3g9k

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:02, 6 September 2023) (edit) (undo)
 
(8 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3g9k.png|left|200px]]
 
-
<!--
+
==Crystal structure of Bacillus anthracis transpeptidase enzyme CapD==
-
The line below this paragraph, containing "STRUCTURE_3g9k", creates the "Structure Box" on the page.
+
<StructureSection load='3g9k' size='340' side='right'caption='[[3g9k]], [[Resolution|resolution]] 1.79&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<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>
-
or leave the SCENE parameter empty for the default display.
+
</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>
-
-->
+
<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>
-
{{STRUCTURE_3g9k| PDB=3g9k | SCENE= }}
+
<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>
 +
</table>
 +
== Function ==
 +
[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>
 +
== 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/g9/3g9k_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3g9k ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
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.
-
===Crystal structure of Bacillus anthracis transpeptidase enzyme CapD===
+
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>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_19535342}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 3g9k" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 19535342 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_19535342}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
3G9K is a 4 chains structure of sequences 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].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:19535342</ref><references group="xtra"/>
+
[[Category: Bacillus anthracis]]
[[Category: Bacillus anthracis]]
-
[[Category: Anderson, V J.]]
+
[[Category: Large Structures]]
-
[[Category: CSGID, Center for Structural Genomics of Infectious Diseases.]]
+
[[Category: Anderson VJ]]
-
[[Category: GLRCE, The Great Lakes Regional Center of Excellence.]]
+
[[Category: Joachimiak A]]
-
[[Category: Joachimiak, A.]]
+
[[Category: Missiakas D]]
-
[[Category: MCSG, Midwest Center for Structural Genomics.]]
+
[[Category: Richter S]]
-
[[Category: Missiakas, D.]]
+
[[Category: Wu R]]
-
[[Category: Richter, S.]]
+
[[Category: Zhang R]]
-
[[Category: Wu, R.]]
+
-
[[Category: Zhang, R.]]
+
-
[[Category: Bacillus anthracis]]
+
-
[[Category: Capd protein]]
+
-
[[Category: Capsule biogenesis/degradation]]
+
-
[[Category: Center for structural genomics of infectious disease]]
+
-
[[Category: Crystal structure]]
+
-
[[Category: Csgid]]
+
-
[[Category: Glrce]]
+
-
[[Category: Hydrolase]]
+
-
[[Category: Plasmid]]
+
-
[[Category: Structural genomic]]
+
-
[[Category: The great lakes regional center of excellence]]
+
-
[[Category: Virulence]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 13 12:37:55 2010''
+

Current revision

Crystal structure of Bacillus anthracis transpeptidase enzyme CapD

PDB ID 3g9k

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3g9k"
Personal tools