3ck9

From Proteopedia

(Difference between revisions)

Revision as of 06:57, 5 August 2016

B. thetaiotaomicron SusD with maltoheptaose

Structural highlights

3ck9 is a 2 chain structure with sequence from Bacteroides thetaiotaomicron. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
Related:	3ck7, 3ck8, 3ckb, 3ckc
Gene:	SusD (Bacteroides thetaiotaomicron)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[SUSD_BACTN] Major starch-binding protein present at the surface of the cell. Mediates starch-binding before starch transport in the periplasm for degradation.^[1] ^[2] ^[3] ^[4]

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The human gut microbiota performs functions that are not encoded in our Homo sapiens genome, including the processing of otherwise undigestible dietary polysaccharides. Defining the structures of proteins involved in the import and degradation of specific glycans by saccharolytic bacteria complements genomic analysis of the nutrient-processing capabilities of gut communities. Here, we describe the atomic structure of one such protein, SusD, required for starch binding and utilization by Bacteroides thetaiotaomicron, a prominent adaptive forager of glycans in the distal human gut microbiota. The binding pocket of this unique alpha-helical protein contains an arc of aromatic residues that complements the natural helical structure of starch and imposes this conformation on bound maltoheptaose. Furthermore, SusD binds cyclic oligosaccharides with higher affinity than linear forms. The structures of several SusD/oligosaccharide complexes reveal an inherent ligand recognition plasticity dominated by the three-dimensional conformation of the oligosaccharides rather than specific interactions with the composite sugars.

Starch catabolism by a prominent human gut symbiont is directed by the recognition of amylose helices.,Koropatkin NM, Martens EC, Gordon JI, Smith TJ Structure. 2008 Jul;16(7):1105-15. PMID:18611383^[5]

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

References

↑ Shipman JA, Berleman JE, Salyers AA. Characterization of four outer membrane proteins involved in binding starch to the cell surface of Bacteroides thetaiotaomicron. J Bacteriol. 2000 Oct;182(19):5365-72. PMID:10986238
↑ Cho KH, Salyers AA. Biochemical analysis of interactions between outer membrane proteins that contribute to starch utilization by Bacteroides thetaiotaomicron. J Bacteriol. 2001 Dec;183(24):7224-30. PMID:11717282
↑ Koropatkin NM, Martens EC, Gordon JI, Smith TJ. Starch catabolism by a prominent human gut symbiont is directed by the recognition of amylose helices. Structure. 2008 Jul;16(7):1105-15. PMID:18611383 doi:10.1016/j.str.2008.03.017
↑ Reeves AR, Wang GR, Salyers AA. Characterization of four outer membrane proteins that play a role in utilization of starch by Bacteroides thetaiotaomicron. J Bacteriol. 1997 Feb;179(3):643-9. PMID:9006015
↑ Koropatkin NM, Martens EC, Gordon JI, Smith TJ. Starch catabolism by a prominent human gut symbiont is directed by the recognition of amylose helices. Structure. 2008 Jul;16(7):1105-15. PMID:18611383 doi:10.1016/j.str.2008.03.017

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3ck9"

@@ Line 1: / Line 1: @@
 ==B. thetaiotaomicron SusD with maltoheptaose==
 <StructureSection load='3ck9' size='340' side='right' caption='[[3ck9]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
@@ Line 6: / Line 7: @@
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3ck7|3ck7]], [[3ck8|3ck8]], [[3ckb|3ckb]], [[3ckc|3ckc]]</td></tr>
 <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SusD ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=818 Bacteroides thetaiotaomicron])</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=3ck9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ck9 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ck9 RCSB], [http://www.ebi.ac.uk/pdbsum/3ck9 PDBsum]</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=3ck9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ck9 OCA], [http://pdbe.org/3ck9 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ck9 RCSB], [http://www.ebi.ac.uk/pdbsum/3ck9 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ck9 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/Q8A1G2_BACTN Q8A1G2_BACTN]] Major starch-binding protein present at the surface of the cell. Mediates starch-binding before starch transport in the periplasm for degradation.<ref>PMID:9006015</ref> <ref>PMID:10986238</ref> <ref>PMID:11717282</ref> <ref>PMID:18611383</ref>
+[[http://www.uniprot.org/uniprot/SUSD_BACTN SUSD_BACTN]] Major starch-binding protein present at the surface of the cell. Mediates starch-binding before starch transport in the periplasm for degradation.<ref>PMID:10986238</ref> <ref>PMID:11717282</ref> <ref>PMID:18611383</ref> <ref>PMID:9006015</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 18: / Line 19: @@
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
-</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
+</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3ck9 ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 28: / Line 29: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 3ck9" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>

3ck9

From Proteopedia

Revision as of 06:57, 5 August 2016

B. thetaiotaomicron SusD with maltoheptaose

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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