1d9e

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(New page: 200px<br /><applet load="1d9e" size="450" color="white" frame="true" align="right" spinBox="true" caption="1d9e, resolution 2.4&Aring;" /> '''STRUCTURE OF E. COLI ...)
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[[Image:1d9e.jpg|left|200px]]<br /><applet load="1d9e" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1d9e, resolution 2.4&Aring;" />
 
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'''STRUCTURE OF E. COLI KDO8P SYNTHASE'''<br />
 
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==Overview==
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==STRUCTURE OF E. COLI KDO8P SYNTHASE==
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3-deoxy-D-manno-octulosonate 8-phosphate (KDO8P) synthase catalyzes the, condensation of phosphoenolpyruvate (PEP) with arabinose 5-phosphate (A5P), to form KDO8P and inorganic phosphate. KDO8P is the phosphorylated, precursor of 3-deoxy-D-manno-octulosonate, an essential sugar of the, lipopolysaccharide of Gram-negative bacteria. The crystal structure of the, Escherichia coli KDO8P synthase has been determined by multiple wavelength, anomalous diffraction and the model has been refined to 2.4 A (R-factor, 19.9%; R-free, 23.9%). KDO8P synthase is a homotetramer in which each, monomer has the fold of a (beta/alpha)(8) barrel. On the basis of the, features of the active site, PEP and A5P are predicted to bind with their, phosphate moieties 13 A apart such that KDO8P synthesis would proceed via, a linear intermediate. A reaction similar to KDO8P synthesis, the, condensation of phosphoenolpyruvate, and erythrose 4-phosphate to form, 3-deoxy-D-arabino-heptulosonate 7-phosphate (DAH7P), is catalyzed by DAH7P, synthase. In the active site of DAH7P synthase the two substrates PEP and, erythrose 4-phosphate appear to bind in a configuration similar to that, proposed for PEP and A5P in the active site of KDO8P synthase. This, observation suggests that KDO8P synthase and DAH7P synthase evolved from a, common ancestor and that they adopt the same catalytic strategy.
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<StructureSection load='1d9e' size='340' side='right'caption='[[1d9e]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1d9e]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D9E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D9E FirstGlance]. <br>
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</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>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1d9e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d9e OCA], [https://pdbe.org/1d9e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d9e RCSB], [https://www.ebi.ac.uk/pdbsum/1d9e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d9e ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/KDSA_ECOLI KDSA_ECOLI] Synthesis of KDO 8-P which is required for lipid A maturation and cellular growth.[HAMAP-Rule:MF_00056]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/d9/1d9e_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1d9e ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1D9E is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] with SO4 as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/3-deoxy-8-phosphooctulonate_synthase 3-deoxy-8-phosphooctulonate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.5.1.55 2.5.1.55] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1D9E OCA].
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*[[Kdo-8-phosphate synthase|Kdo-8-phosphate synthase]]
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__TOC__
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==Reference==
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</StructureSection>
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Structure and mechanism of 3-deoxy-D-manno-octulosonate 8-phosphate synthase., Radaev S, Dastidar P, Patel M, Woodard RW, Gatti DL, J Biol Chem. 2000 Mar 31;275(13):9476-84. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10734095 10734095]
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[[Category: 3-deoxy-8-phosphooctulonate synthase]]
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[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Dastidar, P.]]
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[[Category: Dastidar P]]
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[[Category: Gatti, D.L.]]
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[[Category: Gatti DL]]
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[[Category: Patel, M.]]
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[[Category: Patel M]]
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[[Category: Radaev, S.]]
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[[Category: Radaev S]]
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[[Category: Woodard, R.W.]]
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[[Category: Woodard RW]]
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[[Category: SO4]]
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[[Category: a5p]]
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[[Category: dah7p]]
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[[Category: kdo]]
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[[Category: kdo8p]]
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[[Category: pep]]
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[[Category: tim barrel]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 13:05:51 2007''
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Current revision

STRUCTURE OF E. COLI KDO8P SYNTHASE

PDB ID 1d9e

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