3vgm: Difference between revisions
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==Crystal structure of a ROK family glucokinase from Streptomyces griseus in complex with glucose== | ==Crystal structure of a ROK family glucokinase from Streptomyces griseus in complex with glucose== | ||
<StructureSection load='3vgm' size='340' side='right' caption='[[3vgm]], [[Resolution|resolution]] 1.84Å' scene=''> | <StructureSection load='3vgm' size='340' side='right'caption='[[3vgm]], [[Resolution|resolution]] 1.84Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[3vgm]] is a 1 chain structure with sequence from [ | <table><tr><td colspan='2'>[[3vgm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Strgg Strgg]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VGM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VGM FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | ||
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3vgk|3vgk]], [[3vgl|3vgl]]</td></tr> | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3vgk|3vgk]], [[3vgl|3vgl]]</div></td></tr> | ||
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">glkA, SGR_5377 ([ | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">glkA, SGR_5377 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=455632 STRGG])</td></tr> | ||
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glucokinase Glucokinase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.1.2 2.7.1.2] </span></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3vgm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vgm OCA], [https://pdbe.org/3vgm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vgm RCSB], [https://www.ebi.ac.uk/pdbsum/3vgm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vgm ProSAT]</span></td></tr> | ||
</table> | </table> | ||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
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==See Also== | ==See Also== | ||
*[[Hexokinase|Hexokinase]] | *[[Hexokinase 3D structures|Hexokinase 3D structures]] | ||
== References == | == References == | ||
<references/> | <references/> | ||
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</StructureSection> | </StructureSection> | ||
[[Category: Glucokinase]] | [[Category: Glucokinase]] | ||
[[Category: Large Structures]] | |||
[[Category: Strgg]] | [[Category: Strgg]] | ||
[[Category: Horinouchi, S]] | [[Category: Horinouchi, S]] | ||
Revision as of 21:44, 27 July 2022
Crystal structure of a ROK family glucokinase from Streptomyces griseus in complex with glucoseCrystal structure of a ROK family glucokinase from Streptomyces griseus in complex with glucose
Structural highlights
Publication Abstract from PubMedCarbon catabolite repression (CCR) is a widespread phenomenon in many bacteria that is defined as the repression of catabolic enzyme activities for an unfavorable carbon source by the presence of a preferable carbon source. In Streptomyces, secondary metabolite production is often negatively affected by the carbon source, indicating the involvement of CCR in secondary metabolism. Although the CCR mechanism in Streptomyces is still unclear, glucokinase is presumably a central player in CCR. SgGlkA, a glucokinase from S. griseus, belongs to the ROK family glucokinases, which have two consensus sequence motifs (1 and 2). Here we report the crystal structures of apo-SgGlkA, SgGlkA in complex with glucose, and SgGlkA in complex with glucose and AMPPNP, which are the first structures of an ROK family glucokinase. SgGlkA is divided into a small alpha/beta domain and a large alpha+beta domain, and forms a dimer of dimer tetrameric configuration. SgGlkA binds a beta-anomer of glucose between the two domains, and His157 in the consensus sequence 1 plays an important role in the glucose-binding mechanism and anomer specificity of SgGlkA. In the structures of SgGlkA, His157 forms an HC3-type zinc-finger motif with three cysteine residues in the consensus sequence 2 to bind a zinc ion and forms two hydrogen bonds with the C1 and C2 hydroxyls of glucose. When the three structures are compared, the structure of SgGlkA is found to be modified by the binding of substrates. The substrate-dependent conformational changes of SgGlkA may be related to the CCR mechanism in Streptomyces. Substrate recognition mechanism and substrate-dependent conformational changes of an ROK family glucokinase from Streptomyces griseus.,Miyazono KI, Tabei N, Morita S, Ohnishi Y, Horinouchi S, Tanokura M J Bacteriol. 2011 Nov 18. PMID:22101842[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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