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| | {{STRUCTURE_2fuq| PDB=2fuq | SCENE= }} | | {{STRUCTURE_2fuq| PDB=2fuq | SCENE= }} |
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| - | '''Crystal Structure of Heparinase II'''
| + | ===Crystal Structure of Heparinase II=== |
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| - | ==Overview==
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| - | Heparinase II depolymerizes heparin and heparan sulfate glycosaminoglycans, yielding unsaturated oligosaccharide products through an elimination degradation mechanism. This enzyme cleaves the oligosaccharide chain on the nonreducing end of either glucuronic or iduronic acid, sharing this characteristic with a chondroitin ABC lyase. We have determined the first structure of a heparin-degrading lyase, that of heparinase II from Pedobacter heparinus (formerly Flavobacterium heparinum), in a ligand-free state at 2.15 A resolution and in complex with a disaccharide product of heparin degradation at 2.30 A resolution. The protein is composed of three domains: an N-terminal alpha-helical domain, a central two-layered beta-sheet domain, and a C-terminal domain forming a two-layered beta-sheet. Heparinase II shows overall structural similarities to the polysaccharide lyase family 8 (PL8) enzymes chondroitin AC lyase and hyaluronate lyase. In contrast to PL8 enzymes, however, heparinase II forms stable dimers, with the two active sites formed independently within each monomer. The structure of the N-terminal domain of heparinase II is also similar to that of alginate lyases from the PL5 family. A Zn2+ ion is bound within the central domain and plays an essential structural role in the stabilization of a loop forming one wall of the substrate-binding site. The disaccharide binds in a long, deep canyon formed at the top of the N-terminal domain and by loops extending from the central domain. Based on structural comparison with the lyases from the PL5 and PL8 families having bound substrates or products, the disaccharide found in heparinase II occupies the "+1" and "+2" subsites. The structure of the enzyme-product complex, combined with data from previously characterized mutations, allows us to propose a putative chemical mechanism of heparin and heparan-sulfate degradation.
| + | The line below this paragraph, {{ABSTRACT_PUBMED_16565082}}, adds the Publication Abstract to the page |
| | + | (as it appears on PubMed at http://www.pubmed.gov), where 16565082 is the PubMed ID number. |
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| | + | {{ABSTRACT_PUBMED_16565082}} |
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| | ==About this Structure== | | ==About this Structure== |
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| | [[Category: Shaya, D.]] | | [[Category: Shaya, D.]] |
| | [[Category: Alpha plus beta]] | | [[Category: Alpha plus beta]] |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 04:19:54 2008'' | + | |
| | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 13:42:09 2008'' |
Revision as of 10:42, 28 July 2008
Template:STRUCTURE 2fuq
Crystal Structure of Heparinase II
Template:ABSTRACT PUBMED 16565082
About this Structure
2FUQ is a Single protein structure of sequence from Pedobacter heparinus. Full crystallographic information is available from OCA.
Reference
Crystal structure of heparinase II from Pedobacter heparinus and its complex with a disaccharide product., Shaya D, Tocilj A, Li Y, Myette J, Venkataraman G, Sasisekharan R, Cygler M, J Biol Chem. 2006 Jun 2;281(22):15525-35. Epub 2006 Mar 24. PMID:16565082
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