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| | <StructureSection load='5juv' size='340' side='right'caption='[[5juv]], [[Resolution|resolution]] 2.27Å' scene=''> | | <StructureSection load='5juv' size='340' side='right'caption='[[5juv]], [[Resolution|resolution]] 2.27Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5juv]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JUV OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5JUV FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5juv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_niger_CBS_513.88 Aspergillus niger CBS 513.88]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JUV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JUV FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 2.27Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5ifp|5ifp]], [[5ift|5ift]], [[5ihr|5ihr]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-galactosidase Beta-galactosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.23 3.2.1.23] </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=5juv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5juv OCA], [https://pdbe.org/5juv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5juv RCSB], [https://www.ebi.ac.uk/pdbsum/5juv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5juv ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5juv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5juv OCA], [http://pdbe.org/5juv PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5juv RCSB], [http://www.ebi.ac.uk/pdbsum/5juv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5juv ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/BGALA_ASPNC BGALA_ASPNC]] Cleaves beta-linked terminal galactosyl residues from gangliosides, glycoproteins, and glycosaminoglycans. | + | [https://www.uniprot.org/uniprot/BGALA_ASPNC BGALA_ASPNC] Cleaves beta-linked terminal galactosyl residues from gangliosides, glycoproteins, and glycosaminoglycans. |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 5juv" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5juv" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Galactosidase 3D structures|Galactosidase 3D structures]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Beta-galactosidase]] | + | [[Category: Aspergillus niger CBS 513 88]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Becerra, M]] | + | [[Category: Becerra M]] |
| - | [[Category: Cerdan, M E]] | + | [[Category: Cerdan ME]] |
| - | [[Category: Ramirez-Escudero, M]] | + | [[Category: Ramirez-Escudero M]] |
| - | [[Category: Rico-Diaz, A]] | + | [[Category: Rico-Diaz A]] |
| - | [[Category: Sanz-Aparicio, J]] | + | [[Category: Sanz-Aparicio J]] |
| - | [[Category: Vazquez, A Vizoso]] | + | [[Category: Vizoso Vazquez A]] |
| - | [[Category: 6-b-galactopyranosyl galactose]]
| + | |
| - | [[Category: 6-gal-gal]]
| + | |
| - | [[Category: 6-o-beta-d-galactopyranosyl-d-galactose]]
| + | |
| - | [[Category: Aspergillus niger]]
| + | |
| - | [[Category: B-galactosidase]]
| + | |
| - | [[Category: Carbohydrate metabolism]]
| + | |
| - | [[Category: Fungal protein]]
| + | |
| - | [[Category: Galactooligosaccharide]]
| + | |
| - | [[Category: Gh35]]
| + | |
| - | [[Category: Glycoside hydrolase]]
| + | |
| - | [[Category: Go]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| - | [[Category: Kinetic]]
| + | |
| - | [[Category: Prebiotic]]
| + | |
| - | [[Category: Protein conformation]]
| + | |
| - | [[Category: Recombinant]]
| + | |
| - | [[Category: Substrate specificity]]
| + | |
| - | [[Category: Tim barrel]]
| + | |
| Structural highlights
5juv is a 1 chain structure with sequence from Aspergillus niger CBS 513.88. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Method: | X-ray diffraction, Resolution 2.27Å |
| Ligands: | , , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
BGALA_ASPNC Cleaves beta-linked terminal galactosyl residues from gangliosides, glycoproteins, and glycosaminoglycans.
Publication Abstract from PubMed
beta-galactosidases are biotechnologically interesting enzymes that catalyze the hydrolysis or transgalactosylation of beta-galactosides. Among them, the Aspergillus niger beta-galactosidase (AnbetaGal) belongs to the glycoside hydrolase family 35 (GH35) and is widely used in the industry due to its high hydrolytic activity degrading lactose. We present here its three-dimensional structure in complex with different oligosaccharides, to illustrate the structural determinants of the broad specificity of the enzyme against different glycoside linkages. Remarkably, the residues Phe264, Tyr304 and Trp806 make a dynamic hydrophobic platform that accommodates the sugar at subsite +1 suggesting a main role on the recognition of structurally different substrates. Moreover, complexes with the trisaccharides show two potential subsites +2 depending on the substrate type. This feature and the peculiar shape of its wide cavity suggest that AnbetaGal might accommodate branched substrates from the complex net of polysaccharides composing the plant material in its natural environment. Relevant residues were selected and mutagenesis analyses were performed to evaluate their role in the catalytic performance and the hydrolase/transferase ratio of AnbetaGal. Thus, we generated mutants with improved transgalactosylation activity. In particular, the variant Y304F/Y355H/N357G/W806F displays a higher level of galacto-oligosaccharides (GOS) production than the Aspergillus oryzae beta-galactosidase, which is the preferred enzyme in the industry owing to its high transferase activity. Our results provide new knowledge on the determinants modulating specificity and the catalytic performance of fungal GH35 beta-galactosidases. In turn, this fundamental background gives novel tools for the future improvement of these enzymes, which represent an interesting target for rational design. This article is protected by copyright. All rights reserved.
Structural features of Aspergillus niger beta-galactosidase define its activity against glycoside linkages.,Rico-Diaz A, Ramirez-Escudero M, Vizoso-Vazquez A, Cerdan ME, Becerra M, Sanz-Aparicio J FEBS J. 2017 Apr 8. doi: 10.1111/febs.14083. PMID:28391618[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Rico-Diaz A, Ramirez-Escudero M, Vizoso-Vazquez A, Cerdan ME, Becerra M, Sanz-Aparicio J. Structural features of Aspergillus niger beta-galactosidase define its activity against glycoside linkages. FEBS J. 2017 Apr 8. doi: 10.1111/febs.14083. PMID:28391618 doi:http://dx.doi.org/10.1111/febs.14083
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