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4lyq

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Revision as of 10:41, 21 December 2022

Crystal Structure of Glycoside Hydrolase Family 5 Mannosidase from Rhizomucor miehei, E202A mutant

Structural highlights

4lyq is a 1 chain structure with sequence from Rhizomucor miehei. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Publication Abstract from PubMed

beta-Mannosidases are exo-acting glycoside hydrolases (GHs) that catalyse the removal of the nonreducing end beta-D-mannose from manno-oligosaccharides or mannoside-substituted molecules. They play important roles in fundamental biological processes and also have potential applications in various industries. In this study, the first fungal GH family 5 beta-mannosidase (RmMan5B) from Rhizomucor miehei was functionally and structurally characterized. RmMan5B exhibited a much higher activity against manno-oligosaccharides than against p-nitrophenyl beta-D-mannopyranoside (pNPM) and had a transglycosylation activity which transferred mannosyl residues to sugars such as fructose. To investigate its substrate specificity and transglycosylation activity, crystal structures of RmMan5B and of its inactive E202A mutant in complex with mannobiose, mannotriose and mannosyl-fructose were determined at resolutions of 1.3, 2.6, 2.0 and 2.4 A, respectively. In addition, the crystal structure of R. miehei beta-mannanase (RmMan5A) was determined at a resolution of 2.3 A. Both RmMan5A and RmMan5B adopt the (beta/alpha)8-barrel architecture, which is globally similar to the other members of GH family 5. However, RmMan5B shows several differences in the loop around the active site. The extended loop between strand beta8 and helix alpha8 (residues 354-392) forms a `double' steric barrier to `block' the substrate-binding cleft at the end of the -1 subsite. Trp119, Asn260 and Glu380 in the beta-mannosidase, which are involved in hydrogen-bond contacts with the -1 mannose, might be essential for exo catalytic activity. Moreover, the structure of RmMan5B in complex with mannosyl-fructose has provided evidence for the interactions between the beta-mannosidase and D-fructofuranose. Overall, the present study not only helps in understanding the catalytic mechanism of GH family 5 beta-mannosidases, but also provides a basis for further enzymatic engineering of beta-mannosidases and beta-mannanases.

Structural insights into the substrate specificity and transglycosylation activity of a fungal glycoside hydrolase family 5 beta-mannosidase.,Zhou P, Liu Y, Yan Q, Chen Z, Qin Z, Jiang Z Acta Crystallogr D Biol Crystallogr. 2014 Nov;70(Pt 11):2970-82. doi:, 10.1107/S1399004714019762. Epub 2014 Oct 23. PMID:25372687^[1]

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

References

↑ Zhou P, Liu Y, Yan Q, Chen Z, Qin Z, Jiang Z. Structural insights into the substrate specificity and transglycosylation activity of a fungal glycoside hydrolase family 5 beta-mannosidase. Acta Crystallogr D Biol Crystallogr. 2014 Nov;70(Pt 11):2970-82. doi:, 10.1107/S1399004714019762. Epub 2014 Oct 23. PMID:25372687 doi:http://dx.doi.org/10.1107/S1399004714019762

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/4lyq"

@@ Line 3: / Line 3: @@
 <StructureSection load='4lyq' size='340' side='right'caption='[[4lyq]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4lyq]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_16457 Atcc 16457]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LYQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4LYQ FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4lyq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Rhizomucor_miehei Rhizomucor miehei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4LYQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4LYQ FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4lyp|4lyp]], [[4lyr|4lyr]]</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=4lyq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lyq OCA], [https://pdbe.org/4lyq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4lyq RCSB], [https://www.ebi.ac.uk/pdbsum/4lyq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4lyq ProSAT]</span></td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-mannosidase Beta-mannosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.25 3.2.1.25] </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=4lyq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4lyq OCA], [http://pdbe.org/4lyq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4lyq RCSB], [http://www.ebi.ac.uk/pdbsum/4lyq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4lyq ProSAT]</span></td></tr>
 </table>
 <div style="background-color:#fffaf0;">
@@ Line 20: / Line 18: @@
 ==See Also==
-*[[Mannosidase|Mannosidase]]
+*[[Mannosidase 3D structures|Mannosidase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Atcc 16457]]
-[[Category: Beta-mannosidase]]
 [[Category: Large Structures]]
-[[Category: Jiang, Z Q]]
+[[Category: Rhizomucor miehei]]
-[[Category: Liu, Y]]
+[[Category: Jiang ZQ]]
-[[Category: Yan, Q J]]
+[[Category: Liu Y]]
-[[Category: Yang, S Q]]
+[[Category: Yan QJ]]
-[[Category: Zhou, P]]
+[[Category: Yang SQ]]
-[[Category: Extracellular protein]]
+[[Category: Zhou P]]
-[[Category: Hydrolase]]
-[[Category: Protein-mannotriose complex]]
-[[Category: Tim barrel]]

4lyq

From Proteopedia

Revision as of 10:41, 21 December 2022

Crystal Structure of Glycoside Hydrolase Family 5 Mannosidase from Rhizomucor miehei, E202A mutant

Structural highlights

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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