1xpm

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1xpm" size="450" color="white" frame="true" align="right" spinBox="true" caption="1xpm, resolution 1.6&Aring;" /> '''Crystal Structure of ...)
Current revision (07:38, 30 October 2024) (edit) (undo)
 
(15 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1xpm.gif|left|200px]]<br /><applet load="1xpm" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1xpm, resolution 1.6&Aring;" />
 
-
'''Crystal Structure of Staphylococcus aureus HMG-COA Synthase with HMG-CoA and Acetoacetyl-COA and Acetylated Cysteine'''<br />
 
-
==Overview==
+
==Crystal Structure of Staphylococcus aureus HMG-COA Synthase with HMG-CoA and Acetoacetyl-COA and Acetylated Cysteine==
-
The formation of carbon-carbon bonds via an acyl-enzyme intermediate plays, a central role in fatty acid, polyketide, and isoprenoid biosynthesis., Uniquely among condensing enzymes, 3-hydroxy-3-methylglutaryl (HMG)-CoA, synthase (HMGS) catalyzes the formation of a carbon-carbon bond by, activating the methyl group of an acetylated cysteine. This reaction is, essential in Gram-positive bacteria, and represents the first committed, step in human cholesterol biosynthesis. Reaction kinetics, isotope, exchange, and mass spectroscopy suggest surprisingly that HMGS is able to, catalyze the "backwards" reaction in solution, where HMG-CoA is cleaved to, form acetoacetyl-CoA (AcAc-CoA) and acetate. Here, we trap a complex of, acetylated HMGS from Staphylococcus aureus and bound acetoacetyl-CoA by, cryo-cooling enzyme crystals at three different times during the course of, its back-reaction with its physiological product (HMG-CoA). This, nonphysiological "backwards" reaction is used to understand the details of, the physiological reaction with regards to individual residues involved in, catalysis and substrate/product binding. The structures suggest that an, active-site glutamic acid (Glu-79) acts as a general base both in the, condensation between acetoacetyl-CoA and the acetylated enzyme, and the, hydrolytic release of HMG-CoA from the enzyme. The ability to trap this, enzyme-intermediate complex may suggest a role for protein dynamics and, the interplay between protomers during the normal course of catalysis.
+
<StructureSection load='1xpm' size='340' side='right'caption='[[1xpm]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1xpm]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus Staphylococcus aureus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XPM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XPM 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]] 1.6&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAA:ACETOACETYL-COENZYME+A'>CAA</scene>, <scene name='pdbligand=HMG:3-HYDROXY-3-METHYLGLUTARYL-COENZYME+A'>HMG</scene>, <scene name='pdbligand=SCY:S-ACETYL-CYSTEINE'>SCY</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1xpm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xpm OCA], [https://pdbe.org/1xpm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xpm RCSB], [https://www.ebi.ac.uk/pdbsum/1xpm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xpm ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/A0A0H3K1U2_STAAW A0A0H3K1U2_STAAW]
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xp/1xpm_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1xpm ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The formation of carbon-carbon bonds via an acyl-enzyme intermediate plays a central role in fatty acid, polyketide, and isoprenoid biosynthesis. Uniquely among condensing enzymes, 3-hydroxy-3-methylglutaryl (HMG)-CoA synthase (HMGS) catalyzes the formation of a carbon-carbon bond by activating the methyl group of an acetylated cysteine. This reaction is essential in Gram-positive bacteria, and represents the first committed step in human cholesterol biosynthesis. Reaction kinetics, isotope exchange, and mass spectroscopy suggest surprisingly that HMGS is able to catalyze the "backwards" reaction in solution, where HMG-CoA is cleaved to form acetoacetyl-CoA (AcAc-CoA) and acetate. Here, we trap a complex of acetylated HMGS from Staphylococcus aureus and bound acetoacetyl-CoA by cryo-cooling enzyme crystals at three different times during the course of its back-reaction with its physiological product (HMG-CoA). This nonphysiological "backwards" reaction is used to understand the details of the physiological reaction with regards to individual residues involved in catalysis and substrate/product binding. The structures suggest that an active-site glutamic acid (Glu-79) acts as a general base both in the condensation between acetoacetyl-CoA and the acetylated enzyme, and the hydrolytic release of HMG-CoA from the enzyme. The ability to trap this enzyme-intermediate complex may suggest a role for protein dynamics and the interplay between protomers during the normal course of catalysis.
-
==About this Structure==
+
3-hydroxy-3-methylglutaryl-CoA synthase intermediate complex observed in "real-time".,Theisen MJ, Misra I, Saadat D, Campobasso N, Miziorko HM, Harrison DH Proc Natl Acad Sci U S A. 2004 Nov 23;101(47):16442-7. Epub 2004 Oct 21. PMID:15498869<ref>PMID:15498869</ref>
-
1XPM is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus Staphylococcus aureus subsp. aureus] with SO4, HMG and CAA as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Hydroxymethylglutaryl-CoA_synthase Hydroxymethylglutaryl-CoA synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.3.10 2.3.3.10] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1XPM OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
3-hydroxy-3-methylglutaryl-CoA synthase intermediate complex observed in "real-time"., Theisen MJ, Misra I, Saadat D, Campobasso N, Miziorko HM, Harrison DH, Proc Natl Acad Sci U S A. 2004 Nov 23;101(47):16442-7. Epub 2004 Oct 21. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15498869 15498869]
+
</div>
-
[[Category: Hydroxymethylglutaryl-CoA synthase]]
+
<div class="pdbe-citations 1xpm" style="background-color:#fffaf0;"></div>
-
[[Category: Single protein]]
+
== References ==
-
[[Category: Staphylococcus aureus subsp. aureus]]
+
<references/>
-
[[Category: Campobasso, N.]]
+
__TOC__
-
[[Category: Harrison, D.H.T.]]
+
</StructureSection>
-
[[Category: Misra, I.]]
+
[[Category: Large Structures]]
-
[[Category: Miziorko, H.M.]]
+
[[Category: Staphylococcus aureus]]
-
[[Category: Saadat, D.]]
+
[[Category: Campobasso N]]
-
[[Category: Theisen, M.J.]]
+
[[Category: Harrison DHT]]
-
[[Category: CAA]]
+
[[Category: Misra I]]
-
[[Category: HMG]]
+
[[Category: Miziorko HM]]
-
[[Category: SO4]]
+
[[Category: Saadat D]]
-
[[Category: cholesterol biosynthesis]]
+
[[Category: Theisen MJ]]
-
[[Category: coenzyme a]]
+
-
[[Category: condensing enzyme]]
+
-
[[Category: hmg-coa synthase]]
+
-
[[Category: hmgs]]
+
-
[[Category: thiolase fold]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:39:33 2007''
+

Current revision

Crystal Structure of Staphylococcus aureus HMG-COA Synthase with HMG-CoA and Acetoacetyl-COA and Acetylated Cysteine

PDB ID 1xpm

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools