2job

From Proteopedia

(Difference between revisions)

Current revision

Solution structure of an antilipopolysaccharide factor from shrimp and its possible Lipid A binding site

Structural highlights

2job is a 1 chain structure with sequence from Penaeus monodon. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR, 15 models
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A5A3I5_PENMO

Evolutionary Conservation

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

Publication Abstract from PubMed

The anti-lipopolysaccharide factor ALF-Pm3 is a 98-residue protein identified in hemocytes from the black tiger shrimp Penaeus monodon. It was expressed in Pichia pastoris from the constitutive glyceraldehyde-3-phosphate dehydrogenase promoter as a folded and (15)N uniformly labeled rALF-Pm3 protein. Its 3D structure was established by NMR and consists of three alpha-helices packed against a four-stranded beta-sheet. The C(34)--C(55) disulfide bond was shown to be essential for the structure stability. By using surface plasmon resonance, we demonstrated that rALF-Pm3 binds to LPS, lipid A and to OM(R)-174, a soluble analogue of lipid A. Biophysical studies of rALF-Pm3/LPS and rALF-Pm3/OM(R)-174 complexes indicated rather high molecular sized aggregates, which prevented us to experimentally determine by NMR the binding mode of these lipids to rALF-Pm3. However, on the basis of striking structural similarities to the FhuA/LPS complex, we designed an original model of the possible lipid A-binding site of ALF-Pm3. Such a binding site, located on the ALF-Pm3 beta-sheet and involving seven charged residues, is well conserved in ALF-L from Limulus polyphemus and in ALF-T from Tachypleus tridentatus. In addition, our model is in agreement with experiments showing that beta-hairpin synthetic peptides corresponding to ALF-L beta-sheet bind to LPS. Delineating lipid A-binding site of ALFs will help go further in the de novo design of new antibacterial or LPS-neutralizing drugs. (c) 2008 Wiley Periodicals, Inc. Biopolymers 91: 207-220, 2009.This article was originally published online as an accepted preprint. The "Published Online" date corresponds to the preprint version. You can request a copy of the preprint by emailing the Biopolymers editorial office at biopolymers@wiley.com.

NMR structure of rALF-Pm3, an anti-lipopolysaccharide factor from shrimp: Model of the possible lipid A-binding site.,Yang Y, Boze H, Chemardin P, Padilla A, Moulin G, Tassanakajon A, Pugniere M, Roquet F, Destoumieux-Garzon D, Gueguen Y, Bachere E, Aumelas A Biopolymers. 2009 Mar;91(3):207-20. PMID:19107926^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Yang Y, Boze H, Chemardin P, Padilla A, Moulin G, Tassanakajon A, Pugniere M, Roquet F, Destoumieux-Garzon D, Gueguen Y, Bachere E, Aumelas A. NMR structure of rALF-Pm3, an anti-lipopolysaccharide factor from shrimp: Model of the possible lipid A-binding site. Biopolymers. 2009 Mar;91(3):207-20. PMID:19107926 doi:10.1002/bip.21119

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2job"

@@ Line 1: / Line 1: @@
 ==Solution structure of an antilipopolysaccharide factor from shrimp and its possible Lipid A binding site==
-<StructureSection load='2job' size='340' side='right'caption='[[2job]], [[NMR_Ensembles_of_Models | 15 NMR models]]' scene=''>
+<StructureSection load='2job' size='340' side='right'caption='[[2job]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2job]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Giant_tiger_prawn Giant tiger prawn]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JOB FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2job]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Penaeus_monodon Penaeus monodon]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JOB FirstGlance]. <br>
-</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=2job FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2job OCA], [https://pdbe.org/2job PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2job RCSB], [https://www.ebi.ac.uk/pdbsum/2job PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2job ProSAT]</span></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 15 models</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=2job FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2job OCA], [https://pdbe.org/2job PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2job RCSB], [https://www.ebi.ac.uk/pdbsum/2job PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2job ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/A5A3I5_PENMO A5A3I5_PENMO]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 11: / Line 14: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jo/2job_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 29: / Line 32: @@
 __TOC__
 </StructureSection>
-[[Category: Giant tiger prawn]]
 [[Category: Large Structures]]
-[[Category: Aumelas, A]]
+[[Category: Penaeus monodon]]
-[[Category: Bachere, E]]
+[[Category: Aumelas A]]
-[[Category: Boze, H]]
+[[Category: Bachere E]]
-[[Category: Chemardin, P]]
+[[Category: Boze H]]
-[[Category: Gueguen, Y]]
+[[Category: Chemardin P]]
-[[Category: Moulin, G]]
+[[Category: Gueguen Y]]
-[[Category: Padilla, A]]
+[[Category: Moulin G]]
-[[Category: Pugniere, M]]
+[[Category: Padilla A]]
-[[Category: Roquet, F]]
+[[Category: Pugniere M]]
-[[Category: Tassanakajon, A]]
+[[Category: Roquet F]]
-[[Category: Yang, Y]]
+[[Category: Tassanakajon A]]
-[[Category: Alf]]
+[[Category: Yang Y]]
-[[Category: Endotoxin]]
-[[Category: Lipid a binding protein]]
-[[Category: Lipid binding protein]]

2job

From Proteopedia

Current revision

Solution structure of an antilipopolysaccharide factor from shrimp and its possible Lipid A binding site

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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