This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


6shm

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "6shm" [edit=sysop:move=sysop])
Current revision (12:42, 24 January 2024) (edit) (undo)
 
(4 intermediate revisions not shown.)
Line 1: Line 1:
-
'''Unreleased structure'''
 
-
The entry 6shm is ON HOLD until sometime in the future
+
==An inactive (D136A and D137A) variant of alpha-1,6-mannanase, GH76A of Salegentibacter sp. HEL1_6 in complex with alpha-1,6-mannotetrose==
 +
<StructureSection load='6shm' size='340' side='right'caption='[[6shm]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[6shm]] 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=6SHM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6SHM FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=MES:2-(N-MORPHOLINO)-ETHANESULFONIC+ACID'>MES</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=6shm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6shm OCA], [https://pdbe.org/6shm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6shm RCSB], [https://www.ebi.ac.uk/pdbsum/6shm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6shm ProSAT]</span></td></tr>
 +
</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: &lt;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.
-
Authors: Hehemann, J.H., Solanki, V.
+
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>
-
Description: An inactive (D136A and D137A) variant of alpha-1,6-mannanase, GH76A of Salegentibacter sp. HEL1_6 in complex with alpha-1,6-mannotetrose
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
[[Category: Unreleased Structures]]
+
</div>
-
[[Category: Solanki, V]]
+
<div class="pdbe-citations 6shm" style="background-color:#fffaf0;"></div>
-
[[Category: Hehemann, J.H]]
+
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Large Structures]]
 +
[[Category: Salegentibacter sp. Hel_I_6]]
 +
[[Category: Hehemann JH]]
 +
[[Category: Solanki V]]

Current revision

An inactive (D136A and D137A) variant of alpha-1,6-mannanase, GH76A of Salegentibacter sp. HEL1_6 in complex with alpha-1,6-mannotetrose

PDB ID 6shm

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6shm"
Personal tools