2ju1: Difference between revisions

Revision as of 09:17, 4 May 2008

Solution structure of acyl carrier protein domain from module 2 of 6-deoxyerythronolide B synthase (DEBS)

OverviewOverview

Polyketides are a medicinally important class of natural products. The architecture of modular polyketide synthases (PKSs), composed of multiple covalently linked domains grouped into modules, provides an attractive framework for engineering novel polyketide-producing assemblies. However, impaired domain-domain interactions can compromise the efficiency of engineered polyketide biosynthesis. To facilitate the study of these domain-domain interactions, we have used nuclear magnetic resonance (NMR) spectroscopy to determine the first solution structure of an acyl carrier protein (ACP) domain from a modular PKS, 6-deoxyerythronolide B synthase (DEBS). The tertiary fold of this 10-kD domain is a three-helical bundle; an additional short helix in the second loop also contributes to the core helical packing. Superposition of residues 14-94 of the ensemble on the mean structure yields an average atomic RMSD of 0.64 +/- 0.09 Angstrom for the backbone atoms (1.21 +/- 0.13 Angstrom for all non-hydrogen atoms). The three major helices superimpose with a backbone RMSD of 0.48 +/- 0.10 Angstrom (0.99 +/- 0.11 Angstrom for non-hydrogen atoms). Based on this solution structure, homology models were constructed for five other DEBS ACP domains. Comparison of their steric and electrostatic surfaces at the putative interaction interface (centered on helix II) suggests a model for protein-protein recognition of ACP domains, consistent with the previously observed specificity. Site-directed mutagenesis experiments indicate that two of the identified residues influence the specificity of ACP recognition.

About this StructureAbout this Structure

2JU1 is a Single protein structure of sequence from Saccharopolyspora erythraea. Full crystallographic information is available from OCA.

ReferenceReference

Solution structure and proposed domain domain recognition interface of an acyl carrier protein domain from a modular polyketide synthase., Alekseyev VY, Liu CW, Cane DE, Puglisi JD, Khosla C, Protein Sci. 2007 Oct;16(10):2093-107. PMID:17893358 Page seeded by OCA on Sun May 4 09:17:12 2008

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

OCA

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 [[Image:2ju1.jpg|left|200px]]
- {{Structure
+<!--
-|PDB= 2ju1 |SIZE=350|CAPTION= <scene name='initialview01'>2ju1</scene>
+The line below this paragraph, containing "STRUCTURE_2ju1", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND=
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Erythronolide_synthase Erythronolide synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.3.1.94 2.3.1.94] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE= eryA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1836 Saccharopolyspora erythraea])
+-->
-|DOMAIN=
+{{STRUCTURE_2ju1|  PDB=2ju1  |  SCENE=  }}
-|RELATEDENTRY=[[2ju2|2JU2]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ju1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ju1 OCA], [http://www.ebi.ac.uk/pdbsum/2ju1 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2ju1 RCSB]</span>
-}}
 '''Solution structure of acyl carrier protein domain from module 2 of 6-deoxyerythronolide B synthase (DEBS)'''
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 [[Category: Liu, C W.]]
 [[Category: Puglisi, J D.]]
-[[Category: acyltransferase]]
+[[Category: Acyltransferase]]
-[[Category: alpha-helical bundle]]
+[[Category: Alpha-helical bundle]]
-[[Category: antibiotic biosynthesis]]
+[[Category: Antibiotic biosynthesis]]
-[[Category: carrier protein domain]]
+[[Category: Carrier protein domain]]
-[[Category: modular polyketide synthase]]
+[[Category: Modular polyketide synthase]]
-[[Category: multifunctional enzyme]]
+[[Category: Multifunctional enzyme]]
-[[Category: nadp]]
+[[Category: Nadp]]
-[[Category: phosphopantetheine]]
+[[Category: Phosphopantetheine]]
-[[Category: transferase]]
+[[Category: Transferase]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 09:17:12 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:01:39 2008''