3g9k

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[[Image:3g9k.png|left|200px]]
 
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==Crystal structure of Bacillus anthracis transpeptidase enzyme CapD==
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The line below this paragraph, containing "STRUCTURE_3g9k", creates the "Structure Box" on the page.
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<StructureSection load='3g9k' size='340' side='right'caption='[[3g9k]], [[Resolution|resolution]] 1.79&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3g9k]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_anthracis Bacillus anthracis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3G9K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3G9K FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.79&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLU:GLUTAMIC+ACID'>GLU</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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{{STRUCTURE_3g9k| PDB=3g9k | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3g9k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3g9k OCA], [https://pdbe.org/3g9k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3g9k RCSB], [https://www.ebi.ac.uk/pdbsum/3g9k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3g9k ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/CAPD_BACAN CAPD_BACAN] Degradation of the high-molecular weight capsule (H-capsule) to the lower-molecular weight capsule (L-capsule), which is released from the bacterial cell surface. The production of L-capsule is essential to mediate escape from host defenses. Does not have gamma-glutamyltranspeptidase (GGT) activity.<ref>PMID:8105361</ref> <ref>PMID:12134259</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/g9/3g9k_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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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=3g9k ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Bacillus anthracis elaborates a poly-gamma-d-glutamic acid capsule that protects bacilli from phagocytic killing during infection. The enzyme CapD generates amide bonds with peptidoglycan cross-bridges to anchor capsular material within the cell wall envelope of B. anthracis. The capsular biosynthetic pathway is essential for virulence during anthrax infections and can be targeted for anti-infective inhibition with small molecules. Here, we present the crystal structures of the gamma-glutamyltranspeptidase CapD with and without alpha-l-Glu-l-Glu dipeptide, a non-hydrolyzable analog of poly-gamma-d-glutamic acid, in the active site. Purified CapD displays transpeptidation activity in vitro, and its structure reveals an active site broadly accessible for poly-gamma-glutamate binding and processing. Using structural and biochemical information, we derive a mechanistic model for CapD catalysis whereby Pro(427), Gly(428), and Gly(429) activate the catalytic residue of the enzyme, Thr(352), and stabilize an oxyanion hole via main chain amide hydrogen bonds.
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===Crystal structure of Bacillus anthracis transpeptidase enzyme CapD===
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Crystal structure of Bacillus anthracis transpeptidase enzyme CapD.,Wu R, Richter S, Zhang RG, Anderson VJ, Missiakas D, Joachimiak A J Biol Chem. 2009 Sep 4;284(36):24406-14. Epub 2009 Jun 16. PMID:19535342<ref>PMID:19535342</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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The line below this paragraph, {{ABSTRACT_PUBMED_19535342}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 3g9k" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 19535342 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_19535342}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[3g9k]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacillus_anthracis Bacillus anthracis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3G9K OCA].
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==Reference==
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<ref group="xtra">PMID:019535342</ref><references group="xtra"/>
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[[Category: Bacillus anthracis]]
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[[Category: Anderson, V J.]]
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[[Category: GLRCE, The Great Lakes Regional Center of Excellence.]]
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[[Category: Joachimiak, A.]]
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[[Category: MCSG, Midwest Center for Structural Genomics.]]
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[[Category: Missiakas, D.]]
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[[Category: Richter, S.]]
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[[Category: Wu, R.]]
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[[Category: Zhang, R.]]
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[[Category: Bacillus anthracis]]
[[Category: Bacillus anthracis]]
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[[Category: Capd protein]]
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[[Category: Large Structures]]
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[[Category: Capsule biogenesis/degradation]]
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[[Category: Anderson VJ]]
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[[Category: Glrce]]
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[[Category: Joachimiak A]]
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[[Category: Hydrolase]]
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[[Category: Missiakas D]]
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[[Category: Mcsg]]
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[[Category: Richter S]]
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[[Category: Midwest center for structural genomic]]
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[[Category: Wu R]]
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[[Category: Structural genomic]]
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[[Category: Zhang R]]
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[[Category: The great lakes regional center of excellence]]
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[[Category: Virulence]]
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Current revision

Crystal structure of Bacillus anthracis transpeptidase enzyme CapD

PDB ID 3g9k

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