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| | <StructureSection load='5vfm' size='340' side='right'caption='[[5vfm]], [[Resolution|resolution]] 2.06Å' scene=''> | | <StructureSection load='5vfm' size='340' side='right'caption='[[5vfm]], [[Resolution|resolution]] 2.06Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5vfm]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bothrops_pauloensis Bothrops pauloensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VFM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VFM FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5vfm]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bothrops_pauloensis Bothrops pauloensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VFM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VFM FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene>, <scene name='pdbligand=ME2:1-ETHOXY-2-(2-METHOXYETHOXY)ETHANE'>ME2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.058Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5vfh|5vfh]], [[5vfj|5vfj]], [[5vfn|5vfn]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene>, <scene name='pdbligand=ME2:1-ETHOXY-2-(2-METHOXYETHOXY)ETHANE'>ME2</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5vfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vfm OCA], [http://pdbe.org/5vfm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vfm RCSB], [http://www.ebi.ac.uk/pdbsum/5vfm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vfm 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=5vfm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vfm OCA], [https://pdbe.org/5vfm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vfm RCSB], [https://www.ebi.ac.uk/pdbsum/5vfm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vfm ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/PA2H_BOTPA PA2H_BOTPA]] Snake venom phospholipase A2 (PLA2) that lacks enzymatic activity. Is myotoxic. Displays bactericidal activity and promotes the blockage of the neuromuscular contraction of the chick biventer cervicis muscle. Also disrupts artificial membranes, and provokes tissue damages characterized by edema, necrosis and inflammation. May act as pro-inflammatory mediators, inducing metalloproteinase and cytokine production from the inflammatory and satellite cells.<ref>PMID:10860537</ref> <ref>PMID:9972319</ref> <ref>PMID:14623331</ref> | + | [https://www.uniprot.org/uniprot/PA2H_BOTPA PA2H_BOTPA] Snake venom phospholipase A2 (PLA2) that lacks enzymatic activity. Is myotoxic. Displays bactericidal activity and promotes the blockage of the neuromuscular contraction of the chick biventer cervicis muscle. Also disrupts artificial membranes, and provokes tissue damages characterized by edema, necrosis and inflammation. May act as pro-inflammatory mediators, inducing metalloproteinase and cytokine production from the inflammatory and satellite cells.<ref>PMID:10860537</ref> <ref>PMID:9972319</ref> <ref>PMID:14623331</ref> |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | </div> | | </div> |
| | <div class="pdbe-citations 5vfm" style="background-color:#fffaf0;"></div> | | <div class="pdbe-citations 5vfm" style="background-color:#fffaf0;"></div> |
| | + | |
| | + | ==See Also== |
| | + | *[[Phospholipase A2 homolog|Phospholipase A2 homolog]] |
| | == References == | | == References == |
| | <references/> | | <references/> |
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| | [[Category: Bothrops pauloensis]] | | [[Category: Bothrops pauloensis]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Fontes, M R.M]] | + | [[Category: De Lima LFG]] |
| - | [[Category: Lima, L F.G De]]
| + | [[Category: Fontes MRM]] |
| - | [[Category: Hydrolase]] | + | |
| - | [[Category: Lys49-pla2]]
| + | |
| - | [[Category: P-coumaric acid]]
| + | |
| Structural highlights
Function
PA2H_BOTPA Snake venom phospholipase A2 (PLA2) that lacks enzymatic activity. Is myotoxic. Displays bactericidal activity and promotes the blockage of the neuromuscular contraction of the chick biventer cervicis muscle. Also disrupts artificial membranes, and provokes tissue damages characterized by edema, necrosis and inflammation. May act as pro-inflammatory mediators, inducing metalloproteinase and cytokine production from the inflammatory and satellite cells.[1] [2] [3]
Publication Abstract from PubMed
There are 2.5 million cases of snakebite per year and approximately 100,000 to 150,000 deaths. Thus, it is considered an important public health problem by the World Health Organization. Snakes from the Bothrops genus may cause severe local effects in the victims, so it is important to develop inhibitors to treat local effects in patients. In addition, approximately 30 different species of bothropic snakes have been described that may present differences in their venom composition. Small structural differences in the venom proteins may result in different ligands binding. Herein, BnSP-7, a PLA2-like protein that causes local myotoxic effects, was analyzed using different biophysical techniques. Crystal structures of BnSP-7 binding to three different cinnamic acid derivates were solved showing that the ligands bind in the membrane-dockage region (MDoS) of the protein. Spectroscopy fluorescence and microscale thermophoresis (MST) assays showed that these ligands also bind to BnSP-7 in solution and provide comparative information about their affinity to BnSP-7. MST experiments also showed that hydroxyl radicals of the ligands, involved in their binding with the MDoS region of BnSP-7, are essential to increase their affinity with the protein. As this region has been indicated as essential for the myotoxic mechanism, the ligands could potentially be used as inhibitors for BnSP-7. These results provide relevant insights to understand the PLA2-like proteins myotoxic mechanism and may eventually lead to design of new inhibitors for these toxins. Furthermore, a comparative structural analysis of BnSP-7 with other PLA2-like proteins showed that BnSP-7 has an atypical quaternary conformation, suggesting an intermediate state that is unlike other PLA2-like proteins. This information, combined with the absence or partial occupancy of molecules in their hydrophobic channel and the misaligned membrane-disruption region, led us to hypothesize that the protein is not able to fully exert its myotoxic activity like other PLA2-like proteins.
Structural studies with BnSP-7 reveal an atypical oligomeric conformation compared to phospholipases A2-like toxins.,de Lima LFG, Borges RJ, Viviescas MA, Fernandes CAH, Fontes MRM Biochimie. 2017 Nov;142:11-21. doi: 10.1016/j.biochi.2017.07.009. Epub 2017 Jul, 25. PMID:28751219[4]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Soares AM, Guerra-Sa R, Borja-Oliveira CR, Rodrigues VM, Rodrigues-Simioni L, Rodrigues V, Fontes MR, Lomonte B, Gutierrez JM, Giglio JR. Structural and functional characterization of BnSP-7, a Lys49 myotoxic phospholipase A(2) homologue from Bothrops neuwiedi pauloensis venom. Arch Biochem Biophys. 2000 Jun 15;378(2):201-9. PMID:10860537 doi:http://dx.doi.org/10.1006/abbi.2000.1790
- ↑ Rodrigues VM, Soares AM, Mancin AC, Fontes MR, Homsi-Brandeburgo MI, Giglio JR. Geographic variations in the composition of myotoxins from Bothrops neuwiedi snake venoms: biochemical characterization and biological activity. Comp Biochem Physiol A Mol Integr Physiol. 1998 Nov;121(3):215-22. PMID:9972319
- ↑ Magro AJ, Soares AM, Giglio JR, Fontes MR. Crystal structures of BnSP-7 and BnSP-6, two Lys49-phospholipases A(2): quaternary structure and inhibition mechanism insights. Biochem Biophys Res Commun. 2003 Nov 21;311(3):713-20. PMID:14623331
- ↑ de Lima LFG, Borges RJ, Viviescas MA, Fernandes CAH, Fontes MRM. Structural studies with BnSP-7 reveal an atypical oligomeric conformation compared to phospholipases A2-like toxins. Biochimie. 2017 Nov;142:11-21. doi: 10.1016/j.biochi.2017.07.009. Epub 2017 Jul, 25. PMID:28751219 doi:http://dx.doi.org/10.1016/j.biochi.2017.07.009
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