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| | ==Crystal structure of F114R/R117Q mutant of 3-deoxy-D-manno-octulosonate 8-phosphate synthase (KDO8PS) from Neisseria meningitidis== | | ==Crystal structure of F114R/R117Q mutant of 3-deoxy-D-manno-octulosonate 8-phosphate synthase (KDO8PS) from Neisseria meningitidis== |
| - | <StructureSection load='4jth' size='340' side='right' caption='[[4jth]], [[Resolution|resolution]] 2.00Å' scene=''> | + | <StructureSection load='4jth' size='340' side='right'caption='[[4jth]], [[Resolution|resolution]] 2.00Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4jth]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Neimb Neimb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JTH OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4JTH FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4jth]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Neisseria_meningitidis_MC58 Neisseria meningitidis MC58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4JTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4JTH FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4jte|4jte]], [[4jtf|4jtf]], [[4jtg|4jtg]], [[4jti|4jti]], [[4jtj|4jtj]], [[4jtk|4jtk]], [[4jtl|4jtl]]</td></tr>
| + | <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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">kdsA, NMB1283 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=122586 NEIMB])</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=4jth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jth OCA], [https://pdbe.org/4jth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4jth RCSB], [https://www.ebi.ac.uk/pdbsum/4jth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4jth ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[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] </span></td></tr> | + | |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4jth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4jth OCA], [http://pdbe.org/4jth PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4jth RCSB], [http://www.ebi.ac.uk/pdbsum/4jth PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4jth ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/KDSA_NEIMB KDSA_NEIMB] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: 3-deoxy-8-phosphooctulonate synthase]] | + | [[Category: Large Structures]] |
| - | [[Category: Neimb]] | + | [[Category: Neisseria meningitidis MC58]] |
| - | [[Category: Allison, T M]] | + | [[Category: Allison TM]] |
| - | [[Category: Cochrane, F C]] | + | [[Category: Cochrane FC]] |
| - | [[Category: Jameson, G B]] | + | [[Category: Jameson GB]] |
| - | [[Category: Parker, E J]] | + | [[Category: Parker EJ]] |
| - | [[Category: Kdo8 kdop]]
| + | |
| - | [[Category: Kdo8p]]
| + | |
| - | [[Category: Kdop]]
| + | |
| - | [[Category: Lipopolysaccharide]]
| + | |
| - | [[Category: Lipopolysaccharide biosynthesis]]
| + | |
| - | [[Category: Manno-octulosonate]]
| + | |
| - | [[Category: Synthase]]
| + | |
| - | [[Category: Tim barrel]]
| + | |
| - | [[Category: Transferase]]
| + | |
| Structural highlights
Function
KDSA_NEIMB
Publication Abstract from PubMed
3-Deoxy-d-manno-octulosonate 8-phosphate synthase (KDO8PS) catalyzes the reaction between phosphoenolpyruvate and arabinose 5-phosphate (A5P) in the first committed step in the pathway to 3-deoxy-d-manno-octulosonate, a component in the cell wall of Gram-negative bacteria. KDO8PS is evolutionarily and structurally related to the first enzyme of the shikimate pathway, 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase (DAH7PS), which uses erythrose 4-phosphate in place of A5P. Both KDO8PS and type Ibeta DAH7PS enzymes adopt similar homotetrameric associations with their active sites close to one of the interfaces. The conserved PAFLxR motif in KDO8PS and the corresponding GARNxQ motif in type Ibeta DAH7PS, both on the short beta4-alpha4 loop of the (beta/alpha)8 barrel, form part of this interface and provide key contacts with substrates. This 112PAFLxR117 motif was mutated in Neisseria meningitidis KDO8PS in order to assess its role in enzyme function. Arg117 extends across the interface to provide guanidinium functionality in the A5P binding site of the adjacent subunit. Substitution Arg117Ala severely hampered catalysis, whereas substitution to Lys was tolerated better. Mutation of Phe114 to either Arg or Ala results in active proteins, but with substantially elevated KmA5P values. Mutant proteins that combine substitutions in this motif demonstrate poor catalytic function, and, although these mutated residues now structurally resemble their counterparts in the GARNxQ motif of type Ibeta DAH7PS, no DAH7PS-like activity was observed. Analysis of the structures reveals that small changes in relative orientation of the subunits are important for the differences in active-site construction. Quaternary structure is therefore tightly linked to substrate specificity.
Examining the Role of Intersubunit Contacts in Catalysis by 3-Deoxy-d-manno-octulosonate 8-Phosphate Synthase.,Allison TM, Cochrane FC, Jameson GB, Parker EJ Biochemistry. 2013 Jun 26. PMID:23746359[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Allison TM, Cochrane FC, Jameson GB, Parker EJ. Examining the Role of Intersubunit Contacts in Catalysis by 3-Deoxy-d-manno-octulosonate 8-Phosphate Synthase. Biochemistry. 2013 Jun 26. PMID:23746359 doi:10.1021/bi400521f
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