3lyq: Difference between revisions

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==Crystal structure of IpgB2 from Shigella flexneri==
==Crystal structure of IpgB2 from Shigella flexneri==
<StructureSection load='3lyq' size='340' side='right' caption='[[3lyq]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
<StructureSection load='3lyq' size='340' side='right'caption='[[3lyq]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3lyq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"shigella_paradysenteriae"_weldin_1927 "shigella paradysenteriae" weldin 1927]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3LYQ FirstGlance]. <br>
<table><tr><td colspan='2'>[[3lyq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Shigella_flexneri Shigella flexneri]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LYQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LYQ FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</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]] 2.3&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3lw8|3lw8]], [[3lwn|3lwn]], [[3lxr|3lxr]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FEO:MU-OXO-DIIRON'>FEO</scene>, <scene name='pdbligand=FLC:CITRATE+ANION'>FLC</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ipgB2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=623 "Shigella paradysenteriae" Weldin 1927])</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=3lyq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lyq OCA], [https://pdbe.org/3lyq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3lyq RCSB], [https://www.ebi.ac.uk/pdbsum/3lyq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3lyq ProSAT]</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=3lyq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3lyq OCA], [http://pdbe.org/3lyq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3lyq RCSB], [http://www.ebi.ac.uk/pdbsum/3lyq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3lyq ProSAT]</span></td></tr>
</table>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q9AJW7_SHIFL Q9AJW7_SHIFL]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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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=3lyq ConSurf].
</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=3lyq ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
A common theme in bacterial pathogenesis is the manipulation of eukaryotic cells by targeting the cytoskeleton. This is in most cases achieved either by modifying actin, or indirectly via activation of key regulators controlling actin dynamics such as Rho-GTPases. A novel group of bacterial virulence factors termed the WXXXE family has emerged as guanine nucleotide exchange factors (GEFs) for these GTPases. The precise mechanism of nucleotide exchange, however, has remained unclear. Here we report the structure of the WXXXE-protein IpgB2 from Shigella flexneri and its complex with human RhoA. We unambiguously identify IpgB2 as a bacterial RhoA-GEF and dissect the molecular mechanism of GDP release, an essential prerequisite for GTP binding. Our observations uncover that IpgB2 induces conformational changes on RhoA mimicking DbI- but not DOCK family GEFs. We also show that dissociation of the GDP.Mg(2+) complex is preceded by the displacement of the metal ion to the alpha-phosphate of the nucleotide, diminishing its affinity to the GTPase. These data refine our understanding of the mode of action not only of WXXXE GEFs but also of mammalian GEFs of the DH/PH family.
Structure of Shigella IpgB2 in complex with human RhoA: implications for the mechanism of bacterial guanine nucleotide exchange factor mimicry.,Klink BU, Barden S, Heidler TV, Borchers C, Ladwein M, Stradal TE, Rottner K, Heinz DW J Biol Chem. 2010 May 28;285(22):17197-208. Epub 2010 Apr 2. PMID:20363740<ref>PMID:20363740</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3lyq" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Shigella paradysenteriae weldin 1927]]
[[Category: Large Structures]]
[[Category: Barden, S]]
[[Category: Shigella flexneri]]
[[Category: Borchers, C]]
[[Category: Barden S]]
[[Category: Heidler, T V]]
[[Category: Borchers C]]
[[Category: Heinz, D W]]
[[Category: Heidler TV]]
[[Category: Klink, B U]]
[[Category: Heinz DW]]
[[Category: Ladwein, M]]
[[Category: Klink BU]]
[[Category: Rottner, K]]
[[Category: Ladwein M]]
[[Category: Stradal, T E.B]]
[[Category: Rottner K]]
[[Category: Bacterial gef]]
[[Category: Stradal TEB]]
[[Category: Cytoskeleton dynamic]]
[[Category: Gef]]
[[Category: Ipgb2]]
[[Category: Rhoa-binding protein]]
[[Category: Ttss effector protein]]
[[Category: Wxxxe]]

Latest revision as of 11:31, 20 March 2024

Crystal structure of IpgB2 from Shigella flexneriCrystal structure of IpgB2 from Shigella flexneri

Structural highlights

3lyq is a 2 chain structure with sequence from Shigella flexneri. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.3Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q9AJW7_SHIFL

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

3lyq, resolution 2.30Å

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OCA
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