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3ur8

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Revision as of 07:59, 20 July 2022

Lower-density crystal structure of potato endo-1,3-beta-glucanase

Structural highlights

3ur8 is a 2 chain structure with sequence from Potato. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Related:	1ghs, 2cyg, 3em5, 3f55, 3ur7
Gene:	gluB20-2 (Potato)
Activity:	Glucan endo-1,3-beta-D-glucosidase, with EC number 3.2.1.39
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

Endo-1,3-beta-glucanases are widely distributed among bacteria, fungi and higher plants. They are responsible for hydrolysis of the glycosidic bond in specific polysaccharides with tracts of unsubstituted beta-1,3-linked glucosyl residues. The plant enzymes belong to glycoside hydrolase family 17 (GH17) and are also members of class 2 of pathogenesis-related (PR) proteins. X-ray diffraction data were collected to 1.40 and 1.26 A resolution from two crystals of endo-1,3-beta-glucanase from Solanum tuberosum (potato, cultivar Desiree) which, despite having a similar packing framework, represented two separate crystal forms. In particular, they differed in the Matthews coefficient and are consequently referred to as higher density (HD; 1.40 A resolution) and lower density (LD; 1.26 A resolution) forms. The general fold of the protein resembles that of other known plant endo-1,3-beta-glucanases and is defined by a (beta/alpha)(8)-barrel with an additional subdomain built around the C-terminal half of the barrel. The structures revealed high flexibility of the subdomain, which forms part of the catalytic cleft. Comparison with structures of other GH17 endo-1,3-beta-glucanases revealed differences in the arrangement of the secondary-structure elements in this region, which can be correlated with sequence variability and may suggest distinct substrate-binding patterns. The crystal structures revealed an unusual packing mode, clearly visible in the LD structure, caused by the presence of the C-terminal His(6) tag, which extends from the compact fold of the enzyme molecule and docks in the catalytic cleft of a neighbouring molecule. In this way, an infinite chain of His-tag-linked protein molecules is formed along the c direction.

Two high-resolution structures of potato endo-1,3-beta-glucanase reveal subdomain flexibility with implications for substrate binding.,Wojtkowiak A, Witek K, Hennig J, Jaskolski M Acta Crystallogr D Biol Crystallogr. 2012 Jun;68(Pt 6):713-23. doi:, 10.1107/S090744491200995X. Epub 2012 May 17. PMID:22683794^[1]

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

References

↑ Wojtkowiak A, Witek K, Hennig J, Jaskolski M. Two high-resolution structures of potato endo-1,3-beta-glucanase reveal subdomain flexibility with implications for substrate binding. Acta Crystallogr D Biol Crystallogr. 2012 Jun;68(Pt 6):713-23. doi:, 10.1107/S090744491200995X. Epub 2012 May 17. PMID:22683794 doi:http://dx.doi.org/10.1107/S090744491200995X

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ur8"

@@ Line 1: / Line 1: @@
 ==Lower-density crystal structure of potato endo-1,3-beta-glucanase==
-<StructureSection load='3ur8' size='340' side='right' caption='[[3ur8]], [[Resolution|resolution]] 1.26&Aring;' scene=''>
+<StructureSection load='3ur8' size='340' side='right'caption='[[3ur8]], [[Resolution|resolution]] 1.26&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ur8]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Potato Potato]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UR8 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3UR8 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ur8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Potato Potato]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3UR8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3UR8 FirstGlance]. <br>
-</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1ghs|1ghs]], [[2cyg|2cyg]], [[3em5|3em5]], [[3f55|3f55]], [[3ur7|3ur7]]</td></tr>
+</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1ghs|1ghs]], [[2cyg|2cyg]], [[3em5|3em5]], [[3f55|3f55]], [[3ur7|3ur7]]</div></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gluB20-2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4113 Potato])</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gluB20-2 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4113 Potato])</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Glucan_endo-1,3-beta-D-glucosidase Glucan endo-1,3-beta-D-glucosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.39 3.2.1.39] </span></td></tr>
+<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glucan_endo-1,3-beta-D-glucosidase Glucan endo-1,3-beta-D-glucosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.39 3.2.1.39] </span></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=3ur8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ur8 OCA], [http://pdbe.org/3ur8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ur8 RCSB], [http://www.ebi.ac.uk/pdbsum/3ur8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ur8 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=3ur8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ur8 OCA], [https://pdbe.org/3ur8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ur8 RCSB], [https://www.ebi.ac.uk/pdbsum/3ur8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ur8 ProSAT]</span></td></tr>
 </table>
 <div style="background-color:#fffaf0;">
@@ Line 18: / Line 18: @@
 </div>
 <div class="pdbe-citations 3ur8" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Beta-glucosidase 3D structures|Beta-glucosidase 3D structures]]
+*[[Glucanase 3D structures|Glucanase 3D structures]]
 == References ==
 <references/>
@@ Line 23: / Line 27: @@
 </StructureSection>
 [[Category: Glucan endo-1,3-beta-D-glucosidase]]
+[[Category: Large Structures]]
 [[Category: Potato]]
 [[Category: Hennig, J]]

3ur8

From Proteopedia

Revision as of 07:59, 20 July 2022

Lower-density crystal structure of potato endo-1,3-beta-glucanase

Structural highlights

Publication Abstract from PubMed

See Also

References

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