1gye: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1gye.jpg|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_1gye", creates the "Structure Box" on the page.
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-or leave the SCENE parameter empty for the default display.
--->
-{{STRUCTURE_1gye|  PDB=1gye  |  SCENE=  }}
-'''STRUCTURE OF CELLVIBRIO CELLULOSA ALPHA-L-ARABINANASE COMPLEXED WITH ARABINOHEXAOSE'''
+==Structure of Cellvibrio cellulosa alpha-L-arabinanase complexed with Arabinohexaose==
+<StructureSection load='1gye' size='340' side='right'caption='[[1gye]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1gye]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Cellvibrio_japonicus Cellvibrio japonicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GYE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GYE 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]] 2.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AHR:ALPHA-L-ARABINOFURANOSE'>AHR</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</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=1gye FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gye OCA], [https://pdbe.org/1gye PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gye RCSB], [https://www.ebi.ac.uk/pdbsum/1gye PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gye ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/ARBA_CELJU ARBA_CELJU] Involved in the degradation of arabinan and is a key enzyme in the complete degradation of the plant cell wall. Catalyzes the cleavage of the terminal alpha-(1->5)-arabinofuranosyl bonds of linear arabinan and carboxymethylarabinan to produce almost exclusively arabinotriose.<ref>PMID:12198486</ref> <ref>PMID:15708971</ref> <ref>PMID:9163351</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/gy/1gye_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1gye ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Cellvibrio japonicus arabinanase Arb43A hydrolyzes the alpha-1,5-linked L-arabinofuranoside backbone of plant cell wall arabinans. The three-dimensional structure of Arb43A, determined at 1.9 A resolution, reveals a five-bladed beta-propeller fold. Arb43A is the first enzyme known to display this topology. A long V-shaped surface groove, partially enclosed at one end, forms a single extended substrate-binding surface across the face of the propeller. Three carboxylates deep in the active site groove provide the general acid and base components for glycosidic bond hydrolysis with inversion of anomeric configuration.
-==Overview==
+Cellvibrio japonicus alpha-L-arabinanase 43A has a novel five-blade beta-propeller fold.,Nurizzo D, Turkenburg JP, Charnock SJ, Roberts SM, Dodson EJ, McKie VA, Taylor EJ, Gilbert HJ, Davies GJ Nat Struct Biol. 2002 Sep;9(9):665-8. PMID:12198486<ref>PMID:12198486</ref>
-Cellvibrio japonicus arabinanase Arb43A hydrolyzes the alpha-1,5-linked L-arabinofuranoside backbone of plant cell wall arabinans. The three-dimensional structure of Arb43A, determined at 1.9 A resolution, reveals a five-bladed beta-propeller fold. Arb43A is the first enzyme known to display this topology. A long V-shaped surface groove, partially enclosed at one end, forms a single extended substrate-binding surface across the face of the propeller. Three carboxylates deep in the active site groove provide the general acid and base components for glycosidic bond hydrolysis with inversion of anomeric configuration.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-GYE is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Cellvibrio_japonicus Cellvibrio japonicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GYE OCA].
+</div>
+<div class="pdbe-citations 1gye" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Cellvibrio japonicus alpha-L-arabinanase 43A has a novel five-blade beta-propeller fold., Nurizzo D, Turkenburg JP, Charnock SJ, Roberts SM, Dodson EJ, McKie VA, Taylor EJ, Gilbert HJ, Davies GJ, Nat Struct Biol. 2002 Sep;9(9):665-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12198486 12198486]
+*[[Arabinanase|Arabinanase]]
-[[Category: Arabinan endo-1,5-alpha-L-arabinosidase]]
+*[[Arabinanase 3D structures|Arabinanase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Cellvibrio japonicus]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Charnock, S J.]]
+[[Category: Charnock SJ]]
-[[Category: Davies, G J.]]
+[[Category: Davies GJ]]
-[[Category: Dodson, E J.]]
+[[Category: Dodson EJ]]
-[[Category: Gilbert, H J.]]
+[[Category: Gilbert HJ]]
-[[Category: Mckie, V A.]]
+[[Category: McKie VA]]
-[[Category: Nurizzo, D.]]
+[[Category: Nurizzo D]]
-[[Category: Roberts, S M.]]
+[[Category: Roberts SM]]
-[[Category: Taylor, E J.]]
+[[Category: Taylor EJ]]
-[[Category: Turkenburg, J P.]]
+[[Category: Turkenburg JP]]
-[[Category: Arabinanase]]
-[[Category: Catalysis]]
-[[Category: Cellvibrio]]
-[[Category: Hydrolase]]
-[[Category: Propeller]]
-[[Category: Pseudomona]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 18:10:35 2008''