in a modified glycolysis pathway of hyperthermophilic Archaea. In contrast to classical ATP-dependent hexokinases, ADPGK utilizes ADP as a phosphoryl group donor. Here we present a crystal structure of archaeal ADPGK from Methanocaldococcus jannaschii in complex with an inhibitor, 5-iodotubercidin, D-glucose, inorganic phosphate and a magnesium ion. Detailed analysis of the architecture of the active site allowed for confirmation of the previously proposed phosphorylation mechanism and the crucial role of the invariant arginine residue (Arg197). The crystal structure shows how the phosphate ion, while mimicking a beta-phosphate group, is positioned in the proximity of the glucose moiety by arginine and the magnesium ion, thus providing novel insights into the mechanism of catalysis. In addition, we demonstrate that 5-iodotubercidin inhibits human ADPGK-dependent T cell activation-induced Reactive Oxygen Species (ROS) release and downstream gene expression, and as such it may serve as a model compound for further screening for hADPGK-specific inhibitors. This article is protected by copyright. All rights reserved. Crystal structure of ADP-dependent glucokinase from Methanocaldococcus jannaschii in complex with 5-iodotubercidin reveals phosphoryl transfer mechanism.,Tokarz P, Wisniewska M, Kaminski MM, Dubin G, Grudnik P Protein Sci. 2018 Jan 20. doi: 10.1002/pro.3377. PMID:29352744[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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