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InterPro: IPR003159 Polysaccharide lyase family 8, central domain
Protein matches
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UniProtKB Matches: 348 proteins |
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Accession
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IPR003159 Lyase_8_central_dom |
Type
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Domain |
Signatures
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InterPro Relationships
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Parent
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IPR014718 Glycoside hydrolase-type carbohydrate-binding, subgroup
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GO Term annotation
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Function
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GO:0016829 lyase activity
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Component
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GO:0005576 extracellular region
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InterPro annotation
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Entry Details in BioMart
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Abstract
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Proteins containing this central domain consist of a group of secreted bacterial lyase enzymes capable of acting on a variety of substrates. One such enzyme is hyaluronate lyase, a Streptococcal surface enzyme that degrades hyaluronan and chondroitin, thereby helping to spread the bacteria throughout host tissues [1]. Hyaluronate lyase (EC:4.2.2.1) is a four-domain enzyme containing an N-terminal carbohydrate-binding domain, a spacer domain, a catalytic domain, and a C-terminal domain that modulates access to the catalytic cleft of the enzyme. The central domain has a beta-sandwich topology, with 18 strands in two sheets. Other bacterial enzymes that display this structure include the central domain of chondroitin AC lyase (EC:4.2.2.5) [2], the central domain of xanthan lyase (EC:4.2.2.12) [3], and the third domain of chondroitin ABC lyase (EC:4.2.2.4) [4]. This entry represents these domains of hyaluronate lyase, chondroitin AC lyase, xanthan lyase and chondroitin ABC lyase. This domain if almost always associated with the polysaccharide lyase family 8 C-terminal domain (IPR004103).
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Structural links
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Database links
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Pfam Clan: CL0103.8
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Publications
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1.
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Rigden DJ, Jedrzejas MJ.
Structures of Streptococcus pneumoniae hyaluronate lyase in complex with chondroitin and chondroitin sulfate disaccharides. Insights into specificity and mechanism of action.
J. Biol. Chem. 278 50596-606 2003
[PubMed: 14523022]
http://dx.doi.org/10.1074/jbc.M307596200
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2.
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Fethiere J, Eggimann B, Cygler M.
Crystal structure of chondroitin AC lyase, a representative of a family of glycosaminoglycan degrading enzymes.
J. Mol. Biol. 288 635-47 1999
[PubMed: 10329169]
http://dx.doi.org/10.1006/jmbi.1999.2698
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3.
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Hashimoto W, Nankai H, Mikami B, Murata K.
Crystal structure of Bacillus sp. GL1 xanthan lyase, which acts on the side chains of xanthan.
J. Biol. Chem. 278 7663-73 2003
[PubMed: 12475987]
http://dx.doi.org/10.1074/jbc.M208100200
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4.
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Huang W, Lunin VV, Li Y, Suzuki S, Sugiura N, Miyazono H, Cygler M.
Crystal structure of Proteus vulgaris chondroitin sulfate ABC lyase I at 1.9A resolution.
J. Mol. Biol. 328 623-34 2003
[PubMed: 12706721]
http://dx.doi.org/10.1016/S0022-2836(03)00345-0
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Additional Reading
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Maruyama Y, Mikami B, Hashimoto W, Murata K.
A structural factor responsible for substrate recognition by Bacillus sp. GL1 xanthan lyase that acts specifically on pyruvated side chains of xanthan.
Biochemistry 46 2007 781-91
[PubMed: 17223699]
http://dx.doi.org/10.1021/bi0619775
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Rigden DJ, Littlejohn JE, Joshi HV, de Groot BL, Jedrzejas MJ.
Alternate structural conformations of Streptococcus pneumoniae hyaluronan lyase: insights into enzyme flexibility and underlying molecular mechanism of action.
J. Mol. Biol. 358 2006 1165-78
[PubMed: 16569416]
http://dx.doi.org/10.1016/j.jmb.2006.02.066
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Farrell AM, Taylor D, Holland KT.
Cloning, nucleotide sequence determination and expression of the Staphylococcus aureus hyaluronate lyase gene.
FEMS Microbiol. Lett. 130 1995 81-5
[PubMed: 7557301]
http://dx.doi.org/10.1016/0378-1097(95)00187-A
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Lunin VV, Li Y, Linhardt RJ, Miyazono H, Kyogashima M, Kaneko T, Bell AW, Cygler M.
High-resolution crystal structure of Arthrobacter aurescens chondroitin AC lyase: an enzyme-substrate complex defines the catalytic mechanism.
J. Mol. Biol. 337 2004 367-86
[PubMed: 15003453]
http://dx.doi.org/10.1016/j.jmb.2003.12.071
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Rigden DJ, Botzki A, Nukui M, Mewbourne RB, Lamani E, Braun S, von Angerer E, Bernhardt G, Dove S, Buschauer A, Jedrzejas MJ.
Design of new benzoxazole-2-thione-derived inhibitors of Streptococcus pneumoniae hyaluronan lyase: structure of a complex with a 2-phenylindole.
Glycobiology 16 2006 757-65
[PubMed: 16638841]
http://dx.doi.org/10.1093/glycob/cwj116
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Maruyama Y, Hashimoto W, Mikami B, Murata K.
Crystal structure of Bacillus sp. GL1 xanthan lyase complexed with a substrate: insights into the enzyme reaction mechanism.
J. Mol. Biol. 350 2005 974-86
[PubMed: 15979090]
http://dx.doi.org/10.1016/j.jmb.2005.05.055
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InterPro 23.1
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