2xvl

From Proteopedia

(Difference between revisions)

Current revision

crystal structure of alpha-xylosidase (GH31) from Cellvibrio japonicus in complex with Pentaerythritol propoxylate (5 4 PO OH)

Structural highlights

2xvl is a 1 chain structure with sequence from Cellvibrio japonicus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.3Å
Ligands:	, , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

B3PBD9_CELJU

Publication Abstract from PubMed

The desire for improved methods of biomass conversion to fuels and feedstocks has re-awakened interest in the enzymology of plant cell wall degradation. The complex polysaccharide xyloglucan is abundant in plant matter, where it may account for up to 20% of the total primary cell wall carbohydrates. Despite this, few studies have focussed on xyloglucan saccharification, which requires a consortium of enzymes including endo-xyloglucanases, alpha-xylosidases, betagalactosidases and alpha-l-fucosidases, among others. Here, we present the characterisation of Xyl31A, a key alpha-xylosidase in xyloglucan utilisation by the model Gram-negative soil saprophyte Cellvibrio japonicus. CjXyl31A exhibits high regiospecificity for the hydrolysis xylogluco-oligosaccharides, with a particular preference for longer substrates. Crystallographic structures of both the apo enzyme and the trapped covalent 5-fluoro-beta-xylosyl-enzyme intermediate, together with docking studies with the XXXG heptasaccharide, revealed, for the first time in glycoside hydrolase family 31, the importance of a PA14 domain insert in the recognition of longer oligosaccharides by extension of the active site pocket. The observation that CjXyl31A was localised to the outer membrane provided support for a biological model of xyloglucan utilisation by C. japonicus, in which xylogluco-oligosaccharides generated by the action of a secreted endo-xyloglucanase are ultimately degraded in close proximity to the cell surface. Moreover, this study diversifies the toolbox of glycosidases for the specific modification and saccharification of cell wall polymers for biotechnological applications.

Structural and enzymatic characterisation of a Glycoside Hydrolase Family 31 alphaxylosidase from Cellvibrio japonicus involved in xyloglucan saccharification.,Larsbrink J, Izumi A, Ibatullin F, Nakhai A, Gilbert HJ, Davies GJ, Brumer H Biochem J. 2011 Mar 22. PMID:21426303^[1]

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

References

↑ Larsbrink J, Izumi A, Ibatullin F, Nakhai A, Gilbert HJ, Davies GJ, Brumer H. Structural and enzymatic characterisation of a Glycoside Hydrolase Family 31 alphaxylosidase from Cellvibrio japonicus involved in xyloglucan saccharification. Biochem J. 2011 Mar 22. PMID:21426303 doi:10.1042/BJ20110299

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/2xvl"

@@ Line 3: / Line 3: @@
 <StructureSection load='2xvl' size='340' side='right'caption='[[2xvl]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2xvl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/"cellvibrio_cellulosa"_nagy_et_al._2002 "cellvibrio cellulosa" nagy et al. 2002]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XVL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XVL FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2xvl]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Cellvibrio_japonicus Cellvibrio japonicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XVL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XVL FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.3&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[2xvg|2xvg]], [[2xvk|2xvk]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=PXN:(2S)-1-[3-{[(2R)-2-HYDROXYPROPYL]OXY}-2,2-BIS({[(2R)-2-HYDROXYPROPYL]OXY}METHYL)PROPOXY]PROPAN-2-OL'>PXN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=2xvl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xvl OCA], [https://pdbe.org/2xvl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xvl RCSB], [https://www.ebi.ac.uk/pdbsum/2xvl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xvl ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/B3PBD9_CELJU B3PBD9_CELJU]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 25: / Line 27: @@
 __TOC__
 </StructureSection>
-[[Category: Cellvibrio cellulosa nagy et al. 2002]]
+[[Category: Cellvibrio japonicus]]
 [[Category: Large Structures]]
-[[Category: Brumer, H]]
+[[Category: Brumer H]]
-[[Category: Davies, G J]]
+[[Category: Davies GJ]]
-[[Category: Gilbert, H J]]
+[[Category: Gilbert HJ]]
-[[Category: Ibatullin, F]]
+[[Category: Ibatullin F]]
-[[Category: Izumi, A]]
+[[Category: Izumi A]]
-[[Category: Larsbrink, J]]
+[[Category: Larsbrink J]]
-[[Category: Nakhai, A]]
+[[Category: Nakhai A]]
-[[Category: Glycosyl hydrolase family 31]]
-[[Category: Hydrolase]]

2xvl

From Proteopedia

Current revision

crystal structure of alpha-xylosidase (GH31) from Cellvibrio japonicus in complex with Pentaerythritol propoxylate (5 4 PO OH)

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox