5nq4: Difference between revisions
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== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[5nq4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Naja_oxiana Naja oxiana]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NQ4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NQ4 FirstGlance]. <br> | <table><tr><td colspan='2'>[[5nq4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Naja_oxiana Naja oxiana]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NQ4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NQ4 FirstGlance]. <br> | ||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr> | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 20 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=5nq4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nq4 OCA], [https://pdbe.org/5nq4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nq4 RCSB], [https://www.ebi.ac.uk/pdbsum/5nq4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nq4 ProSAT]</span></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=5nq4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nq4 OCA], [https://pdbe.org/5nq4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nq4 RCSB], [https://www.ebi.ac.uk/pdbsum/5nq4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nq4 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
Latest revision as of 15:03, 6 November 2024
Cytotoxin-1 in DPC-micelleCytotoxin-1 in DPC-micelle
Structural highlights
Function3SA1_NAJOX This three-finger cytotoxin is a basic protein that interacts and penetrates into the cell membrane, with the tips of all the three loops. Cytotoxins which have a 'Pro-30' (P-type) interacts with membrane stronger that those which have a Ser-28 (S-type). CTI interacts with membrane weaker than CTII. Publication Abstract from PubMedCobra cytotoxins (CTs) belong to the three-fingered protein family. They are classified into S- and P-types, the latter exhibiting higher membrane-perturbing capacity. In this work, we investigated the interaction of CTs with phospholipid bilayers, using coarse-grained (CG) and full-atom (FA) molecular dynamics (MD). The object of this work is a CT of an S-type, cytotoxin I (CT1) from N.oxiana venom. Its spatial structure in aqueous solution and in the micelles of dodecylphosphocholine (DPC) were determined by (1)H-NMR spectroscopy. Then, via CG- and FA MD-computations, we evaluated partitioning of CT1 molecule into palmitoyloleoylphosphatidylcholine (POPC) membrane, using the toxin spatial models, obtained either in aqueous solution, or detergent micelle. The latter model exhibits minimal structural changes upon partitioning into the membrane, while the former deviates from the starting conformation, loosing the tightly bound water molecule in the loop-2. These data show that the structural changes elicited by CT1 molecule upon incorporation into DPC micelle take place likely in the lipid membrane, although the mode of the interaction of this toxin with DPC micelle (with the tips of the all three loops) is different from its mode in POPC membrane (primarily with the tip of the loop-1 and both the tips of the loop-1 and loop-2). Impact of membrane partitioning on the spatial structure of an S-type cobra cytotoxin.,Dubovskii PV, Dubinnyi MA, Volynsky PE, Pustovalova YE, Konshina AG, Utkin YN, Arseniev AS, Efremov RG J Biomol Struct Dyn. 2017 Nov 6:1-16. doi: 10.1080/07391102.2017.1389662. PMID:28990854[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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