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| | ==The importance of the Abn2 calcium cluster in the endo-1,5- arabinanase activity from Bacillus subtilis== | | ==The importance of the Abn2 calcium cluster in the endo-1,5- arabinanase activity from Bacillus subtilis== |
| - | <StructureSection load='4cot' size='340' side='right' caption='[[4cot]], [[Resolution|resolution]] 1.90Å' scene=''> | + | <StructureSection load='4cot' size='340' side='right'caption='[[4cot]], [[Resolution|resolution]] 1.90Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4cot]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacsu Bacsu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4COT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4COT FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4cot]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4COT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4COT FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Arabinan_endo-1,5-alpha-L-arabinosidase Arabinan endo-1,5-alpha-L-arabinosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.99 3.2.1.99] </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=4cot FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4cot OCA], [https://pdbe.org/4cot PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4cot RCSB], [https://www.ebi.ac.uk/pdbsum/4cot PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4cot ProSAT]</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=4cot FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4cot OCA], [http://pdbe.org/4cot PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4cot RCSB], [http://www.ebi.ac.uk/pdbsum/4cot PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4cot ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/EABN2_BACSU EABN2_BACSU]] Involved in the degradation of arabinan and is a key enzyme in the complete degradation of the plant cell wall. Catalyzes the internal cleavage of alpha-(1->5)-L-arabinofuranosyl residues of the alpha-1,5-L-arabinan to produce arabino-oligosaccharides and L-arabinose. It is also active toward linear branched sugar beet arabinan, and pectin from apple.<ref>PMID:18408032</ref> <ref>PMID:20883454</ref> | + | [[https://www.uniprot.org/uniprot/EABN2_BACSU EABN2_BACSU]] Involved in the degradation of arabinan and is a key enzyme in the complete degradation of the plant cell wall. Catalyzes the internal cleavage of alpha-(1->5)-L-arabinofuranosyl residues of the alpha-1,5-L-arabinan to produce arabino-oligosaccharides and L-arabinose. It is also active toward linear branched sugar beet arabinan, and pectin from apple.<ref>PMID:18408032</ref> <ref>PMID:20883454</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | | | |
| | ==See Also== | | ==See Also== |
| - | *[[Arabinanase|Arabinanase]] | + | *[[Arabinanase 3D structures|Arabinanase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Arabinan endo-1,5-alpha-L-arabinosidase]] | + | [[Category: Bacillus subtilis subsp. subtilis str. 168]] |
| - | [[Category: Bacsu]] | + | [[Category: Large Structures]] |
| - | [[Category: Bento, I]] | + | [[Category: Bento I]] |
| - | [[Category: Carrondo, M A]] | + | [[Category: Carrondo MA]] |
| - | [[Category: Correia, B]] | + | [[Category: Correia B]] |
| - | [[Category: Ferreira, M J]] | + | [[Category: Ferreira MJ]] |
| - | [[Category: Lahiri, S]] | + | [[Category: Lahiri S]] |
| - | [[Category: Lindley, P F]] | + | [[Category: Lindley PF]] |
| - | [[Category: McVey, C E]] | + | [[Category: McVey CE]] |
| - | [[Category: Sa-Nogueira, I de]] | + | [[Category: Soares CM]] |
| - | [[Category: Soares, C M]] | + | [[Category: De Sa-Nogueira I]] |
| - | [[Category: DeSanctis, D]] | + | [[Category: DeSanctis D]] |
| - | [[Category: Catalytic mechanism]]
| + | |
| - | [[Category: Endo-alpha-l-arabinananase gh43]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Mutagenesis]]
| + | |
| Structural highlights
Function
[EABN2_BACSU] Involved in the degradation of arabinan and is a key enzyme in the complete degradation of the plant cell wall. Catalyzes the internal cleavage of alpha-(1->5)-L-arabinofuranosyl residues of the alpha-1,5-L-arabinan to produce arabino-oligosaccharides and L-arabinose. It is also active toward linear branched sugar beet arabinan, and pectin from apple.[1] [2]
Publication Abstract from PubMed
Arabinanase is a glycosyl hydrolase that is able to cleave the glycosidic bonds of alpha-1,5-L-arabinan, releasing arabino-oligosaccharides and L-arabinose. The enzyme has two domains, an N-terminal catalytic domain with a characteristic beta-propeller fold and a C-terminal domain whose function is unknown. A calcium ion, located near the catalytic site, serves to stabilize the N-terminal domain, but it has also been proposed to play a key role in the enzyme mechanism. The present work describes the structure of an inactive mutant of the wild-type enzyme (H318Q) and in which the calcium ion has been adventitiously replaced by nickel. These structural studies, together with functional and modelling studies, clearly support the role of the calcium ion in the overall reaction mechanism.
The importance of the Abn2 calcium cluster in the endo-1,5-arabinanase activity from Bacillus subtilis.,McVey CE, Ferreira MJ, Correia B, Lahiri S, de Sanctis D, Carrondo MA, Lindley PF, de Sa Nogueira I, Soares CM, Bento I J Biol Inorg Chem. 2014 Feb 19. PMID:24549757[3]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Inacio JM, de Sa-Nogueira I. Characterization of abn2 (yxiA), encoding a Bacillus subtilis GH43 arabinanase, Abn2, and its role in arabino-polysaccharide degradation. J Bacteriol. 2008 Jun;190(12):4272-80. Epub 2008 Apr 11. PMID:18408032 doi:http://dx.doi.org/JB.00162-08
- ↑ De Sanctis D, Inacio JM, Lindley PF, De Sa-Nogueira I, Bento I. New evidence for the role of calcium in the glycosidase reaction of GH43 arabinanases. FEBS J. 2010 Sep 10. doi: 10.1111/j.1742-4658.2010.07870.x. PMID:20883454 doi:10.1111/j.1742-4658.2010.07870.x
- ↑ McVey CE, Ferreira MJ, Correia B, Lahiri S, de Sanctis D, Carrondo MA, Lindley PF, de Sa Nogueira I, Soares CM, Bento I. The importance of the Abn2 calcium cluster in the endo-1,5-arabinanase activity from Bacillus subtilis. J Biol Inorg Chem. 2014 Feb 19. PMID:24549757 doi:http://dx.doi.org/10.1007/s00775-014-1105-x
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