2oqd: Difference between revisions
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|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Phospholipase_A(2) Phospholipase A(2)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.4 3.1.1.4] </span> | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Phospholipase_A(2) Phospholipase A(2)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.4 3.1.1.4] </span> | ||
|GENE= | |GENE= | ||
|DOMAIN= | |DOMAIN=<span class='plainlinks'>[http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd00125 PLA2c]</span> | ||
|RELATEDENTRY=[[1gmz|1GMZ]], [[1u73|1U73]], [[1pao|1PAO]] | |RELATEDENTRY=[[1gmz|1GMZ]], [[1u73|1U73]], [[1pao|1PAO]] | ||
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2oqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oqd OCA], [http://www.ebi.ac.uk/pdbsum/2oqd PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2oqd RCSB]</span> | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2oqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oqd OCA], [http://www.ebi.ac.uk/pdbsum/2oqd PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2oqd RCSB]</span> | ||
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'''Crystal Structure of BthTX-II''' | '''Crystal Structure of BthTX-II''' | ||
==Overview== | |||
A myotoxic Asp49-phospholipase A(2) (Asp49-PLA(2)) with low catalytic activity (BthTX-II from Bothrops jararacussu venom) was crystallized and the molecular-replacement solution has been obtained with a dimer in the asymmetric unit. The quaternary structure of BthTX-II resembles the myotoxic Asp49-PLA(2) PrTX-III (piratoxin III from B. pirajai venom) and all non-catalytic and myotoxic dimeric Lys49-PLA(2)s. Despite of this, BthTX-II is different from the highly catalytic and non-myotoxic BthA-I (acidic PLA(2) from B. jararacussu) and other Asp49-PLA(2)s. BthTX-II structure showed a severe distortion of calcium-binding loop leading to displacement of the C-terminal region. Tyr28 side chain, present in this region, is in an opposite position in relation to the same residue in the catalytic activity Asp49-PLA(2)s, making a hydrogen bond with the atom Odelta2 of the catalytically active Asp49, which should coordinate the calcium. This high distortion may also be confirmed by the inability of BthTX-II to bind Na(+) ions at the Ca(2+)-binding loop, despite of the crystallization to have occurred in the presence of this ion. In contrast, other Asp49-PLA(2)s which are able to bind Ca(2+) ions are also able to bind Na(+) ions at this loop. The comparison with other catalytic, non-catalytic and inhibited PLA(2)s indicates that the BthTX-II is not able to bind calcium ions; consequently, we suggest that its low catalytic function is based on an alternative way compared with other PLA(2)s. | |||
==About this Structure== | ==About this Structure== | ||
2OQD is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bothrops_jararacussu Bothrops jararacussu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OQD OCA]. | 2OQD is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bothrops_jararacussu Bothrops jararacussu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2OQD OCA]. | ||
==Reference== | |||
Crystal structure of a myotoxic Asp49-phospholipase A(2) with low catalytic activity: Insights into Ca(2+)-independent catalytic mechanism., Correa LC, Marchi-Salvador DP, Cintra AC, Sampaio SV, Soares AM, Fontes MR, Biochim Biophys Acta. 2008 Apr;1784(4):591-9. Epub 2008 Jan 26. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18261474 18261474] | |||
[[Category: Bothrops jararacussu]] | [[Category: Bothrops jararacussu]] | ||
[[Category: Phospholipase A(2)]] | [[Category: Phospholipase A(2)]] | ||
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[[Category: hydrolase]] | [[Category: hydrolase]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 2 11:31:38 2008'' | ||
Revision as of 11:31, 2 April 2008
| |||||||
| , resolution 2.19Å | |||||||
|---|---|---|---|---|---|---|---|
| Activity: | Phospholipase A(2), with EC number 3.1.1.4 | ||||||
| Domains: | PLA2c | ||||||
| Related: | 1GMZ, 1U73, 1PAO
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of BthTX-II
OverviewOverview
A myotoxic Asp49-phospholipase A(2) (Asp49-PLA(2)) with low catalytic activity (BthTX-II from Bothrops jararacussu venom) was crystallized and the molecular-replacement solution has been obtained with a dimer in the asymmetric unit. The quaternary structure of BthTX-II resembles the myotoxic Asp49-PLA(2) PrTX-III (piratoxin III from B. pirajai venom) and all non-catalytic and myotoxic dimeric Lys49-PLA(2)s. Despite of this, BthTX-II is different from the highly catalytic and non-myotoxic BthA-I (acidic PLA(2) from B. jararacussu) and other Asp49-PLA(2)s. BthTX-II structure showed a severe distortion of calcium-binding loop leading to displacement of the C-terminal region. Tyr28 side chain, present in this region, is in an opposite position in relation to the same residue in the catalytic activity Asp49-PLA(2)s, making a hydrogen bond with the atom Odelta2 of the catalytically active Asp49, which should coordinate the calcium. This high distortion may also be confirmed by the inability of BthTX-II to bind Na(+) ions at the Ca(2+)-binding loop, despite of the crystallization to have occurred in the presence of this ion. In contrast, other Asp49-PLA(2)s which are able to bind Ca(2+) ions are also able to bind Na(+) ions at this loop. The comparison with other catalytic, non-catalytic and inhibited PLA(2)s indicates that the BthTX-II is not able to bind calcium ions; consequently, we suggest that its low catalytic function is based on an alternative way compared with other PLA(2)s.
About this StructureAbout this Structure
2OQD is a Single protein structure of sequence from Bothrops jararacussu. Full crystallographic information is available from OCA.
ReferenceReference
Crystal structure of a myotoxic Asp49-phospholipase A(2) with low catalytic activity: Insights into Ca(2+)-independent catalytic mechanism., Correa LC, Marchi-Salvador DP, Cintra AC, Sampaio SV, Soares AM, Fontes MR, Biochim Biophys Acta. 2008 Apr;1784(4):591-9. Epub 2008 Jan 26. PMID:18261474
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