3fvm

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:32, 1 November 2023) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3fvm.jpg|left|200px]]
 
-
<!--
+
==Crystal structure of Steptococcus suis mannonate dehydratase with metal Mn++==
-
The line below this paragraph, containing "STRUCTURE_3fvm", creates the "Structure Box" on the page.
+
<StructureSection load='3fvm' size='340' side='right'caption='[[3fvm]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[3fvm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_suis Streptococcus suis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FVM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3FVM FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-
{{STRUCTURE_3fvm| PDB=3fvm | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3fvm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3fvm OCA], [https://pdbe.org/3fvm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3fvm RCSB], [https://www.ebi.ac.uk/pdbsum/3fvm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3fvm ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/UXUA_STRSY UXUA_STRSY] Catalyzes the dehydration of D-mannonate (By similarity).
 +
== 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/fv/3fvm_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=3fvm ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Mannonate dehydratase (ManD) is found only in certain bacterial species, where it participates in the dissimilation of glucuronate. ManD catalyzes the dehydration of d-mannonate to yield 2-keto-3-deoxygluconate (2-KDG), the carbon and energy source for growth. Selective inactivation of ManD by drug targeting is of therapeutic interest in the treatment of human Streptococcus suis infections. Here, we report the overexpression, purification, functional characterization, and crystallographic structure of ManD from S. suis. Importantly, by Fourier transform mass spectrometry, we show that 2-KDG is formed when the chemically synthesized substrate (d-mannonate) is incubated with ManD. Inductively coupled plasma-mass spectrometry revealed the presence of Mn(2+) in the purified protein, and in the solution state catalytically active ManD exists as a homodimer of two 41-kDa subunits. The crystal structures of S. suis ManD in native form and in complex with its substrate and Mn(2+) ion have been solved at a resolution of 2.9 A. The core structure of S. suis ManD is a TIM barrel similar to that of other members of the xylose isomerase-like superfamily. Structural analyses and comparative amino acid sequence alignments provide evidence for the importance of His311 and Tyr325 in ManD activity. The results of site-directed mutagenesis confirmed the functional role(s) of these residues in the dehydration reaction and a plausible mechanism for the ManD-catalyzed reaction is proposed.
-
===Crystal structure of Steptococcus suis mannonate dehydratase with metal Mn++===
+
Crystal structures of Streptococcus suis mannonate dehydratase (ManD) and its complex with substrate: genetic and biochemical evidence for a catalytic mechanism.,Zhang Q, Gao F, Peng H, Cheng H, Liu Y, Tang J, Thompson J, Wei G, Zhang J, Du Y, Yan J, Gao GF J Bacteriol. 2009 Sep;191(18):5832-7. Epub 2009 Jul 17. PMID:19617363<ref>PMID:19617363</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_19617363}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 3fvm" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 19617363 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_19617363}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
3FVM is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Streptococcus_suis Streptococcus suis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3FVM OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:19617363</ref><references group="xtra"/>
+
-
[[Category: Mannonate dehydratase]]
+
[[Category: Streptococcus suis]]
[[Category: Streptococcus suis]]
-
[[Category: Gao, F.]]
+
[[Category: Gao F]]
-
[[Category: Gao, F G.]]
+
[[Category: Gao FG]]
-
[[Category: Liu, Y.]]
+
[[Category: Liu Y]]
-
[[Category: Peng, H.]]
+
[[Category: Peng H]]
-
[[Category: Zhang, Q J.]]
+
[[Category: Zhang QJ]]
-
[[Category: Lyase]]
+
-
[[Category: Tim barrel]]
+
-
[[Category: Xylose isomerase-like superfamily]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Sep 3 16:04:59 2009''
+

Current revision

Crystal structure of Steptococcus suis mannonate dehydratase with metal Mn++

PDB ID 3fvm

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools