1sf7: Difference between revisions

Revision as of 08:37, 3 May 2008

BINDING OF TETRA-N-ACETYLCHITOTETRAOSE TO HEW LYSOZYME: A POWDER DIFFRACTION STUDY

OverviewOverview

The binding of N-acetylglucosamine oligosaccharides (NAGn, n = 2-6) to hen egg-white lysozyme (HEWL; EC 3.2.1.17) was investigated by X-ray powder diffraction at room temperature. Each NAGn examined was found to bind to lysozyme in rapid-precipitation preparations in 1.0 M NaCl pH 6.0 buffer. The location of each NAGn was easily found from difference Fourier maps generated from structure factors extracted during preliminary Rietveld refinements. Full NAGn-protein structures were subjected to combined Rietveld and stereochemical restraint refinements (Rwp = 2.28-2.59%; Rp = 1.81-2.04%; RF2 = 3.91-5.80%) and revealed binding modes for NAGn that depended on the length of the NAG oligosaccharide. The NAG2 ligand was found in the BC sites in the cleft of HEWL, NAG3 was found to bind in both the ABC and BCD sites in the ratio 35:65 and NAG4 and NAG5 bound to the ABCD and ABCDE sites, respectively, while NAG6 only bound to sites ABCDE, leaving the F site empty with the remaining saccharide ring located in a solvent region adjacent to the A site. All protein powder diffraction patterns in this study consisted of extremely sharp Bragg peaks consistent with approximately 1 microm crystallites that were devoid of line-broadening defects. Details of the stereochemical restraints used in these refinements and their impact on structural validation are also discussed.

About this StructureAbout this Structure

1SF7 is a Single protein structure of sequence from Gallus gallus. Full crystallographic information is available from OCA.

ReferenceReference

Binding of N-acetylglucosamine oligosaccharides to hen egg-white lysozyme: a powder diffraction study., Von Dreele RB, Acta Crystallogr D Biol Crystallogr. 2005 Jan;61(Pt 1):22-32. Epub 2004, Dec 17. PMID:15608372 Page seeded by OCA on Sat May 3 08:37:43 2008

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OCA

@@ Line 1: / Line 1: @@
 [[Image:1sf7.jpg|left|200px]]
- {{Structure
+<!--
-|PDB= 1sf7 |SIZE=350|CAPTION= <scene name='initialview01'>1sf7</scene>, resolution 3.22&Aring;
+The line below this paragraph, containing "STRUCTURE_1sf7", 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=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span>
+or leave the SCENE parameter empty for the default display.
-|GENE=
+-->
-|DOMAIN=
+{{STRUCTURE_1sf7|  PDB=1sf7  |  SCENE=  }}
-|RELATEDENTRY=[[1ja7|1JA7]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1sf7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1sf7 OCA], [http://www.ebi.ac.uk/pdbsum/1sf7 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1sf7 RCSB]</span>
-}}
 '''BINDING OF TETRA-N-ACETYLCHITOTETRAOSE TO HEW LYSOZYME: A POWDER DIFFRACTION STUDY'''
@@ Line 27: / Line 24: @@
 [[Category: Single protein]]
 [[Category: Dreele, R B.Von.]]
-[[Category: lysozyme]]
+[[Category: Lysozyme]]
-[[Category: powder diffraction]]
+[[Category: Powder diffraction]]
-[[Category: rietveld refinement]]
+[[Category: Rietveld refinement]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 08:37:43 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:41:11 2008''