2ai9: Difference between revisions

Revision as of 19:05, 3 May 2008

S.aureus Polypeptide Deformylase

OverviewOverview

Polypeptide deformylase (PDF) catalyzes the deformylation of polypeptide chains in bacteria. It is essential for bacterial cell viability and is a potential antibacterial drug target. Here, we report the crystal structures of polypeptide deformylase from four different species of bacteria: Streptococcus pneumoniae, Staphylococcus aureus, Haemophilus influenzae, and Escherichia coli. Comparison of these four structures reveals significant overall differences between the two Gram-negative species (E. coli and H. influenzae) and the two Gram-positive species (S. pneumoniae and S. aureus). Despite these differences and low overall sequence identity, the S1' pocket of PDF is well conserved among the four enzymes studied. We also describe the binding of nonpeptidic inhibitor molecules SB-485345, SB-543668, and SB-505684 to both S. pneumoniae and E. coli PDF. Comparison of these structures shows similar binding interactions with both Gram-negative and Gram-positive species. Understanding the similarities and subtle differences in active site structure between species will help to design broad-spectrum polypeptide deformylase inhibitor molecules.

About this StructureAbout this Structure

2AI9 is a Single protein structure of sequence from Staphylococcus aureus. Full crystallographic information is available from OCA.

ReferenceReference

Structural variation and inhibitor binding in polypeptide deformylase from four different bacterial species., Smith KJ, Petit CM, Aubart K, Smyth M, McManus E, Jones J, Fosberry A, Lewis C, Lonetto M, Christensen SB, Protein Sci. 2003 Feb;12(2):349-60. PMID:12538898 Page seeded by OCA on Sat May 3 19:05:07 2008

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

OCA

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 [[Image:2ai9.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 2ai9 |SIZE=350|CAPTION= <scene name='initialview01'>2ai9</scene>, resolution 2.500&Aring;
+The line below this paragraph, containing "STRUCTURE_2ai9", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Peptide_deformylase Peptide deformylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.88 3.5.1.88] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= def, def1, pdf1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1280 Staphylococcus aureus])
+-->
-|DOMAIN=
+{{STRUCTURE_2ai9|  PDB=2ai9  |  SCENE=  }}
-|RELATEDENTRY=[[2ai7|2AI7]], [[2ai8|2AI8]], [[2aia|2AIA]], [[2aie|2AIE]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ai9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ai9 OCA], [http://www.ebi.ac.uk/pdbsum/2ai9 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2ai9 RCSB]</span>
-}}
 '''S.aureus Polypeptide Deformylase'''
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 [[Category: Smith, K J.]]
 [[Category: Smyth, M.]]
-[[Category: hudrolase]]
+[[Category: Hudrolase]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 19:05:07 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:53:02 2008''