The laterally acquired GH5 Zg EngA GH5_4 from the marine bacterium Zobellia galactanivorans is dedicated to hemicellulose hydrolysis
Cell walls of marine macroalgae are composed of diverse polysaccharides that provide abundant carbon sources for marine heterotrophic bacteria. Among them, is considered as a model for studying algae-bacteria interactions. The degradation of typical algal polysaccharides, such as agars or alginate,...
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Veröffentlicht in: | Biochemical journal 2018-11, Vol.475 (22), p.3609 |
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creator | Dorival, Jonathan Ruppert, Sophie Gunnoo, Melissa Orłowski, Adam Chapelais-Baron, Maylis Dabin, Jérôme Labourel, Aurore Thompson, Damien Michel, Gurvan Czjzek, Mirjam Genicot, Sabine |
description | Cell walls of marine macroalgae are composed of diverse polysaccharides that provide abundant carbon sources for marine heterotrophic bacteria. Among them,
is considered as a model for studying algae-bacteria interactions. The degradation of typical algal polysaccharides, such as agars or alginate, has been intensively studied in this model bacterium, but the catabolism of plant-like polysaccharides is essentially uncharacterized. Here, we identify a polysaccharide utilization locus in the genome of
, induced by laminarin (β-1,3-glucans), and containing a putative GH5 subfamily 4 (GH5_4) enzyme, currently annotated as a endoglucanase (
EngA
). A phylogenetic analysis indicates that
EngA
was laterally acquired from an ancestral
We performed the biochemical and structural characterization of
EngA
and demonstrated that this GH5 is, in fact, an endo-β-glucanase, most active on mixed-linked glucan (MLG). Although
EngA
and GH16 lichenases both hydrolyze MLG, these two types of enzymes release different series of oligosaccharides. Structural analyses of
EngA
reveal that all the amino acid residues involved in the catalytic triad and in the negative glucose-binding subsites are conserved, when compared with the closest relative, the cellulase EngD from
, and some other GH5s. In contrast, the positive glucose-binding subsites of
EngA
are different and this could explain the preference for MLG, with respect to cellulose or laminarin. Molecular dynamics computer simulations using different hexaoses reveal that the specificity for MLG occurs through the +1 and +2 subsites of the binding pocket that display the most important differences when compared with the structures of other GH5_4 enzymes. |
format | Article |
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is considered as a model for studying algae-bacteria interactions. The degradation of typical algal polysaccharides, such as agars or alginate, has been intensively studied in this model bacterium, but the catabolism of plant-like polysaccharides is essentially uncharacterized. Here, we identify a polysaccharide utilization locus in the genome of
, induced by laminarin (β-1,3-glucans), and containing a putative GH5 subfamily 4 (GH5_4) enzyme, currently annotated as a endoglucanase (
EngA
). A phylogenetic analysis indicates that
EngA
was laterally acquired from an ancestral
We performed the biochemical and structural characterization of
EngA
and demonstrated that this GH5 is, in fact, an endo-β-glucanase, most active on mixed-linked glucan (MLG). Although
EngA
and GH16 lichenases both hydrolyze MLG, these two types of enzymes release different series of oligosaccharides. Structural analyses of
EngA
reveal that all the amino acid residues involved in the catalytic triad and in the negative glucose-binding subsites are conserved, when compared with the closest relative, the cellulase EngD from
, and some other GH5s. In contrast, the positive glucose-binding subsites of
EngA
are different and this could explain the preference for MLG, with respect to cellulose or laminarin. Molecular dynamics computer simulations using different hexaoses reveal that the specificity for MLG occurs through the +1 and +2 subsites of the binding pocket that display the most important differences when compared with the structures of other GH5_4 enzymes.</description><identifier>EISSN: 1470-8728</identifier><identifier>PMID: 30341165</identifier><language>eng</language><publisher>England</publisher><subject>Amino Acid Sequence ; Bacterial Proteins - chemistry ; Bacterial Proteins - genetics ; Bacterial Proteins - metabolism ; Flavobacteriaceae - enzymology ; Flavobacteriaceae - genetics ; Gene Transfer, Horizontal ; Glycoside Hydrolases - classification ; Glycoside Hydrolases - genetics ; Glycoside Hydrolases - metabolism ; Hydrolysis ; Models, Molecular ; Molecular Dynamics Simulation ; Mutation ; Phylogeny ; Polysaccharides - metabolism ; Protein Conformation ; Seawater - microbiology ; Sequence Homology, Amino Acid ; Substrate Specificity</subject><ispartof>Biochemical journal, 2018-11, Vol.475 (22), p.3609</ispartof><rights>2018 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><orcidid>0000-0003-1286-8838 ; 0000-0003-4337-4646</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>315,782,786</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/30341165$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Dorival, Jonathan</creatorcontrib><creatorcontrib>Ruppert, Sophie</creatorcontrib><creatorcontrib>Gunnoo, Melissa</creatorcontrib><creatorcontrib>Orłowski, Adam</creatorcontrib><creatorcontrib>Chapelais-Baron, Maylis</creatorcontrib><creatorcontrib>Dabin, Jérôme</creatorcontrib><creatorcontrib>Labourel, Aurore</creatorcontrib><creatorcontrib>Thompson, Damien</creatorcontrib><creatorcontrib>Michel, Gurvan</creatorcontrib><creatorcontrib>Czjzek, Mirjam</creatorcontrib><creatorcontrib>Genicot, Sabine</creatorcontrib><title>The laterally acquired GH5 Zg EngA GH5_4 from the marine bacterium Zobellia galactanivorans is dedicated to hemicellulose hydrolysis</title><title>Biochemical journal</title><addtitle>Biochem J</addtitle><description>Cell walls of marine macroalgae are composed of diverse polysaccharides that provide abundant carbon sources for marine heterotrophic bacteria. Among them,
is considered as a model for studying algae-bacteria interactions. The degradation of typical algal polysaccharides, such as agars or alginate, has been intensively studied in this model bacterium, but the catabolism of plant-like polysaccharides is essentially uncharacterized. Here, we identify a polysaccharide utilization locus in the genome of
, induced by laminarin (β-1,3-glucans), and containing a putative GH5 subfamily 4 (GH5_4) enzyme, currently annotated as a endoglucanase (
EngA
). A phylogenetic analysis indicates that
EngA
was laterally acquired from an ancestral
We performed the biochemical and structural characterization of
EngA
and demonstrated that this GH5 is, in fact, an endo-β-glucanase, most active on mixed-linked glucan (MLG). Although
EngA
and GH16 lichenases both hydrolyze MLG, these two types of enzymes release different series of oligosaccharides. Structural analyses of
EngA
reveal that all the amino acid residues involved in the catalytic triad and in the negative glucose-binding subsites are conserved, when compared with the closest relative, the cellulase EngD from
, and some other GH5s. In contrast, the positive glucose-binding subsites of
EngA
are different and this could explain the preference for MLG, with respect to cellulose or laminarin. Molecular dynamics computer simulations using different hexaoses reveal that the specificity for MLG occurs through the +1 and +2 subsites of the binding pocket that display the most important differences when compared with the structures of other GH5_4 enzymes.</description><subject>Amino Acid Sequence</subject><subject>Bacterial Proteins - chemistry</subject><subject>Bacterial Proteins - genetics</subject><subject>Bacterial Proteins - metabolism</subject><subject>Flavobacteriaceae - enzymology</subject><subject>Flavobacteriaceae - genetics</subject><subject>Gene Transfer, Horizontal</subject><subject>Glycoside Hydrolases - classification</subject><subject>Glycoside Hydrolases - genetics</subject><subject>Glycoside Hydrolases - metabolism</subject><subject>Hydrolysis</subject><subject>Models, Molecular</subject><subject>Molecular Dynamics Simulation</subject><subject>Mutation</subject><subject>Phylogeny</subject><subject>Polysaccharides - metabolism</subject><subject>Protein Conformation</subject><subject>Seawater - microbiology</subject><subject>Sequence Homology, Amino Acid</subject><subject>Substrate Specificity</subject><issn>1470-8728</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFjs1uwjAQhC0kVP76CmhfAMkhpnBFFYUH4MQl2sRLstU6BjuplHsfHCPRc08zGn2zOyM1zcxWr3bb9W6iZjF-a50ZbfSbmuQ6N1n2sZmq33NDINhRQJEBsLr3HMjC8bSBSw2Htt4_fWHgGryDLtEOA7cEJVapxb2Diy9JhBFqlBRiyz8-YBuBI1iyXKXzFjoPDTmuEtqLjwTNYIOXIXJcqPEVJdL7S-dq-XU4f55Wt750ZItb4PR0KP5m5_8CD4NcTt4</recordid><startdate>20181128</startdate><enddate>20181128</enddate><creator>Dorival, Jonathan</creator><creator>Ruppert, Sophie</creator><creator>Gunnoo, Melissa</creator><creator>Orłowski, Adam</creator><creator>Chapelais-Baron, Maylis</creator><creator>Dabin, Jérôme</creator><creator>Labourel, Aurore</creator><creator>Thompson, Damien</creator><creator>Michel, Gurvan</creator><creator>Czjzek, Mirjam</creator><creator>Genicot, Sabine</creator><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><orcidid>https://orcid.org/0000-0003-1286-8838</orcidid><orcidid>https://orcid.org/0000-0003-4337-4646</orcidid></search><sort><creationdate>20181128</creationdate><title>The laterally acquired GH5 Zg EngA GH5_4 from the marine bacterium Zobellia galactanivorans is dedicated to hemicellulose hydrolysis</title><author>Dorival, Jonathan ; Ruppert, Sophie ; Gunnoo, Melissa ; Orłowski, Adam ; Chapelais-Baron, Maylis ; Dabin, Jérôme ; Labourel, Aurore ; Thompson, Damien ; Michel, Gurvan ; Czjzek, Mirjam ; Genicot, Sabine</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-pubmed_primary_303411653</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Amino Acid Sequence</topic><topic>Bacterial Proteins - chemistry</topic><topic>Bacterial Proteins - genetics</topic><topic>Bacterial Proteins - metabolism</topic><topic>Flavobacteriaceae - enzymology</topic><topic>Flavobacteriaceae - genetics</topic><topic>Gene Transfer, Horizontal</topic><topic>Glycoside Hydrolases - classification</topic><topic>Glycoside Hydrolases - genetics</topic><topic>Glycoside Hydrolases - metabolism</topic><topic>Hydrolysis</topic><topic>Models, Molecular</topic><topic>Molecular Dynamics Simulation</topic><topic>Mutation</topic><topic>Phylogeny</topic><topic>Polysaccharides - metabolism</topic><topic>Protein Conformation</topic><topic>Seawater - microbiology</topic><topic>Sequence Homology, Amino Acid</topic><topic>Substrate Specificity</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Dorival, Jonathan</creatorcontrib><creatorcontrib>Ruppert, Sophie</creatorcontrib><creatorcontrib>Gunnoo, Melissa</creatorcontrib><creatorcontrib>Orłowski, Adam</creatorcontrib><creatorcontrib>Chapelais-Baron, Maylis</creatorcontrib><creatorcontrib>Dabin, Jérôme</creatorcontrib><creatorcontrib>Labourel, Aurore</creatorcontrib><creatorcontrib>Thompson, Damien</creatorcontrib><creatorcontrib>Michel, Gurvan</creatorcontrib><creatorcontrib>Czjzek, Mirjam</creatorcontrib><creatorcontrib>Genicot, Sabine</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><jtitle>Biochemical journal</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Dorival, Jonathan</au><au>Ruppert, Sophie</au><au>Gunnoo, Melissa</au><au>Orłowski, Adam</au><au>Chapelais-Baron, Maylis</au><au>Dabin, Jérôme</au><au>Labourel, Aurore</au><au>Thompson, Damien</au><au>Michel, Gurvan</au><au>Czjzek, Mirjam</au><au>Genicot, Sabine</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>The laterally acquired GH5 Zg EngA GH5_4 from the marine bacterium Zobellia galactanivorans is dedicated to hemicellulose hydrolysis</atitle><jtitle>Biochemical journal</jtitle><addtitle>Biochem J</addtitle><date>2018-11-28</date><risdate>2018</risdate><volume>475</volume><issue>22</issue><spage>3609</spage><pages>3609-</pages><eissn>1470-8728</eissn><abstract>Cell walls of marine macroalgae are composed of diverse polysaccharides that provide abundant carbon sources for marine heterotrophic bacteria. Among them,
is considered as a model for studying algae-bacteria interactions. The degradation of typical algal polysaccharides, such as agars or alginate, has been intensively studied in this model bacterium, but the catabolism of plant-like polysaccharides is essentially uncharacterized. Here, we identify a polysaccharide utilization locus in the genome of
, induced by laminarin (β-1,3-glucans), and containing a putative GH5 subfamily 4 (GH5_4) enzyme, currently annotated as a endoglucanase (
EngA
). A phylogenetic analysis indicates that
EngA
was laterally acquired from an ancestral
We performed the biochemical and structural characterization of
EngA
and demonstrated that this GH5 is, in fact, an endo-β-glucanase, most active on mixed-linked glucan (MLG). Although
EngA
and GH16 lichenases both hydrolyze MLG, these two types of enzymes release different series of oligosaccharides. Structural analyses of
EngA
reveal that all the amino acid residues involved in the catalytic triad and in the negative glucose-binding subsites are conserved, when compared with the closest relative, the cellulase EngD from
, and some other GH5s. In contrast, the positive glucose-binding subsites of
EngA
are different and this could explain the preference for MLG, with respect to cellulose or laminarin. Molecular dynamics computer simulations using different hexaoses reveal that the specificity for MLG occurs through the +1 and +2 subsites of the binding pocket that display the most important differences when compared with the structures of other GH5_4 enzymes.</abstract><cop>England</cop><pmid>30341165</pmid><orcidid>https://orcid.org/0000-0003-1286-8838</orcidid><orcidid>https://orcid.org/0000-0003-4337-4646</orcidid></addata></record> |
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subjects | Amino Acid Sequence Bacterial Proteins - chemistry Bacterial Proteins - genetics Bacterial Proteins - metabolism Flavobacteriaceae - enzymology Flavobacteriaceae - genetics Gene Transfer, Horizontal Glycoside Hydrolases - classification Glycoside Hydrolases - genetics Glycoside Hydrolases - metabolism Hydrolysis Models, Molecular Molecular Dynamics Simulation Mutation Phylogeny Polysaccharides - metabolism Protein Conformation Seawater - microbiology Sequence Homology, Amino Acid Substrate Specificity |
title | The laterally acquired GH5 Zg EngA GH5_4 from the marine bacterium Zobellia galactanivorans is dedicated to hemicellulose hydrolysis |
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