1xsi: Difference between revisions

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New page: left|200px<br /><applet load="1xsi" size="450" color="white" frame="true" align="right" spinBox="true" caption="1xsi, resolution 2.20Å" /> '''Structure of a Famil...
 
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[[Image:1xsi.gif|left|200px]]<br /><applet load="1xsi" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1xsi, resolution 2.20&Aring;" />
'''Structure of a Family 31 alpha glycosidase'''<br />


==Overview==
==Structure of a Family 31 alpha glycosidase==
We have determined the first structure of a family 31 alpha-glycosidase, that of YicI from Escherichia coli, both free and trapped as a, 5-fluoroxylopyranosyl-enzyme intermediate via reaction with, 5-fluoro-alpha-D-xylopyranosyl fluoride. Our 2.2-A resolution structure, shows an intimately associated hexamer with structural elements from, several monomers converging at each of the six active sites. Our kinetic, and mass spectrometry analyses verified several of the features observed, in our structural data, including a covalent linkage from the carboxylate, side chain of the identified nucleophile Asp(416) to C-1 of the sugar, ring. Structure-based sequence comparison of YicI with the mammalian, alpha-glucosidases lysosomal alpha-glucosidase and sucrase-isomaltase, predicts a high level of structural similarity and provides a foundation, for understanding the various mutations of these enzymes that elicit human, disease.
<StructureSection load='1xsi' size='340' side='right'caption='[[1xsi]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1xsi]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XSI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XSI 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]] 2.2&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACY:ACETIC+ACID'>ACY</scene>, <scene name='pdbligand=MPO:3[N-MORPHOLINO]PROPANE+SULFONIC+ACID'>MPO</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1xsi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xsi OCA], [https://pdbe.org/1xsi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xsi RCSB], [https://www.ebi.ac.uk/pdbsum/1xsi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xsi ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/XYLS_ECOLI XYLS_ECOLI] Can catalyze the transfer of alpha-xylosyl residue from alpha-xyloside to xylose, glucose, mannose, fructose, maltose, isomaltose, nigerose, kojibiose, sucrose and trehalose.<ref>PMID:15294295</ref> <ref>PMID:15501829</ref>
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/xs/1xsi_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <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/main_output.php?pdb_ID=1xsi ConSurf].
<div style="clear:both"></div>


==About this Structure==
==See Also==
1XSI is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with SO4, MPO and ACY as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1XSI OCA].
*[[Xylosidase 3D structures|Xylosidase 3D structures]]
 
== References ==
==Reference==
<references/>
Mechanistic and structural analysis of a family 31 alpha-glycosidase and its glycosyl-enzyme intermediate., Lovering AL, Lee SS, Kim YW, Withers SG, Strynadka NC, J Biol Chem. 2005 Jan 21;280(3):2105-15. Epub 2004 Oct 22. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15501829 15501829]
__TOC__
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Kim, Y.W.]]
[[Category: Kim YW]]
[[Category: Lee, S.S.]]
[[Category: Lee SS]]
[[Category: Lovering, A.L.]]
[[Category: Lovering AL]]
[[Category: Strynadka, N.C.]]
[[Category: Strynadka NC]]
[[Category: Withers, S.G.]]
[[Category: Withers SG]]
[[Category: ACY]]
[[Category: MPO]]
[[Category: SO4]]
[[Category: beta(8)alpha(8) barrel and beta sandwich domains]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 06:18:59 2007''

Latest revision as of 11:53, 14 February 2024

Structure of a Family 31 alpha glycosidaseStructure of a Family 31 alpha glycosidase

Structural highlights

1xsi is a 6 chain structure with sequence from Escherichia coli. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.2Å
Ligands:, ,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

XYLS_ECOLI Can catalyze the transfer of alpha-xylosyl residue from alpha-xyloside to xylose, glucose, mannose, fructose, maltose, isomaltose, nigerose, kojibiose, sucrose and trehalose.[1] [2]

Evolutionary Conservation

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

See Also

References

  1. ↑ Okuyama M, Mori H, Chiba S, Kimura A. Overexpression and characterization of two unknown proteins, YicI and YihQ, originated from Escherichia coli. Protein Expr Purif. 2004 Sep;37(1):170-9. PMID:15294295 doi:http://dx.doi.org/10.1016/j.pep.2004.05.008
  2. ↑ Lovering AL, Lee SS, Kim YW, Withers SG, Strynadka NC. Mechanistic and structural analysis of a family 31 alpha-glycosidase and its glycosyl-enzyme intermediate. J Biol Chem. 2005 Jan 21;280(3):2105-15. Epub 2004 Oct 22. PMID:15501829 doi:10.1074/jbc.M410468200

1xsi, resolution 2.20Å

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