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| | <StructureSection load='4xly' size='340' side='right'caption='[[4xly]], [[Resolution|resolution]] 1.82Å' scene=''> | | <StructureSection load='4xly' size='340' side='right'caption='[[4xly]], [[Resolution|resolution]] 1.82Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[4xly]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bradu Bradu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XLY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4XLY FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[4xly]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_diazoefficiens_USDA_110 Bradyrhizobium diazoefficiens USDA 110]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XLY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XLY FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ECP:(2E)-3-METHYL-5-[(1R,4AR,8AR)-5,5,8A-TRIMETHYL-2-METHYLIDENEDECAHYDRONAPHTHALEN-1-YL]PENT-2-EN-1-YL+TRIHYDROGEN+DIPHOSPHATE'>ECP</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ECP:(2E)-3-METHYL-5-[(1R,4AR,8AR)-5,5,8A-TRIMETHYL-2-METHYLIDENEDECAHYDRONAPHTHALEN-1-YL]PENT-2-EN-1-YL+TRIHYDROGEN+DIPHOSPHATE'>ECP</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3w3f|3w3f]], [[3w3h|3w3h]], [[4xlx|4xlx]]</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=4xly FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xly OCA], [https://pdbe.org/4xly PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xly RCSB], [https://www.ebi.ac.uk/pdbsum/4xly PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xly ProSAT]</span></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">blr2150 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224911 BRADU])</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=4xly FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xly OCA], [http://pdbe.org/4xly PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4xly RCSB], [http://www.ebi.ac.uk/pdbsum/4xly PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4xly ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Y2150_BRADU Y2150_BRADU] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bradu]] | + | [[Category: Bradyrhizobium diazoefficiens USDA 110]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Guo, R T]] | + | [[Category: Guo RT]] |
| - | [[Category: Hu, Y]] | + | [[Category: Hu Y]] |
| - | [[Category: Ko, T P]] | + | [[Category: Ko TP]] |
| - | [[Category: Liu, W]] | + | [[Category: Liu W]] |
| - | [[Category: Zheng, Y]] | + | [[Category: Zheng Y]] |
| - | [[Category: Diterpene synthase]]
| + | |
| - | [[Category: Hydrolase]]
| + | |
| Structural highlights
Function
Y2150_BRADU
Publication Abstract from PubMed
We report the first X-ray crystal structure of ent-kaur-16-ene synthase from Bradyrhizobium japonicum, together with the results of a site-directed mutagenesis investigation into catalytic activity. The structure is very similar to that of the alpha domains of modern plant terpene cyclases, a result that is of interest since it has been proposed that many plant terpene cyclases may have arisen from bacterial diterpene cyclases. The ent-copalyl diphosphate substrate binds to a hydrophobic pocket near a cluster of Asp and Arg residues that are essential for catalysis, with the carbocations formed on ionization being protected by Leu, Tyr and Phe residues. A bisphosphonate inhibitor binds to the same site. In the kaurene synthase from the moss Physcomitrella patens, 16-alpha-hydroxy-ent-kaurane as well as kaurene are produced since Leu and Tyr in the P. patens kaurene synthase active site are replaced by smaller residues enabling carbocation quenching by water. Overall, the results represent the first structure determination of a bacterial diterpene cyclase, providing insights into catalytic activity, as well as structural comparisons with diverse terpene synthases and cyclases which clearly separate the terpene cyclases from other terpene synthases having highly alpha-helical structures.
Structure, function and inhibition of ent-kaurene synthase from Bradyrhizobium japonicum.,Liu W, Feng X, Zheng Y, Huang CH, Nakano C, Hoshino T, Bogue S, Ko TP, Chen CC, Cui Y, Li J, Wang I, Hsu ST, Oldfield E, Guo RT Sci Rep. 2014 Oct 1;4:6214. doi: 10.1038/srep06214. PMID:25269599[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Liu W, Feng X, Zheng Y, Huang CH, Nakano C, Hoshino T, Bogue S, Ko TP, Chen CC, Cui Y, Li J, Wang I, Hsu ST, Oldfield E, Guo RT. Structure, function and inhibition of ent-kaurene synthase from Bradyrhizobium japonicum. Sci Rep. 2014 Oct 1;4:6214. doi: 10.1038/srep06214. PMID:25269599 doi:http://dx.doi.org/10.1038/srep06214
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