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NAD + and Metal-ion Dependent Hydrolysis by Family 4 Glycosidases: Structural Insight into Specificity for Phospho-β- d-glucosides
The import of disaccharides by many bacteria is achieved through their simultaneous translocation and phosphorylation by the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). The imported phospho-disaccharides are, in some cases, subsequently hydrolyzed by members of the unusual gly...
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| Published in: | Journal of molecular biology 2005-02, Vol.346 (2), p.423-435 |
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| Main Authors: | , , , , , , , , |
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| container_end_page | 435 |
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| container_start_page | 423 |
| container_title | Journal of molecular biology |
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| creator | Varrot, Annabelle Yip, Vivian L.Y. Li, Yunsong Rajan, Shyamala S. Yang, Xiaojing Anderson, Wayne F. Thompson, John Withers, Stephen G. Davies, Gideon J. |
| description | The import of disaccharides by many bacteria is achieved through their simultaneous translocation and phosphorylation by the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). The imported phospho-disaccharides are, in some cases, subsequently hydrolyzed by members of the unusual glycoside hydrolase family GH4. The GH4 enzymes, occasionally found also in bacteria such as
Thermotoga maritima that do not utilise a PEP-PTS system, require both NAD
+ and Mn
2+ for catalysis. A further curiosity of this family is that closely related enzymes may show specificity for either α-
d- or β-
d-glycosides. Here, we present, for the first time, the three-dimensional structure (using single-wavelength anomalous dispersion methods, harnessing extensive non-crystallographic symmetry) of the 6-phospho-β-glycosidase, BglT, from
T.
maritima
in native and complexed (NAD
+ and Glc6P) forms. Comparison of the active-center structure with that of the 6-phospho-α-glucosidase GlvA from
Bacillus subtilis reveals a striking degree of structural similarity that, in light of previous kinetic isotope effect data, allows the postulation of a common reaction mechanism for both α and β-glycosidases. Given that the “chemistry” occurs primarily on the glycone sugar and features no nucleophilic attack on the intact disaccharide substrate, modulation of anomeric specificity for α and β-linkages is accommodated through comparatively minor structural changes. |
| doi_str_mv | 10.1016/j.jmb.2004.11.058 |
| format | article |
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Thermotoga maritima that do not utilise a PEP-PTS system, require both NAD
+ and Mn
2+ for catalysis. A further curiosity of this family is that closely related enzymes may show specificity for either α-
d- or β-
d-glycosides. Here, we present, for the first time, the three-dimensional structure (using single-wavelength anomalous dispersion methods, harnessing extensive non-crystallographic symmetry) of the 6-phospho-β-glycosidase, BglT, from
T.
maritima
in native and complexed (NAD
+ and Glc6P) forms. Comparison of the active-center structure with that of the 6-phospho-α-glucosidase GlvA from
Bacillus subtilis reveals a striking degree of structural similarity that, in light of previous kinetic isotope effect data, allows the postulation of a common reaction mechanism for both α and β-glycosidases. Given that the “chemistry” occurs primarily on the glycone sugar and features no nucleophilic attack on the intact disaccharide substrate, modulation of anomeric specificity for α and β-linkages is accommodated through comparatively minor structural changes.</description><identifier>ISSN: 0022-2836</identifier><identifier>EISSN: 1089-8638</identifier><identifier>DOI: 10.1016/j.jmb.2004.11.058</identifier><identifier>PMID: 15670594</identifier><language>eng</language><publisher>England: Elsevier Ltd</publisher><subject>Bacterial Proteins - chemistry ; Binding Sites ; Crystallography, X-Ray ; Disaccharides ; enzyme ; Glucosephosphates - chemistry ; Glucosephosphates - metabolism ; glycosidase ; Glycoside Hydrolases - chemistry ; Glycoside Hydrolases - metabolism ; Hydrolysis ; lyase ; Manganese - chemistry ; mechanism ; NAD - chemistry ; Protein Conformation ; Stereoisomerism ; Substrate Specificity ; Thermotoga maritima - chemistry</subject><ispartof>Journal of molecular biology, 2005-02, Vol.346 (2), p.423-435</ispartof><rights>2004 Elsevier Ltd</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c351t-2445157a5201adfbd88c60a2f606fa6d584729e9e3713b0f0e527d8d9a03cdf53</citedby><cites>FETCH-LOGICAL-c351t-2445157a5201adfbd88c60a2f606fa6d584729e9e3713b0f0e527d8d9a03cdf53</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>315,786,790,27957,27958</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/15670594$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Varrot, Annabelle</creatorcontrib><creatorcontrib>Yip, Vivian L.Y.</creatorcontrib><creatorcontrib>Li, Yunsong</creatorcontrib><creatorcontrib>Rajan, Shyamala S.</creatorcontrib><creatorcontrib>Yang, Xiaojing</creatorcontrib><creatorcontrib>Anderson, Wayne F.</creatorcontrib><creatorcontrib>Thompson, John</creatorcontrib><creatorcontrib>Withers, Stephen G.</creatorcontrib><creatorcontrib>Davies, Gideon J.</creatorcontrib><title>NAD + and Metal-ion Dependent Hydrolysis by Family 4 Glycosidases: Structural Insight into Specificity for Phospho-β- d-glucosides</title><title>Journal of molecular biology</title><addtitle>J Mol Biol</addtitle><description>The import of disaccharides by many bacteria is achieved through their simultaneous translocation and phosphorylation by the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). The imported phospho-disaccharides are, in some cases, subsequently hydrolyzed by members of the unusual glycoside hydrolase family GH4. The GH4 enzymes, occasionally found also in bacteria such as
Thermotoga maritima that do not utilise a PEP-PTS system, require both NAD
+ and Mn
2+ for catalysis. A further curiosity of this family is that closely related enzymes may show specificity for either α-
d- or β-
d-glycosides. Here, we present, for the first time, the three-dimensional structure (using single-wavelength anomalous dispersion methods, harnessing extensive non-crystallographic symmetry) of the 6-phospho-β-glycosidase, BglT, from
T.
maritima
in native and complexed (NAD
+ and Glc6P) forms. Comparison of the active-center structure with that of the 6-phospho-α-glucosidase GlvA from
Bacillus subtilis reveals a striking degree of structural similarity that, in light of previous kinetic isotope effect data, allows the postulation of a common reaction mechanism for both α and β-glycosidases. Given that the “chemistry” occurs primarily on the glycone sugar and features no nucleophilic attack on the intact disaccharide substrate, modulation of anomeric specificity for α and β-linkages is accommodated through comparatively minor structural changes.</description><subject>Bacterial Proteins - chemistry</subject><subject>Binding Sites</subject><subject>Crystallography, X-Ray</subject><subject>Disaccharides</subject><subject>enzyme</subject><subject>Glucosephosphates - chemistry</subject><subject>Glucosephosphates - metabolism</subject><subject>glycosidase</subject><subject>Glycoside Hydrolases - chemistry</subject><subject>Glycoside Hydrolases - metabolism</subject><subject>Hydrolysis</subject><subject>lyase</subject><subject>Manganese - chemistry</subject><subject>mechanism</subject><subject>NAD - chemistry</subject><subject>Protein Conformation</subject><subject>Stereoisomerism</subject><subject>Substrate Specificity</subject><subject>Thermotoga maritima - chemistry</subject><issn>0022-2836</issn><issn>1089-8638</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><recordid>eNp9kM1u1DAURi1ERYfCA7BBXrFBSa_jOHFgVbX0Ryo_UmFtOfZNx6MkDrZTKeu-EQ_CM5EyI7FjdTfnO9I9hLxhkDNg1eku3w1tXgCUOWM5CPmMbBjIJpMVl8_JBqAoskLy6pi8jHEHAIKX8gU5ZqKqQTTlhjx-Obug76keLf2MSfeZ8yO9wAlHi2Oi14sNvl-ii7Rd6KUeXL_Qkl71i_HRWR0xfqB3KcwmzUH39GaM7n6bqBuTp3cTGtc549JCOx_ot62P09Znv39l1Gb3_fzXgfEVOep0H_H14Z6QH5efvp9fZ7dfr27Oz24zwwVLWVGWgolaiwKYtl1rpTQV6KKroOp0ZYUs66LBBnnNeAsdoChqK22jgRvbCX5C3u29U_A_Z4xJDS4a7Hs9op-jqmouOWvYCrI9aIKPMWCnpuAGHRbFQD2VVzu1lldP5RVjai2_bt4e5HM7oP23OKRegY97ANcXHxwGFY3D0aB1AU1S1rv_6P8AiQuVCw</recordid><startdate>20050218</startdate><enddate>20050218</enddate><creator>Varrot, Annabelle</creator><creator>Yip, Vivian L.Y.</creator><creator>Li, Yunsong</creator><creator>Rajan, Shyamala S.</creator><creator>Yang, Xiaojing</creator><creator>Anderson, Wayne F.</creator><creator>Thompson, John</creator><creator>Withers, Stephen G.</creator><creator>Davies, Gideon J.</creator><general>Elsevier Ltd</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>20050218</creationdate><title>NAD + and Metal-ion Dependent Hydrolysis by Family 4 Glycosidases: Structural Insight into Specificity for Phospho-β- d-glucosides</title><author>Varrot, Annabelle ; Yip, Vivian L.Y. ; Li, Yunsong ; Rajan, Shyamala S. ; Yang, Xiaojing ; Anderson, Wayne F. ; Thompson, John ; Withers, Stephen G. ; Davies, Gideon J.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c351t-2445157a5201adfbd88c60a2f606fa6d584729e9e3713b0f0e527d8d9a03cdf53</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>Bacterial Proteins - chemistry</topic><topic>Binding Sites</topic><topic>Crystallography, X-Ray</topic><topic>Disaccharides</topic><topic>enzyme</topic><topic>Glucosephosphates - chemistry</topic><topic>Glucosephosphates - metabolism</topic><topic>glycosidase</topic><topic>Glycoside Hydrolases - chemistry</topic><topic>Glycoside Hydrolases - metabolism</topic><topic>Hydrolysis</topic><topic>lyase</topic><topic>Manganese - chemistry</topic><topic>mechanism</topic><topic>NAD - chemistry</topic><topic>Protein Conformation</topic><topic>Stereoisomerism</topic><topic>Substrate Specificity</topic><topic>Thermotoga maritima - chemistry</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Varrot, Annabelle</creatorcontrib><creatorcontrib>Yip, Vivian L.Y.</creatorcontrib><creatorcontrib>Li, Yunsong</creatorcontrib><creatorcontrib>Rajan, Shyamala S.</creatorcontrib><creatorcontrib>Yang, Xiaojing</creatorcontrib><creatorcontrib>Anderson, Wayne F.</creatorcontrib><creatorcontrib>Thompson, John</creatorcontrib><creatorcontrib>Withers, Stephen G.</creatorcontrib><creatorcontrib>Davies, Gideon J.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Journal of molecular biology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Varrot, Annabelle</au><au>Yip, Vivian L.Y.</au><au>Li, Yunsong</au><au>Rajan, Shyamala S.</au><au>Yang, Xiaojing</au><au>Anderson, Wayne F.</au><au>Thompson, John</au><au>Withers, Stephen G.</au><au>Davies, Gideon J.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>NAD + and Metal-ion Dependent Hydrolysis by Family 4 Glycosidases: Structural Insight into Specificity for Phospho-β- d-glucosides</atitle><jtitle>Journal of molecular biology</jtitle><addtitle>J Mol Biol</addtitle><date>2005-02-18</date><risdate>2005</risdate><volume>346</volume><issue>2</issue><spage>423</spage><epage>435</epage><pages>423-435</pages><issn>0022-2836</issn><eissn>1089-8638</eissn><notes>ObjectType-Article-1</notes><notes>SourceType-Scholarly Journals-1</notes><notes>ObjectType-Feature-2</notes><notes>content type line 23</notes><abstract>The import of disaccharides by many bacteria is achieved through their simultaneous translocation and phosphorylation by the phosphoenolpyruvate-dependent phosphotransferase system (PEP-PTS). The imported phospho-disaccharides are, in some cases, subsequently hydrolyzed by members of the unusual glycoside hydrolase family GH4. The GH4 enzymes, occasionally found also in bacteria such as
Thermotoga maritima that do not utilise a PEP-PTS system, require both NAD
+ and Mn
2+ for catalysis. A further curiosity of this family is that closely related enzymes may show specificity for either α-
d- or β-
d-glycosides. Here, we present, for the first time, the three-dimensional structure (using single-wavelength anomalous dispersion methods, harnessing extensive non-crystallographic symmetry) of the 6-phospho-β-glycosidase, BglT, from
T.
maritima
in native and complexed (NAD
+ and Glc6P) forms. Comparison of the active-center structure with that of the 6-phospho-α-glucosidase GlvA from
Bacillus subtilis reveals a striking degree of structural similarity that, in light of previous kinetic isotope effect data, allows the postulation of a common reaction mechanism for both α and β-glycosidases. Given that the “chemistry” occurs primarily on the glycone sugar and features no nucleophilic attack on the intact disaccharide substrate, modulation of anomeric specificity for α and β-linkages is accommodated through comparatively minor structural changes.</abstract><cop>England</cop><pub>Elsevier Ltd</pub><pmid>15670594</pmid><doi>10.1016/j.jmb.2004.11.058</doi><tpages>13</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0022-2836 |
| ispartof | Journal of molecular biology, 2005-02, Vol.346 (2), p.423-435 |
| issn | 0022-2836 1089-8638 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_67383191 |
| source | ScienceDirect Freedom Collection |
| subjects | Bacterial Proteins - chemistry Binding Sites Crystallography, X-Ray Disaccharides enzyme Glucosephosphates - chemistry Glucosephosphates - metabolism glycosidase Glycoside Hydrolases - chemistry Glycoside Hydrolases - metabolism Hydrolysis lyase Manganese - chemistry mechanism NAD - chemistry Protein Conformation Stereoisomerism Substrate Specificity Thermotoga maritima - chemistry |
| title | NAD + and Metal-ion Dependent Hydrolysis by Family 4 Glycosidases: Structural Insight into Specificity for Phospho-β- d-glucosides |
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