2pa7: Difference between revisions

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[[Image:2pa7.gif|left|200px]]


{{Structure
==Structure of Wild-Type dTDP-4-keto-6-deoxy-D-glucose-3,4-ketoisomerase from Aneurinibacillus thermoaerophilus in complex with TDP==
|PDB= 2pa7 |SIZE=350|CAPTION= <scene name='initialview01'>2pa7</scene>, resolution 1.5&Aring;
<StructureSection load='2pa7' size='340' side='right'caption='[[2pa7]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TYD:THYMIDINE-5'-+DIPHOSPHATE'>TYD</scene> and <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>
<table><tr><td colspan='2'>[[2pa7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Aneurinibacillus_thermoaerophilus Aneurinibacillus thermoaerophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PA7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PA7 FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
|GENE= fdtA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=143495 Aneurinibacillus thermoaerophilus])
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=TYD:THYMIDINE-5-DIPHOSPHATE'>TYD</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=2pa7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pa7 OCA], [https://pdbe.org/2pa7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pa7 RCSB], [https://www.ebi.ac.uk/pdbsum/2pa7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pa7 ProSAT]</span></td></tr>
 
</table>
'''Structure of Wild-Type dTDP-4-keto-6-deoxy-D-glucose-3,4-ketoisomerase from Aneurinibacillus thermoaerophilus in complex with TDP'''
== Function ==
 
[https://www.uniprot.org/uniprot/FDTA_ANETH FDTA_ANETH] Mediates the isomerization of dTDP-6-deoxy-D-xylohex-4-ulose into dTDP-6-deoxy-D-xylohex-3-ulose in the biosynthesis of dTDP-3-acetamido-3,6-dideoxy-alpha-D-galactose, a glycan chain of the S-layer.<ref>PMID:12740380</ref> <ref>PMID:17459872</ref>
 
== Evolutionary Conservation ==
==Overview==
[[Image:Consurf_key_small.gif|200px|right]]
The repeating unit of the glycan chain in the S-layer of the bacterium Aneurinibacillus thermoaerophilus L420-91(T) is composed of four alpha-d-rhamnose molecules and two 3-acetamido-3,6-dideoxy-alpha-d-galactose moieties (abbreviated as Fucp3NAc). Formation of the glycan layer requires nucleotide-activated sugars as the donor molecules. Whereas the enzymes involved in the synthesis of GDP-rhamnose have been well characterized, less is known regarding the structures and enzymatic mechanisms of the enzymes required for the production of dTDP-Fucp3NAc. One of the enzymes involved in the biosynthesis of dTDP-Fucp3NAc is a 3,4-ketoisomerase, hereafter referred to as FdtA. Here we describe the first three-dimensional structure of this sugar isomerase complexed with dTDP and solved to 1.5 A resolution. The FdtA dimer assumes an almost jellyfish-like appearance with the sole alpha-helices representing the tentacles. Formation of the FdtA dimer represents a classical example of domain swapping whereby beta-strands 2 and 3 from one subunit form part of a beta-sheet in the second subunit. The active site architecture of FdtA is characterized by a cluster of three histidine residues, two of which, His(49) and His(51), appear to be strictly conserved in the amino acid sequences deposited to date. Site-directed mutagenesis experiments, enzymatic assays, and x-ray crystallographic analyses suggest that His(49) functions as an active site base.
Check<jmol>
 
  <jmolCheckbox>
==About this Structure==
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/pa/2pa7_consurf.spt"</scriptWhenChecked>
2PA7 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aneurinibacillus_thermoaerophilus Aneurinibacillus thermoaerophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PA7 OCA].  
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
 
    <text>to colour the structure by Evolutionary Conservation</text>
==Reference==
  </jmolCheckbox>
The x-ray structure of dTDP-4-keto-6-deoxy-D-glucose-3,4-ketoisomerase., Davis ML, Thoden JB, Holden HM, J Biol Chem. 2007 Jun 29;282(26):19227-36. Epub 2007 Apr 25. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17459872 17459872]
</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=2pa7 ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Aneurinibacillus thermoaerophilus]]
[[Category: Aneurinibacillus thermoaerophilus]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Davis, M L.]]
[[Category: Davis ML]]
[[Category: Holden, H M.]]
[[Category: Holden HM]]
[[Category: Thoden, J B.]]
[[Category: Thoden JB]]
[[Category: CL]]
[[Category: EDO]]
[[Category: TYD]]
[[Category: deoxysugar biosynthesis]]
[[Category: ketoisomerase]]
[[Category: s-layer biosynthesis]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:10:43 2008''
Retrieved from "https://proteopedia.org/2pa7"