3bh2: Difference between revisions

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<StructureSection load='3bh2' size='340' side='right'caption='[[3bh2]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
<StructureSection load='3bh2' size='340' side='right'caption='[[3bh2]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3bh2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Cloab Cloab]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BH2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BH2 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3bh2]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_acetobutylicum_ATCC_824 Clostridium acetobutylicum ATCC 824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BH2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BH2 FirstGlance]. <br>
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3bgt|3bgt]], [[3bh3|3bh3]]</div></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">adc, CA_P0165 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=272562 CLOAB])</td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Acetoacetate_decarboxylase Acetoacetate decarboxylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.4 4.1.1.4] </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=3bh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bh2 OCA], [https://pdbe.org/3bh2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bh2 RCSB], [https://www.ebi.ac.uk/pdbsum/3bh2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bh2 ProSAT]</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=3bh2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bh2 OCA], [https://pdbe.org/3bh2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bh2 RCSB], [https://www.ebi.ac.uk/pdbsum/3bh2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bh2 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/ADC_CLOAB ADC_CLOAB]] Catalyzes the conversion of acetoacetate to acetone and carbon dioxide.[HAMAP-Rule:MF_00597]  
[https://www.uniprot.org/uniprot/ADC_CLOAB ADC_CLOAB] Catalyzes the conversion of acetoacetate to acetone and carbon dioxide.[HAMAP-Rule:MF_00597]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</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=3bh2 ConSurf].
</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=3bh2 ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Acetoacetate decarboxylase (AADase) has long been cited as the prototypical example of the marked shifts in the pK(a) values of ionizable groups that can occur in an enzyme active site. In 1966, it was hypothesized that in AADase the origin of the large pK(a) perturbation (-4.5 log units) observed in the nucleophilic Lys 115 results from the proximity of Lys 116, marking the first proposal of microenvironment effects in enzymology. The electrostatic perturbation hypothesis has been demonstrated in a number of enzymes, but never for the enzyme that inspired its conception, owing to the lack of a three-dimensional structure. Here we present the X-ray crystal structures of AADase and of the enamine adduct with the substrate analogue 2,4-pentanedione. Surprisingly, the shift of the pK(a) of Lys 115 is not due to the proximity of Lys 116, the side chain of which is oriented away from the active site. Instead, Lys 116 participates in the structural anchoring of Lys 115 in a long, hydrophobic funnel provided by the novel fold of the enzyme. Thus, AADase perturbs the pK(a) of the nucleophile by means of a desolvation effect by placement of the side chain into the protein core while enforcing the proximity of polar residues, which facilitate decarboxylation through electrostatic and steric effects.
The origin of the electrostatic perturbation in acetoacetate decarboxylase.,Ho MC, Menetret JF, Tsuruta H, Allen KN Nature. 2009 May 21;459(7245):393-7. PMID:19458715<ref>PMID:19458715</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3bh2" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Acetoacetate decarboxylase]]
[[Category: Clostridium acetobutylicum ATCC 824]]
[[Category: Cloab]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Allen, K N]]
[[Category: Allen KN]]
[[Category: Ho, M]]
[[Category: Ho M]]
[[Category: Lyase]]
[[Category: Plasmid]]
[[Category: Schiff base]]

Latest revision as of 12:29, 21 February 2024

Structural Studies of Acetoacetate DecarboxylaseStructural Studies of Acetoacetate Decarboxylase

Structural highlights

3bh2 is a 4 chain structure with sequence from Clostridium acetobutylicum ATCC 824. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.4Å
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ADC_CLOAB Catalyzes the conversion of acetoacetate to acetone and carbon dioxide.[HAMAP-Rule:MF_00597]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

3bh2, resolution 2.40Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
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