3w6d: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,330,058 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,330,058 edits
No edit summary
 
(6 intermediate revisions by the same user not shown)
Line 1: Line 1:
{{STRUCTURE_3w6d|  PDB=3w6d  |  SCENE=  }}
===Crystal structure of catalytic domain of chitinase from Ralstonia sp. A-471 (E141Q) in complex with tetrasaccharide===


==About this Structure==
==Crystal structure of catalytic domain of chitinase from Ralstonia sp. A-471 (E141Q) in complex with tetrasaccharide==
[[3w6d]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Ralstonia_sp._a-471 Ralstonia sp. a-471]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W6D OCA].  
<StructureSection load='3w6d' size='340' side='right'caption='[[3w6d]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
[[Category: Chitinase]]
== Structural highlights ==
[[Category: Ralstonia sp. a-471]]
<table><tr><td colspan='2'>[[3w6d]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Ralstonia_sp._A-471 Ralstonia sp. A-471]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3W6D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3W6D FirstGlance]. <br>
[[Category: Arimori, T.]]
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.15&#8491;</td></tr>
[[Category: Fukamizo, T.]]
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900017:triacetyl-beta-chitotriose'>PRD_900017</scene></td></tr>
[[Category: Kawamoto, N.]]
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3w6d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3w6d OCA], [https://pdbe.org/3w6d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3w6d RCSB], [https://www.ebi.ac.uk/pdbsum/3w6d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3w6d ProSAT]</span></td></tr>
[[Category: Miyatake, K.]]
</table>
[[Category: Nakazawa, M.]]
== Function ==
[[Category: Okazaki, N.]]
[https://www.uniprot.org/uniprot/B7XCV4_9RALS B7XCV4_9RALS]  
[[Category: Tamada, T.]]
<div style="background-color:#fffaf0;">
[[Category: Ueda, M.]]
== Publication Abstract from PubMed ==
[[Category: Chitinase]]
Chitinase C from Ralstonia sp. A-471 (Ra-ChiC) has a catalytic domain sequence similar to goose-type (G-type) lysozymes and, unlike other chitinases, belongs to glycohydrolase (GH) family 23. Using NMR spectroscopy, however, Ra-ChiC was found to interact only with the chitin dimer but not with the peptidoglycan fragment. Here we report the crystal structures of wild-type, E141Q, and E162Q of the catalytic domain of Ra-ChiC with or without chitin oligosaccharides. Ra-ChiC has a substrate-binding site including a tunnel-shaped cavity, which determines the substrate specificity. Mutation analyses based on this structural information indicated that a highly conserved Glu-141 acts as a catalytic acid, and that Asp-226 located at the roof of the tunnel activates a water molecule as a catalytic base. The unique arrangement of the catalytic residues makes a clear contrast to the other GH23 members and also to inverting GH19 chitinases.
[[Category: Enzyme]]
 
[[Category: Gh family 23]]
Crystal Structures of the Catalytic Domain of a Novel Glycohydrolase Family 23 Chitinase from Ralstonia sp. A-471 Reveals a Unique Arrangement of the Catalytic Residues for Inverting Chitin Hydrolysis.,Arimori T, Kawamoto N, Shinya S, Okazaki N, Nakazawa M, Miyatake K, Fukamizo T, Ueda M, Tamada T J Biol Chem. 2013 Jun 28;288(26):18696-706. doi: 10.1074/jbc.M113.462135. Epub, 2013 May 8. PMID:23658014<ref>PMID:23658014</ref>
[[Category: Glycoside hydrolase]]
 
[[Category: Hydrolase]]
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3w6d" style="background-color:#fffaf0;"></div>
 
==See Also==
*[[Chitinase 3D structures|Chitinase 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Ralstonia sp. A-471]]
[[Category: Arimori T]]
[[Category: Fukamizo T]]
[[Category: Kawamoto N]]
[[Category: Miyatake K]]
[[Category: Nakazawa M]]
[[Category: Okazaki N]]
[[Category: Tamada T]]
[[Category: Ueda M]]
Retrieved from "https://proteopedia.org/3w6d"