5ngl

From Proteopedia

(Difference between revisions)

Revision as of 12:55, 15 November 2023

The endo-beta1,6-glucanase BT3312

Structural highlights

5ngl is a 3 chain structure with sequence from Bacteroides thetaiotaomicron. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.85Å
Ligands:	, ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q8A2J3_BACTN

Publication Abstract from PubMed

Glycans are major nutrients available to the human gut microbiota (HGM). The Bacteroides are generalist glycan degraders and this function is mediated largely by polysaccharide utilization loci (PULs). The genomes of several Bacteroides species contain a PUL, PUL1,6-beta;-glucan, that was predicted to target mixed linked plant 1,3;1,4-beta-glucans. To test this hypothesis we characterized the proteins encoded by this locus in Bacteroides thetaiotaomicron, a member of the HGM. We show here that PUL1,6-beta-glucan does not orchestrate the degradation of a plant polysaccharide but targets a fungal cell wall glycan, 1,6-beta-glucan, which is a growth substrate for the bacterium. The locus is upregulated by 1,6-beta-glucan, and encodes two enzymes, a surface endo-1,6-beta-glucanase, BT3312, and a periplasmic beta-glucosidase that targets primarily 1,6-beta-glucans. The non-catalytic proteins encoded by PUL1,6-beta-glucan target 1,6-beta-glucans and comprise a surface glycan binding protein and a SusD homologue that delivers glycans to the outer membrane transporter. We identified the central role of the endo-1,6-beta-glucanase in 1,6-beta-glucan depolymerization by deleting bt3312, which prevented the growth of B. thetaiotaomicron on 1,6-beta-glucan. The crystal structure of BT3312 in complex with beta-glucosyl-1,6-deoxynojirimycin, revealed a TIM barrel catalytic domain that contains a deep substrate binding cleft tailored to accommodate the hook-like structure adopted by 1,6-beta-glucan. Specificity is driven by the complementarity of the enzyme active site cleft and the conformation of the substrate. We also noted that PUL1,6-beta-glucan is syntenic to many PULs from other Bacteroidetes suggesting that utilization of yeast and fungal cell wall 1,6-beta-glucans is a widespread adaptation within the human microbiota.

A Bacteroidetes locus dedicated to fungal 1,6-beta-glucan degradation: unique substrate conformation drives specificity of the key endo-1,6-beta-glucanase.,Temple MJ, Cuskin F, Basle A, Hickey N, Speciale G, Williams SJ, Gilbert HJ, Lowe EC J Biol Chem. 2017 May 1. pii: jbc.M117.787606. doi: 10.1074/jbc.M117.787606. PMID:28461332^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Temple MJ, Cuskin F, Basle A, Hickey N, Speciale G, Williams SJ, Gilbert HJ, Lowe EC. A Bacteroidetes locus dedicated to fungal 1,6-beta-glucan degradation: unique substrate conformation drives specificity of the key endo-1,6-beta-glucanase. J Biol Chem. 2017 May 1. pii: jbc.M117.787606. doi: 10.1074/jbc.M117.787606. PMID:28461332 doi:http://dx.doi.org/10.1074/jbc.M117.787606

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5ngl"

@@ Line 1: / Line 1: @@
 ==The endo-beta1,6-glucanase BT3312==
-<StructureSection load='5ngl' size='340' side='right' caption='[[5ngl]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
+<StructureSection load='5ngl' size='340' side='right'caption='[[5ngl]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5ngl]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_thetaiotaomicron"_distaso_1912 "bacillus thetaiotaomicron" distaso 1912]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NGL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NGL FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5ngl]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_thetaiotaomicron Bacteroides thetaiotaomicron]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NGL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NGL FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NOJ:1-DEOXYNOJIRIMYCIN'>NOJ</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.85&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ERS852430_01553 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=818 "Bacillus thetaiotaomicron" Distaso 1912])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NOJ:1-DEOXYNOJIRIMYCIN'>NOJ</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ngl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ngl OCA], [http://pdbe.org/5ngl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ngl RCSB], [http://www.ebi.ac.uk/pdbsum/5ngl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ngl ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5ngl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ngl OCA], [https://pdbe.org/5ngl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ngl RCSB], [https://www.ebi.ac.uk/pdbsum/5ngl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ngl ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q8A2J3_BACTN Q8A2J3_BACTN]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 17: / Line 19: @@
 </div>
 <div class="pdbe-citations 5ngl" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Glucanase 3D structures|Glucanase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Bacillus thetaiotaomicron distaso 1912]]
+[[Category: Bacteroides thetaiotaomicron]]
-[[Category: Basle, A]]
+[[Category: Large Structures]]
-[[Category: Cuskin, F]]
+[[Category: Basle A]]
-[[Category: Gilbert, H]]
+[[Category: Cuskin F]]
-[[Category: Lowe, E]]
+[[Category: Gilbert H]]
-[[Category: Temple, M]]
+[[Category: Lowe E]]
-[[Category: 6-clucanase]]
+[[Category: Temple M]]
-[[Category: 6-glucan]]
-[[Category: Bacteroide]]
-[[Category: Beta-1]]
-[[Category: Endo-beta1]]
-[[Category: Glycoside hydrolase]]
-[[Category: Human gut microbiota]]
-[[Category: Hydrolase]]
-[[Category: Yeast glycan]]

5ngl

From Proteopedia

Revision as of 12:55, 15 November 2023

The endo-beta1,6-glucanase BT3312

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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