2plq: Difference between revisions

Revision as of 13:22, 4 May 2008

Crystal structure of the amidase from geobacillus pallidus RAPc8

OverviewOverview

The amidase from Geobacillus pallidus RAPc8, a moderate thermophile, is a member of the nitrilase enzyme superfamily. It converts amides to the corresponding acids and ammonia and has application as an industrial catalyst. RAPc8 amidase has been cloned and functionally expressed in Escherichia coli and has been purified by heat treatment and a number of chromatographic steps. The enzyme was crystallized using the hanging-drop vapour-diffusion method. Crystals produced in the presence of 1.2 M sodium citrate, 400 mM NaCl, 100 mM sodium acetate pH 5.6 were selected for X-ray diffraction studies. A data set having acceptable statistics to 1.96 A resolution was collected under cryoconditions using an in-house X-ray source. The space group was determined to be primitive cubic P4(2)32, with unit-cell parameter a = 130.49 (+/-0.05) A. The structure was solved by molecular replacement using the backbone of the hypothetical protein PH0642 from Pyrococcus horikoshii (PDB code 1j31) with all non-identical side chains substituted with alanine as a probe. There is one subunit per asymmetric unit. The subunits are packed as trimers of dimers with D3 point-group symmetry around the threefold axis in such a way that the dimer interface seen in the homologues is preserved.

About this StructureAbout this Structure

2PLQ is a Single protein structure of sequence from Geobacillus pallidus. Full crystallographic information is available from OCA.

ReferenceReference

The quaternary structure of the amidase from Geobacillus pallidus RAPc8 is revealed by its crystal packing., Agarkar VB, Kimani SW, Cowan DA, Sayed MF, Sewell BT, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Dec 1;62(Pt, 12):1174-8. Epub 2006 Nov 4. PMID:17142891 Page seeded by OCA on Sun May 4 13:22:38 2008

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OCA

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 [[Image:2plq.jpg|left|200px]]
- {{Structure
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+The line below this paragraph, containing "STRUCTURE_2plq", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
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+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Amidase Amidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.4 3.5.1.4] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= amiE, ami ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=33936 Geobacillus pallidus])
+-->
-|DOMAIN=
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-|RELATEDENTRY=
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2plq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2plq OCA], [http://www.ebi.ac.uk/pdbsum/2plq PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2plq RCSB]</span>
-}}
 '''Crystal structure of the amidase from geobacillus pallidus RAPc8'''
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 [[Category: Sayed, M F.]]
 [[Category: Sewell, B T.]]
-[[Category: alpha-beta-beta-alpha]]
+[[Category: Alpha-beta-beta-alpha]]
-[[Category: nitrilase fold]]
+[[Category: Nitrilase fold]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 13:22:38 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:37:41 2008''