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6y8f
From Proteopedia
(Difference between revisions)
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==An inactive (D136N and D137N) variant of alpha-1,6-mannanase, GH76A of Salegentibacter sp. HEL1_6 in complex with alpha-1,6-mannotriose== | ==An inactive (D136N and D137N) variant of alpha-1,6-mannanase, GH76A of Salegentibacter sp. HEL1_6 in complex with alpha-1,6-mannotriose== | ||
| - | <StructureSection load='6y8f' size='340' side='right'caption='[[6y8f]]' scene=''> | + | <StructureSection load='6y8f' size='340' side='right'caption='[[6y8f]], [[Resolution|resolution]] 1.47Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Y8F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Y8F FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6y8f]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Salegentibacter_sp._hel_i_6 Salegentibacter sp. hel_i_6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Y8F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Y8F FirstGlance]. <br> |
| - | </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=6y8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y8f OCA], [https://pdbe.org/6y8f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6y8f RCSB], [https://www.ebi.ac.uk/pdbsum/6y8f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6y8f ProSAT]</span></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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=6y8f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6y8f OCA], [https://pdbe.org/6y8f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6y8f RCSB], [https://www.ebi.ac.uk/pdbsum/6y8f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6y8f ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Microbial glycan degradation is essential to global carbon cycling. The marine bacterium Salegentibacter sp. Hel_I_6 (Bacteroidota) isolated from seawater off Helgoland island (North Sea) contains an alpha-mannan inducible gene cluster with a GH76 family endo-alpha-1,6-mannanase (ShGH76). This cluster is related to genetic loci employed by human gut bacteria to digest fungal alpha-mannan. Metagenomes from the Hel_I_6 isolation site revealed increasing GH76 gene frequencies in free-living bacteria during microalgae blooms, suggesting degradation of alpha-1,6-mannans from fungi. Recombinant ShGH76 protein activity assays with yeast alpha-mannan and synthetic oligomannans showed endo-alpha-1,6-mannanase activity. Resolved structures of apo-ShGH76 (2.0 A) and of mutants co-crystalized with fungal mannan-mimicking alpha-1,6-mannotetrose (1.90 A) and alpha-1,6-mannotriose (1.47 A) retained the canonical (alpha/alpha)6 fold, despite low identities with sequences of known GH76 structures (GH76s from gut bacteria: <27%). The apo-form active site differed from those known from gut bacteria, and co-crystallizations revealed a kinked oligomannan conformation. Co-crystallizations also revealed precise molecular-scale interactions of ShGH76 with fungal mannan-mimicking oligomannans, indicating adaptation to this particular type of substrate. Our data hence suggest presence of yet unknown fungal alpha-1,6-mannans in marine ecosystems, in particular during microalgal blooms. | ||
| + | |||
| + | Glycoside hydrolase from the GH76 family indicates that marine Salegentibacter sp. Hel_I_6 consumes alpha-mannan from fungi.,Solanki V, Kruger K, Crawford CJ, Pardo-Vargas A, Danglad-Flores J, Hoang KLM, Klassen L, Abbott DW, Seeberger PH, Amann RI, Teeling H, Hehemann JH ISME J. 2022 Apr 12. pii: 10.1038/s41396-022-01223-w. doi:, 10.1038/s41396-022-01223-w. PMID:35414716<ref>PMID:35414716</ref> | ||
| + | |||
| + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| + | </div> | ||
| + | <div class="pdbe-citations 6y8f" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | [[Category: Hehemann | + | [[Category: Salegentibacter sp. hel_i_6]] |
| - | [[Category: Solanki | + | [[Category: Hehemann, J H]] |
| + | [[Category: Solanki, V A]] | ||
| + | [[Category: Cazyme]] | ||
| + | [[Category: Gh76]] | ||
| + | [[Category: Glycoside hydrolase]] | ||
| + | [[Category: Hydrolase]] | ||
| + | [[Category: Mannan]] | ||
| + | [[Category: Mannanase]] | ||
Revision as of 12:59, 4 May 2022
An inactive (D136N and D137N) variant of alpha-1,6-mannanase, GH76A of Salegentibacter sp. HEL1_6 in complex with alpha-1,6-mannotriose
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