2vng: Difference between revisions
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'''FAMILY 51 CARBOHYDRATE BINDING MODULE FROM A FAMILY 98 GLYCOSIDE HYDROLASE PRODUCED BY CLOSTRIDIUM PERFRINGENS IN COMPLEX WITH BLOOD GROUP A-TRISACCHARIDE LIGAND.'''<br /> | '''FAMILY 51 CARBOHYDRATE BINDING MODULE FROM A FAMILY 98 GLYCOSIDE HYDROLASE PRODUCED BY CLOSTRIDIUM PERFRINGENS IN COMPLEX WITH BLOOD GROUP A-TRISACCHARIDE LIGAND.'''<br /> | ||
==Overview== | |||
The genomes of myonecrotic Clostridium perfringens isolates contain genes encoding a large and fascinating array of highly modular glycoside hydrolase enzymes. Though the catalytic activities of many of these enzymes are somewhat predictable based on their amino acid sequences the functions of their abundant ancillary modules are not and these remain poorly studied. Here we present the structural and functional analysis of a new family of ancillary carbohydrate-binding module (CBM), CBM51, which was previously annotated in databases as the NPCBM domain. The high resolution crystal structures of two CBM51 examples, GH95CBM51 and GH98CBM51, from a putative family 95 alpha-fucosidase and from a family 98 blood group A/B-antigen specific endo-beta-galactosidase, respectively, showed them to have highly similar beta-sandwich folds. However, GH95CBM51 was shown by glycan microarray screening, isothermal titration calorimetry, and X-ray crystallography to bind galactose residues while the same analysis of GH98CBM51 revealed specificity for the blood group A/B-antigens through non-conserved interactions. Overall, this work identifies a new family of CBMs with many members having apparent specificity for eukaryotic glycans, in keeping with the glycan rich environment C. perfringens would experience in its host. However, a wider bioinformatic analysis of this CBM family also indicated a large number of members in non-pathogenic environmental bacteria suggesting a role in the recognition of environmental glycans. | |||
==About this Structure== | ==About this Structure== | ||
2VNG is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens] with <scene name='pdbligand=CA:'>CA</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Known structural/functional Sites: <scene name='pdbsite=AC1:Binding+Site+For+Residue+A2g+B+1211'>AC1</scene>, <scene name='pdbsite=AC2:Binding+Site+For+Residue+Gal+B+1212'>AC2</scene>, <scene name='pdbsite=AC3:Binding+Site+For+Residue+Fuc+B+1213'>AC3</scene>, <scene name='pdbsite=AC4:Binding+Site+For+Residue+A2g+A+1210'>AC4</scene>, <scene name='pdbsite=AC5:Binding+Site+For+Residue+Gal+A+1211'>AC5</scene>, <scene name='pdbsite=AC6:Binding+Site+For+Residue+Fuc+A+1212'>AC6</scene>, <scene name='pdbsite=AC7:Binding+Site+For+Residue+Ca+A+1213'>AC7</scene> and <scene name='pdbsite=AC8:Binding+Site+For+Residue+Ca+B+1214'>AC8</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VNG OCA]. | 2VNG is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens] with <scene name='pdbligand=CA:'>CA</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Known structural/functional Sites: <scene name='pdbsite=AC1:Binding+Site+For+Residue+A2g+B+1211'>AC1</scene>, <scene name='pdbsite=AC2:Binding+Site+For+Residue+Gal+B+1212'>AC2</scene>, <scene name='pdbsite=AC3:Binding+Site+For+Residue+Fuc+B+1213'>AC3</scene>, <scene name='pdbsite=AC4:Binding+Site+For+Residue+A2g+A+1210'>AC4</scene>, <scene name='pdbsite=AC5:Binding+Site+For+Residue+Gal+A+1211'>AC5</scene>, <scene name='pdbsite=AC6:Binding+Site+For+Residue+Fuc+A+1212'>AC6</scene>, <scene name='pdbsite=AC7:Binding+Site+For+Residue+Ca+A+1213'>AC7</scene> and <scene name='pdbsite=AC8:Binding+Site+For+Residue+Ca+B+1214'>AC8</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VNG OCA]. | ||
==Reference== | |||
Divergent modes of glycan recognition by a new family of carbohydrate-binding modules., Gregg KJ, Finn R, Abbott DW, Boraston AB, J Biol Chem. 2008 Feb 21;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18292090 18292090] | |||
[[Category: Clostridium perfringens]] | [[Category: Clostridium perfringens]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: Boraston, A B.]] | [[Category: Boraston, A B.]] | ||
[[Category: Finn, R.]] | [[Category: Finn, R.]] | ||
[[Category: Gregg, K.]] | [[Category: Gregg, K J.]] | ||
[[Category: CA]] | [[Category: CA]] | ||
[[Category: a-trisaccharide]] | [[Category: a-trisaccharide]] | ||
[[Category: blood group antigen]] | [[Category: blood group antigen]] | ||
[[Category: clostridium | [[Category: clostridium perfringen]] | ||
[[Category: family 51 carbohydrate binding module]] | [[Category: family 51 carbohydrate binding module]] | ||
[[Category: family 98 glycoside hydrolase]] | [[Category: family 98 glycoside hydrolase]] | ||
[[Category: hydrolase]] | [[Category: hydrolase]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 5 13:25:57 2008'' | ||
Revision as of 14:25, 5 March 2008
|
FAMILY 51 CARBOHYDRATE BINDING MODULE FROM A FAMILY 98 GLYCOSIDE HYDROLASE PRODUCED BY CLOSTRIDIUM PERFRINGENS IN COMPLEX WITH BLOOD GROUP A-TRISACCHARIDE LIGAND.
OverviewOverview
The genomes of myonecrotic Clostridium perfringens isolates contain genes encoding a large and fascinating array of highly modular glycoside hydrolase enzymes. Though the catalytic activities of many of these enzymes are somewhat predictable based on their amino acid sequences the functions of their abundant ancillary modules are not and these remain poorly studied. Here we present the structural and functional analysis of a new family of ancillary carbohydrate-binding module (CBM), CBM51, which was previously annotated in databases as the NPCBM domain. The high resolution crystal structures of two CBM51 examples, GH95CBM51 and GH98CBM51, from a putative family 95 alpha-fucosidase and from a family 98 blood group A/B-antigen specific endo-beta-galactosidase, respectively, showed them to have highly similar beta-sandwich folds. However, GH95CBM51 was shown by glycan microarray screening, isothermal titration calorimetry, and X-ray crystallography to bind galactose residues while the same analysis of GH98CBM51 revealed specificity for the blood group A/B-antigens through non-conserved interactions. Overall, this work identifies a new family of CBMs with many members having apparent specificity for eukaryotic glycans, in keeping with the glycan rich environment C. perfringens would experience in its host. However, a wider bioinformatic analysis of this CBM family also indicated a large number of members in non-pathogenic environmental bacteria suggesting a role in the recognition of environmental glycans.
About this StructureAbout this Structure
2VNG is a Single protein structure of sequence from Clostridium perfringens with as ligand. Known structural/functional Sites: , , , , , , and . Full crystallographic information is available from OCA.
ReferenceReference
Divergent modes of glycan recognition by a new family of carbohydrate-binding modules., Gregg KJ, Finn R, Abbott DW, Boraston AB, J Biol Chem. 2008 Feb 21;. PMID:18292090
Page seeded by OCA on Wed Mar 5 13:25:57 2008