3nds

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[[Image:3nds.png|left|200px]]
 
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==Crystal structure of engineered Naja Nigricollis toxin alpha==
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The line below this paragraph, containing "STRUCTURE_3nds", creates the "Structure Box" on the page.
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<StructureSection load='3nds' size='340' side='right'caption='[[3nds]], [[Resolution|resolution]] 1.20&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[3nds]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Naja_pallida Naja pallida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NDS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NDS FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 1.2&#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=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
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{{STRUCTURE_3nds| PDB=3nds | SCENE= }}
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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=3nds FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nds OCA], [https://pdbe.org/3nds PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nds RCSB], [https://www.ebi.ac.uk/pdbsum/3nds PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nds ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/3S11_NAJPA 3S11_NAJPA] Binds with high affinity to muscular nicotinic acetylcholine receptors (nAChRs) (tested on Torpedo marmorata AChR, Kd=0.07 nM) and with low affinity to neuronal alpha-7/CHRNA7 nAChRs (tested on chimeric receptor, Kd=3 uM) and inhibit acetylcholine from binding to the receptor, thereby impairing neuromuscular transmission (PubMed:9305882). Produces peripheral paralysis by blocking neuromuscular transmission at the postsynaptic site.<ref>PMID:9305882</ref>
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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/nd/3nds_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=3nds ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Much has been learned about the folding of proteins from comparative studies of the folding of proteins that are related in sequence and structure. Observation of the effects of mutations helps account for sequence-specific properties and large variations in folding rates observed in homologous proteins, which are not explained by structure-derived descriptions. The folding kinetics of variants of a beta-stranded protein, toxin alpha from Naja nigricollis, depends on the length of their loop lk1. These proteins, named Tox60, Tox61, and Tox62, contain four disulfide bonds. We show that their oxidative refolding pathways are similar. Differences in these pathways are restricted to the last step of the reaction, that is, the closure of the last disulfide. At this step, two species of three-disulfide intermediates are observed: intermediate C lacking the B3 disulfide and intermediate D lacking the B2 disulfide. Surprisingly, D is the most productive intermediate for Tox61 despite the low accessibility of its free cysteines. However, in the case of Tox62, its conversion efficiency drops by 2 orders of magnitude and C becomes the most productive intermediate. NMR was used in order to study the structural dynamics of each of these intermediates. Both three-disulfide intermediates of Tox61 exist in two forms, exchanging on the 1- to 100-ms scale. One of these forms is structurally very close to the native Tox61, whereas the other is always significantly more flexible on a picosecond-to-nanosecond timescale. On the other hand, in the case of Tox62, the three-disulfide intermediates only show a native-like structure. The higher conformational heterogeneity of Tox61 intermediate D allows an increased accessibility of its free cysteines to oxidative agents, which explains its faster native disulfide formation. Thus, residue deletion in loop lk1 probably abrogates stabilizing intramolecular interactions, creates conformational heterogeneity, and increases the folding rate of Tox60 and Tox61 compared to Tox62.
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===Crystal structure of engineered Naja Nigricollis toxin alpha===
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Conformational exchange is critical for the productivity of an oxidative folding intermediate with buried free cysteines.,Gross G, Gallopin M, Vandame M, Couprie J, Stura E, Zinn-Justin S, Drevet P J Mol Biol. 2010 Oct 22;403(2):299-312. Epub 2010 Sep 8. PMID:20804768<ref>PMID:20804768</ref>
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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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The line below this paragraph, {{ABSTRACT_PUBMED_20804768}}, adds the Publication Abstract to the page
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<div class="pdbe-citations 3nds" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 20804768 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20804768}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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[[3nds]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NDS OCA].
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[[Category: Naja pallida]]
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[[Category: Drevet P]]
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==Reference==
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[[Category: Gallopin M]]
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<ref group="xtra">PMID:20804768</ref><references group="xtra"/>
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[[Category: Gregory G]]
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[[Category: Drevet, P.]]
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[[Category: Stura EA]]
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[[Category: Gallopin, M.]]
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[[Category: Vandame M]]
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[[Category: Gregory, G.]]
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[[Category: Stura, E A.]]
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[[Category: Vandame, M.]]
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Current revision

Crystal structure of engineered Naja Nigricollis toxin alpha

PDB ID 3nds

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