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| | <StructureSection load='5uv1' size='340' side='right'caption='[[5uv1]], [[Resolution|resolution]] 2.40Å' scene=''> | | <StructureSection load='5uv1' size='340' side='right'caption='[[5uv1]], [[Resolution|resolution]] 2.40Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5uv1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Citsi Citsi]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UV1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5UV1 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5uv1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrus_sinensis Citrus sinensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5UV1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5UV1 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0FV:(2Z)-2-FLUORO-3,7-DIMETHYLOCTA-2,6-DIEN-1-YL+TRIHYDROGEN+DIPHOSPHATE'>0FV</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 2.4Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[5uv2|5uv2]], [[5uv0|5uv0]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0FV:(2Z)-2-FLUORO-3,7-DIMETHYLOCTA-2,6-DIEN-1-YL+TRIHYDROGEN+DIPHOSPHATE'>0FV</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=5uv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5uv1 OCA], [http://pdbe.org/5uv1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5uv1 RCSB], [http://www.ebi.ac.uk/pdbsum/5uv1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5uv1 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=5uv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5uv1 OCA], [https://pdbe.org/5uv1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5uv1 RCSB], [https://www.ebi.ac.uk/pdbsum/5uv1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5uv1 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/RLC1_CITSI RLC1_CITSI] Catalyzes the conversion of geranyl diphosphate to (+)-(4R)-limonene (PubMed:28272875, PubMed:28272876). Produces exclusively the (+)-enantiomer (PubMed:28272875). Can use neryl diphosphate as substrate (PubMed:28272876). Has no activity with farnesyl diphosphate (PubMed:28272875).<ref>PMID:28272875</ref> <ref>PMID:28272876</ref> |
| | <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: Citsi]] | + | [[Category: Citrus sinensis]] |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Kumar, R Prem]]
| + | [[Category: Malik K]] |
| - | [[Category: Malik, K]] | + | [[Category: Oprian DD]] |
| - | [[Category: Oprian, D D]] | + | [[Category: Prem Kumar R]] |
| - | [[Category: Enantiomer]] | + | |
| - | [[Category: Fluorinated analog]]
| + | |
| - | [[Category: Lyase]]
| + | |
| - | [[Category: Monoterpene]]
| + | |
| - | [[Category: Terpene synthase]]
| + | |
| - | [[Category: Terpene synthase fold]]
| + | |
| Structural highlights
Function
RLC1_CITSI Catalyzes the conversion of geranyl diphosphate to (+)-(4R)-limonene (PubMed:28272875, PubMed:28272876). Produces exclusively the (+)-enantiomer (PubMed:28272875). Can use neryl diphosphate as substrate (PubMed:28272876). Has no activity with farnesyl diphosphate (PubMed:28272875).[1] [2]
Publication Abstract from PubMed
The stereochemical course of monoterpene synthase reactions is thought to be determined early in the reaction sequence by selective binding of distinct conformations of the geranyl diphosphate (GPP) substrate. We explore here formation of early Michaelis complexes of the (+)-limonene synthase [(+)-LS] from Citrus sinensis using monofluorinated substrate analogues 2-fluoro-GPP (FGPP) and 2-fluoroneryl diphosphate (FNPP). Both are competitive inhibitors for (+)-LS with KI values of 2.4 +/- 0.5 and 39.5 +/- 5.2 muM, respectively. The KI values are similar to the KM for the respective nonfluorinated substrates, indicating that fluorine does not significantly perturb binding of the ligand to the enzyme. FGPP and FNPP are also substrates, but with dramatically reduced rates (kcat values of 0.00054 +/- 0.00005 and 0.00024 +/- 0.00002 s-1, respectively). These data are consistent with a stepwise mechanism for (+)-LS involving ionization of the allylic GPP substrate to generate a resonance-stabilized carbenium ion in the rate-limiting step. Crystals of apo-(+)-LS were soaked with FGPP and FNPP to obtain X-ray structures at 2.4 and 2.2 A resolution, respectively. The fluorinated analogues are found anchored in the active site through extensive interactions involving the diphosphate, three metal ions, and three active-site Asp residues. Electron density for the carbon chains extends deep into a hydrophobic pocket, while the enzyme remains mostly in the open conformation observed for the apoprotein. While FNPP was found in multiple conformations, FGPP, importantly, was in a single, relatively well-defined, left-handed screw conformation, consistent with predictions for the mechanism of stereoselectivity in the monoterpene synthases.
Structural Characterization of Early Michaelis Complexes in the Reaction Catalyzed by (+)-Limonene Synthase from Citrus sinensis Using Fluorinated Substrate Analogues.,Kumar RP, Morehouse BR, Matos JO, Malik K, Lin H, Krauss IJ, Oprian DD Biochemistry. 2017 Mar 15. doi: 10.1021/acs.biochem.7b00144. PMID:28272876[3]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Morehouse BR, Kumar RP, Matos JO, Olsen SN, Entova S, Oprian DD. Functional and Structural Characterization of a (+)-Limonene Synthase from Citrus sinensis. Biochemistry. 2017 Mar 15. doi: 10.1021/acs.biochem.7b00143. PMID:28272875 doi:http://dx.doi.org/10.1021/acs.biochem.7b00143
- ↑ Kumar RP, Morehouse BR, Matos JO, Malik K, Lin H, Krauss IJ, Oprian DD. Structural Characterization of Early Michaelis Complexes in the Reaction Catalyzed by (+)-Limonene Synthase from Citrus sinensis Using Fluorinated Substrate Analogues. Biochemistry. 2017 Mar 15. doi: 10.1021/acs.biochem.7b00144. PMID:28272876 doi:http://dx.doi.org/10.1021/acs.biochem.7b00144
- ↑ Kumar RP, Morehouse BR, Matos JO, Malik K, Lin H, Krauss IJ, Oprian DD. Structural Characterization of Early Michaelis Complexes in the Reaction Catalyzed by (+)-Limonene Synthase from Citrus sinensis Using Fluorinated Substrate Analogues. Biochemistry. 2017 Mar 15. doi: 10.1021/acs.biochem.7b00144. PMID:28272876 doi:http://dx.doi.org/10.1021/acs.biochem.7b00144
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