6ikm

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<StructureSection load='6ikm' size='340' side='right'caption='[[6ikm]], [[Resolution|resolution]] 3.40&Aring;' scene=''>
<StructureSection load='6ikm' size='340' side='right'caption='[[6ikm]], [[Resolution|resolution]] 3.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6ikm]] is a 36 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_aeruginosus"_(schroeter_1872)_trevisan_1885 "bacillus aeruginosus" (schroeter 1872) trevisan 1885]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IKM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6IKM FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6ikm]] is a 36 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IKM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IKM FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene></td></tr>
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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]] 3.398&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6ikr|6ikr]]</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>, <scene name='pdbligand=SPD:SPERMIDINE'>SPD</scene></td></tr>
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<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=6ikm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ikm OCA], [http://pdbe.org/6ikm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ikm RCSB], [http://www.ebi.ac.uk/pdbsum/6ikm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ikm ProSAT]</span></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=6ikm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ikm OCA], [https://pdbe.org/6ikm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ikm RCSB], [https://www.ebi.ac.uk/pdbsum/6ikm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ikm ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/SPUE_PSEAE SPUE_PSEAE] Spermidine-binding protein probably required for its uptake into cells. Binds spermidine with high affinity (KD=14.3 nM). Does not bind putrescine, cadaverine or spermine. Spermidine binding induces large inter-domain conformational changes. Implicated in induction of type 3 secretion systems (T3SS), which play a role in virulence.<ref>PMID:22300763</ref>
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Multidrug-resistant gram-negative bacteria infection is particularly severe within the designated ESKAPE pathogens (Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, and Enterobacter species), which underscores the urgent need to explore alternative therapeutic strategies. The type III secretion system (T3SS) is considered to be a key virulence factor in many gram-negative bacteria, and T3SS is in turn regulated by SpuE in P. aeruginosa, which is a spermidine binding protein from an ATP-binding cassette transporter family and highly conserved within ESKAPE pathogens. Here, we identified a potent anti-SpuE antagonistic antibody that allosterically inhibits the expression of T3SS and attenuates virulence of P. aeruginosa. X-ray crystallography and molecular dynamics simulations revealed that binding of antibody to SpuE induces a change in the dynamics of SpuE, which in turn may reduce spermidine uptake by P. aeruginosa. The antibody could serve as a template for developing novel biologics to target a broad spectrum of gram-negative bacteria.
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A Potent Anti-SpuE Antibody Allosterically Inhibits Type III Secretion System and Attenuates Virulence of Pseudomonas Aeruginosa.,Zhang Y, Sun X, Qian Y, Yi H, Song K, Zhu H, Zonta F, Chen W, Ji Q, Miersch S, Sidhu SS, Wu D J Mol Biol. 2019 Dec 6;431(24):4882-4896. doi: 10.1016/j.jmb.2019.10.026. Epub, 2019 Nov 2. PMID:31682834<ref>PMID:31682834</ref>
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==See Also==
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*[[Antibody 3D structures|Antibody 3D structures]]
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 6ikm" style="background-color:#fffaf0;"></div>
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== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Homo sapiens]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Sun, X]]
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[[Category: Pseudomonas aeruginosa]]
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[[Category: Wu, D]]
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[[Category: Sun X]]
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[[Category: Antibody]]
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[[Category: Wu D]]
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[[Category: Antimicrobial protein]]
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[[Category: Atp binding cassette]]
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[[Category: Spue]]
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[[Category: Type three secretion system]]
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Current revision

Crystal structure of SpuE-Spermidine in complex with ScFv5

PDB ID 6ikm

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