1dbo
From Proteopedia
(New page: 200px<br /><applet load="1dbo" size="450" color="white" frame="true" align="right" spinBox="true" caption="1dbo, resolution 1.7Å" /> '''CRYSTAL STRUCTURE OF ...) |
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| - | [[Image:1dbo.gif|left|200px]]<br /><applet load="1dbo" size=" | + | [[Image:1dbo.gif|left|200px]]<br /><applet load="1dbo" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1dbo, resolution 1.7Å" /> | caption="1dbo, resolution 1.7Å" /> | ||
'''CRYSTAL STRUCTURE OF CHONDROITINASE B'''<br /> | '''CRYSTAL STRUCTURE OF CHONDROITINASE B'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Glycosaminoglycans (GAGs) are a family of acidic heteropolysaccharides, including such molecules as chondroitin sulfate, dermatan sulfate, heparin | + | Glycosaminoglycans (GAGs) are a family of acidic heteropolysaccharides, including such molecules as chondroitin sulfate, dermatan sulfate, heparin and keratan sulfate. Cleavage of the O-glycosidic bond within GAGs can be accomplished by hydrolases as well as lyases, yielding disaccharide and oligosaccharide products. We have determined the crystal structure of chondroitinase B, a glycosaminoglycan lyase from Flavobacterium heparinum, as well as its complex with a dermatan sulfate disaccharide product, both at 1.7 A resolution. Chondroitinase B adopts the right-handed parallel beta-helix fold, found originally in pectate lyase and subsequently in several polysaccharide lyases and hydrolases. Sequence homology between chondroitinase B and a mannuronate lyase from Pseudomonas sp. suggests this protein also adopts the beta-helix fold. Binding of the disaccharide product occurs within a positively charged cleft formed by loops extending from the surface of the beta-helix. Amino acid residues responsible for recognition of the disaccharide, as well as potential catalytic residues, have been identified. Two arginine residues, Arg318 and Arg364, are found to interact with the sulfate group attached to O-4 of N-acetylgalactosamine. Cleavage of dermatan sulfate likely occurs at the reducing end of the disaccharide, with Glu333 possibly acting as the general base. |
==About this Structure== | ==About this Structure== | ||
| - | 1DBO is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pedobacter_heparinus Pedobacter heparinus] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 1DBO is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pedobacter_heparinus Pedobacter heparinus] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBO OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Cygler, M.]] | [[Category: Cygler, M.]] | ||
[[Category: Huang, W.]] | [[Category: Huang, W.]] | ||
| - | [[Category: Kim, Y | + | [[Category: Kim, Y S.]] |
[[Category: Li, Y.]] | [[Category: Li, Y.]] | ||
| - | [[Category: Linhardt, R | + | [[Category: Linhardt, R J.]] |
[[Category: Matte, A.]] | [[Category: Matte, A.]] | ||
[[Category: Su, H.]] | [[Category: Su, H.]] | ||
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[[Category: dematan sulfate]] | [[Category: dematan sulfate]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:15:03 2008'' |
Revision as of 10:15, 21 February 2008
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CRYSTAL STRUCTURE OF CHONDROITINASE B
Overview
Glycosaminoglycans (GAGs) are a family of acidic heteropolysaccharides, including such molecules as chondroitin sulfate, dermatan sulfate, heparin and keratan sulfate. Cleavage of the O-glycosidic bond within GAGs can be accomplished by hydrolases as well as lyases, yielding disaccharide and oligosaccharide products. We have determined the crystal structure of chondroitinase B, a glycosaminoglycan lyase from Flavobacterium heparinum, as well as its complex with a dermatan sulfate disaccharide product, both at 1.7 A resolution. Chondroitinase B adopts the right-handed parallel beta-helix fold, found originally in pectate lyase and subsequently in several polysaccharide lyases and hydrolases. Sequence homology between chondroitinase B and a mannuronate lyase from Pseudomonas sp. suggests this protein also adopts the beta-helix fold. Binding of the disaccharide product occurs within a positively charged cleft formed by loops extending from the surface of the beta-helix. Amino acid residues responsible for recognition of the disaccharide, as well as potential catalytic residues, have been identified. Two arginine residues, Arg318 and Arg364, are found to interact with the sulfate group attached to O-4 of N-acetylgalactosamine. Cleavage of dermatan sulfate likely occurs at the reducing end of the disaccharide, with Glu333 possibly acting as the general base.
About this Structure
1DBO is a Single protein structure of sequence from Pedobacter heparinus with as ligand. Full crystallographic information is available from OCA.
Reference
Crystal structure of chondroitinase B from Flavobacterium heparinum and its complex with a disaccharide product at 1.7 A resolution., Huang W, Matte A, Li Y, Kim YS, Linhardt RJ, Su H, Cygler M, J Mol Biol. 1999 Dec 17;294(5):1257-69. PMID:10600383
Page seeded by OCA on Thu Feb 21 12:15:03 2008
Categories: Pedobacter heparinus | Single protein | Cygler, M. | Huang, W. | Kim, Y S. | Li, Y. | Linhardt, R J. | Matte, A. | Su, H. | SO4 | Active site | Beta-elimination | Dematan sulfate
