1px8

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1px8" size="450" color="white" frame="true" align="right" spinBox="true" caption="1px8, resolution 2.40&Aring;" /> '''Crystal structure of...)
Current revision (13:29, 13 March 2024) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1px8.gif|left|200px]]<br /><applet load="1px8" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1px8, resolution 2.40&Aring;" />
 
-
'''Crystal structure of beta-D-xylosidase from Thermoanaerobacterium saccharolyticum, a family 39 glycoside hydrolase'''<br />
 
-
==Overview==
+
==Crystal structure of beta-D-xylosidase from Thermoanaerobacterium saccharolyticum, a family 39 glycoside hydrolase==
-
1,4-beta-D-Xylan is the major component of plant cell-wall hemicelluloses., beta-D-Xylosidases are involved in the breakdown of xylans into xylose and, belong to families 3, 39, 43, 52, and 54 of glycoside hydrolases. Here, we, report the first crystal structure of a member of family 39 glycoside, hydrolase, i.e. beta-D-xylosidase from Thermoanaerobacterium, saccharolyticum strain B6A-RI. This study also represents the first, structure of any beta-xylosidase of the above five glycoside hydrolase, families. Each monomer of T. saccharolyticum beta-xylosidase comprises, three distinct domains; a catalytic domain of the canonical, (beta/alpha)(8)-barrel fold, a beta-sandwich domain, and a small, alpha-helical domain. We have determined the structure in two forms:, D-xylose-bound enzyme and a covalent, 2-deoxy-2-fluoro-alpha-D-xylosyl-enzyme intermediate complex, thus, providing two snapshots in the reaction pathway. This study provides, structural evidence for the proposed double displacement mechanism that, involves a covalent intermediate. Furthermore, it reveals possible, functional roles for His228 as the auxiliary acid/base and Glu323 as a key, residue in substrate recognition.
+
<StructureSection load='1px8' size='340' side='right'caption='[[1px8]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1px8]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoanaerobacterium_saccharolyticum Thermoanaerobacterium saccharolyticum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PX8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PX8 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]] 2.4&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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=1px8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1px8 OCA], [https://pdbe.org/1px8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1px8 RCSB], [https://www.ebi.ac.uk/pdbsum/1px8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1px8 ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/XYNB_THESA XYNB_THESA] Has hydrolytic activity towards xylopentaose, xylotriose, xylobiose and P-nitrophenyl-beta-D-xylopyranoside, but has no activity toward xylan.
 +
== 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/px/1px8_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=1px8 ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1PX8 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Thermoanaerobacterium_saccharolyticum Thermoanaerobacterium saccharolyticum] with XYP as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Xylan_1,4-beta-xylosidase Xylan 1,4-beta-xylosidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.37 3.2.1.37] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1PX8 OCA].
+
*[[Xylosidase 3D structures|Xylosidase 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Crystal structure of beta-D-xylosidase from Thermoanaerobacterium saccharolyticum, a family 39 glycoside hydrolase., Yang JK, Yoon HJ, Ahn HJ, Lee BI, Pedelacq JD, Liong EC, Berendzen J, Laivenieks M, Vieille C, Zeikus GJ, Vocadlo DJ, Withers SG, Suh SW, J Mol Biol. 2004 Jan 2;335(1):155-65. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14659747 14659747]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Thermoanaerobacterium saccharolyticum]]
[[Category: Thermoanaerobacterium saccharolyticum]]
-
[[Category: Xylan 1,4-beta-xylosidase]]
+
[[Category: Ahn HJ]]
-
[[Category: Ahn, H.J.]]
+
[[Category: Berendzen J]]
-
[[Category: Berendzen, J.]]
+
[[Category: Il Lee B]]
-
[[Category: Laivenieks, M.]]
+
[[Category: Laivenieks M]]
-
[[Category: Lee, B.Il.]]
+
[[Category: Liong EC]]
-
[[Category: Liong, E.C.]]
+
[[Category: Pedelacq JD]]
-
[[Category: Pedelacq, J.D.]]
+
[[Category: Suh SW]]
-
[[Category: Suh, S.W.]]
+
[[Category: Vieille C]]
-
[[Category: Vieille, C.]]
+
[[Category: Vocadlo DJ]]
-
[[Category: Vocadlo, D.J.]]
+
[[Category: Withers SG]]
-
[[Category: Withers, S.G.]]
+
[[Category: Yang JK]]
-
[[Category: Yang, J.K.]]
+
[[Category: Yoon HJ]]
-
[[Category: Yoon, H.J.]]
+
[[Category: Zeikus GJ]]
-
[[Category: Zeikus, G.J.]]
+
-
[[Category: XYP]]
+
-
[[Category: covalent glycosyl-enzyme intermediate]]
+
-
[[Category: family 39 glycoside hydrolase]]
+
-
[[Category: xylan]]
+
-
[[Category: xylose]]
+
-
[[Category: xylosidase]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 00:12:05 2007''
+

Current revision

Crystal structure of beta-D-xylosidase from Thermoanaerobacterium saccharolyticum, a family 39 glycoside hydrolase

PDB ID 1px8

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/1px8"
Personal tools