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5hc8

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Crystal structure of lavandulyl diphosphate synthase from Lavandula x intermedia in complex with dimethylallyl diphosphate

Structural highlights

5hc8 is a 1 chain structure with sequence from Lavandula lanata. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.87Å
Ligands:	, , , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

A0A140UHQ1_LAVLA

Publication Abstract from PubMed

We report the first X-ray structure of the unique "head-to-middle" monoterpene synthase, lavandulyl diphosphate synthase (LPPS). LPPS catalyzes the condensation of two molecules of dimethylallyl diphosphate (DMAPP) to form lavandulyl diphosphate, a precursor to the fragrance lavandulol. The structure is similar to that of the bacterial cis-prenyl synthase, undecaprenyl diphosphate synthase (UPPS), and contains an allylic site (S1) in which DMAPP ionizes and a second site (S2) which houses the DMAPP nucleophile. Both S-thiolo-dimethylallyl diphosphate and S-thiolo-isopentenyl diphosphate bind intact to S2, but are cleaved to (thio)diphosphate, in S1. His78 (Asn in UPPS) is essential for catalysis and is proposed to facilitate diphosphate release in S1, while the P1 phosphate in S2 abstracts a proton from the lavandulyl carbocation to form the LPP product. The results are of interest since they provide the first structure and structure-based mechanism of this unusual prenyl synthase.

Structure and Function of a "Head-to-Middle" Prenyltransferase: Lavandulyl Diphosphate Synthase.,Liu M, Chen CC, Chen L, Xiao X, Zheng Y, Huang JW, Liu W, Ko TP, Cheng YS, Feng X, Oldfield E, Guo RT, Ma Y Angew Chem Int Ed Engl. 2016 Apr 4;55(15):4721-4. doi: 10.1002/anie.201600656., Epub 2016 Feb 29. PMID:26922900^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Liu M, Chen CC, Chen L, Xiao X, Zheng Y, Huang JW, Liu W, Ko TP, Cheng YS, Feng X, Oldfield E, Guo RT, Ma Y. Structure and Function of a "Head-to-Middle" Prenyltransferase: Lavandulyl Diphosphate Synthase. Angew Chem Int Ed Engl. 2016 Apr 4;55(15):4721-4. doi: 10.1002/anie.201600656., Epub 2016 Feb 29. PMID:26922900 doi:http://dx.doi.org/10.1002/anie.201600656

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5hc8"

@@ Line 3: / Line 3: @@
 <StructureSection load='5hc8' size='340' side='right'caption='[[5hc8]], [[Resolution|resolution]] 1.87&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5hc8]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Lavla Lavla]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HC8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5HC8 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5hc8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Lavandula_lanata Lavandula lanata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5HC8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5HC8 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=61G:2-METHYLBUTA-1,3-DIENE'>61G</scene>, <scene name='pdbligand=ISY:3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC+ACID'>ISY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PIS:TRIHYDROGEN+THIODIPHOSPHATE'>PIS</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]] 1.87&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5hc6|5hc6]], [[5hc7|5hc7]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=61G:2-METHYLBUTA-1,3-DIENE'>61G</scene>, <scene name='pdbligand=ISY:3-METHYLBUT-3-ENYLSULFANYL(PHOSPHONOOXY)PHOSPHINIC+ACID'>ISY</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PIS:TRIHYDROGEN+THIODIPHOSPHATE'>PIS</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://proteopedia.org/fgij/fg.htm?mol=5hc8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hc8 OCA], [http://pdbe.org/5hc8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5hc8 RCSB], [http://www.ebi.ac.uk/pdbsum/5hc8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5hc8 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=5hc8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5hc8 OCA], [https://pdbe.org/5hc8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5hc8 RCSB], [https://www.ebi.ac.uk/pdbsum/5hc8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5hc8 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/A0A140UHQ1_LAVLA A0A140UHQ1_LAVLA]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 22: / Line 24: @@
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Lavla]]
+[[Category: Lavandula lanata]]
-[[Category: Chen, C C]]
+[[Category: Chen CC]]
-[[Category: Gao, J]]
+[[Category: Gao J]]
-[[Category: Guo, R T]]
+[[Category: Guo RT]]
-[[Category: Liu, M X]]
+[[Category: Liu MX]]
-[[Category: Liu, W D]]
+[[Category: Liu WD]]
-[[Category: Zheng, Y Y]]
+[[Category: Zheng YY]]
-[[Category: Prenyltransferase]]
-[[Category: Substrate]]
-[[Category: Substrate binding]]
-[[Category: Transferase]]

5hc8

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Current revision

Crystal structure of lavandulyl diphosphate synthase from Lavandula x intermedia in complex with dimethylallyl diphosphate

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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