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Reaction mechanism of chalcone isomerase. pH dependence, diffusion control, and product binding differences.
The Journal of biological chemistry Jan, 2002 | Pubmed ID: 11698411
Structure and mechanism of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase. An enzyme in the mevalonate-independent isoprenoid biosynthetic pathway.
The Journal of biological chemistry Mar, 2002 | Pubmed ID: 11786530
Characterization of phenylpropene O-methyltransferases from sweet basil: facile change of substrate specificity and convergent evolution within a plant O-methyltransferase family.
The Plant cell Feb, 2002 | Pubmed ID: 11884690
Role of hydrogen bonds in the reaction mechanism of chalcone isomerase.
Biochemistry Apr, 2002 | Pubmed ID: 11955065
Expanding the biosynthetic repertoire of plant type III polyketide synthases by altering starter molecule specificity.
Proceedings of the National Academy of Sciences of the United States of America Apr, 2002 | Pubmed ID: 11959984
Structural basis for the modulation of lignin monomer methylation by caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase.
The Plant cell Jun, 2002 | Pubmed ID: 12084826
Conformational flexibility underlies ubiquitin ligation mediated by the WWP1 HECT domain E3 ligase.
Molecular cell Jan, 2003 | Pubmed ID: 12535537
The chalcone synthase superfamily of type III polyketide synthases.
Natural product reports Feb, 2003 | Pubmed ID: 12636085
A chemical, genetic, and structural analysis of the nuclear bile acid receptor FXR.
Molecular cell Apr, 2003 | Pubmed ID: 12718892
The structure of the membrane distal phosphatase domain of RPTPalpha reveals interdomain flexibility and an SH2 domain interaction region.
Biochemistry Jul, 2003 | Pubmed ID: 12834342
Structural basis for substrate recognition in the salicylic acid carboxyl methyltransferase family.
The Plant cell Aug, 2003 | Pubmed ID: 12897246
Crystal structure of a bacterial type III polyketide synthase and enzymatic control of reactive polyketide intermediates.
The Journal of biological chemistry Oct, 2004 | Pubmed ID: 15265863
Biochemical and structural characterization of benzenoid carboxyl methyltransferases involved in floral scent production in Stephanotis floribunda and Nicotiana suaveolens.
Plant physiology Aug, 2004 | Pubmed ID: 15310828
Kinetic analysis of Escherichia coli 2-C-methyl-D-erythritol-4-phosphate cytidyltransferase, wild type and mutants, reveals roles of active site amino acids.
Biochemistry Sep, 2004 | Pubmed ID: 15379557
An aldol switch discovered in stilbene synthases mediates cyclization specificity of type III polyketide synthases.
Chemistry & biology Sep, 2004 | Pubmed ID: 15380179
Kinetic and molecular analysis of 5-epiaristolochene 1,3-dihydroxylase, a cytochrome P450 enzyme catalyzing successive hydroxylations of sesquiterpenes.
The Journal of biological chemistry Feb, 2005 | Pubmed ID: 15522862
A single-vial analytical and quantitative gas chromatography-mass spectrometry assay for terpene synthases.
Analytical biochemistry Dec, 2004 | Pubmed ID: 15556559
Crystal structures of alfalfa caffeoyl coenzyme A 3-O-methyltransferase.
Plant physiology Mar, 2005 | Pubmed ID: 15734921
Structural and kinetic basis for substrate selectivity in Populus tremuloides sinapyl alcohol dehydrogenase.
The Plant cell May, 2005 | Pubmed ID: 15829607
Structure-function relationships in plant phenylpropanoid biosynthesis.
Current opinion in plant biology Jun, 2005 | Pubmed ID: 15860421
Structure of the Mg-chelatase cofactor GUN4 reveals a novel hand-shaped fold for porphyrin binding.
PLoS biology May, 2005 | Pubmed ID: 15884974
Floral benzenoid carboxyl methyltransferases: from in vitro to in planta function.
Phytochemistry Jun, 2005 | Pubmed ID: 15946712
Structural basis for the promiscuous biosynthetic prenylation of aromatic natural products.
Nature Jun, 2005 | Pubmed ID: 15959519
Structural elucidation of chalcone reductase and implications for deoxychalcone biosynthesis.
The Journal of biological chemistry Aug, 2005 | Pubmed ID: 15970585
An Arabidopsis thaliana methyltransferase capable of methylating farnesoic acid.
Archives of biochemistry and biophysics Apr, 2006 | Pubmed ID: 16165084
Stereochemistry and deuterium isotope effects associated with the cyclization-rearrangements catalyzed by tobacco epiaristolochene and hyoscyamus premnaspirodiene synthases, and the chimeric CH4 hybrid cyclase.
Archives of biochemistry and biophysics Apr, 2006 | Pubmed ID: 16309622
Biosynthetic potential of sesquiterpene synthases: alternative products of tobacco 5-epi-aristolochene synthase.
Archives of biochemistry and biophysics Apr, 2006 | Pubmed ID: 16375847
Biosynthesis of plant volatiles: nature's diversity and ingenuity.
Science (New York, N.Y.) Feb, 2006 | Pubmed ID: 16469917
Absence of substrate channeling between active sites in the Agrobacterium tumefaciens IspDF and IspE enzymes of the methyl erythritol phosphate pathway.
Biochemistry Mar, 2006 | Pubmed ID: 16533036
Methylation of sulfhydryl groups: a new function for a family of small molecule plant O-methyltransferases.
The Plant journal : for cell and molecular biology Apr, 2006 | Pubmed ID: 16623883
Eugenol and isoeugenol, characteristic aromatic constituents of spices, are biosynthesized via reduction of a coniferyl alcohol ester.
Proceedings of the National Academy of Sciences of the United States of America Jun, 2006 | Pubmed ID: 16782809
Identifying and manipulating structural determinates linking catalytic specificities in terpene synthases.
Proceedings of the National Academy of Sciences of the United States of America Jun, 2006 | Pubmed ID: 16785438
Structure-function-folding relationship in a WW domain.
Proceedings of the National Academy of Sciences of the United States of America Jul, 2006 | Pubmed ID: 16807295
Structural basis for the design of potent and species-specific inhibitors of 3-hydroxy-3-methylglutaryl CoA synthases.
Proceedings of the National Academy of Sciences of the United States of America Aug, 2006 | Pubmed ID: 16864776
Biosynthesis of Dictyostelium discoideum differentiation-inducing factor by a hybrid type I fatty acid-type III polyketide synthase.
Nature chemical biology Sep, 2006 | Pubmed ID: 16906151
Functional analysis of members of the isoflavone and isoflavanone O-methyltransferase enzyme families from the model legume Medicago truncatula.
Plant molecular biology Nov, 2006 | Pubmed ID: 17001495
Metabolic engineering of sesquiterpene metabolism in yeast.
Biotechnology and bioengineering May, 2007 | Pubmed ID: 17013941
Type III polyketide synthase beta-ketoacyl-ACP starter unit and ethylmalonyl-CoA extender unit selectivity discovered by Streptomyces coelicolor genome mining.
Journal of the American Chemical Society Nov, 2006 | Pubmed ID: 17105255
Determinants for dephosphorylation of the RNA polymerase II C-terminal domain by Scp1.
Molecular cell Dec, 2006 | Pubmed ID: 17157258
Structural basis for dual functionality of isoflavonoid O-methyltransferases in the evolution of plant defense responses.
The Plant cell Dec, 2006 | Pubmed ID: 17172354
Structural basis for the modulation of CDK-dependent/independent activity of cyclin D1.
Cell cycle (Georgetown, Tex.) Dec, 2006 | Pubmed ID: 17172845
Structural determinants and modulation of substrate specificity in phenylalanine-tyrosine ammonia-lyases.
Chemistry & biology Dec, 2006 | Pubmed ID: 17185228
Methylation of gibberellins by Arabidopsis GAMT1 and GAMT2.
The Plant cell Jan, 2007 | Pubmed ID: 17220201
Discovery of two cyanobacterial phenylalanine ammonia lyases: kinetic and structural characterization.
Biochemistry Jan, 2007 | Pubmed ID: 17240984
Structural basis for high-affinity peptide inhibition of human Pin1.
ACS chemical biology May, 2007 | Pubmed ID: 17518432
A soluble, magnesium-independent prenyltransferase catalyzes reverse and regular C-prenylations and O-prenylations of aromatic substrates.
FEBS letters Jun, 2007 | Pubmed ID: 17543953
Genetically encoding unnatural amino acids for cellular and neuronal studies.
Nature neuroscience Aug, 2007 | Pubmed ID: 17603477
Functional characterization of premnaspirodiene oxygenase, a cytochrome P450 catalyzing regio- and stereo-specific hydroxylations of diverse sesquiterpene substrates.
The Journal of biological chemistry Oct, 2007 | Pubmed ID: 17715131
Interception of the enzymatic conversion of farnesyl diphosphate to 5-epi-aristolochene by using a fluoro substrate analogue: 1-fluorogermacrene A from (2E,6Z)-6-fluorofarnesyl diphosphate.
Chembiochem : a European journal of chemical biology Oct, 2007 | Pubmed ID: 17886322
Structure and reaction mechanism of basil eugenol synthase.
PloS one Oct, 2007 | Pubmed ID: 17912370
Digging for answers, smelling a hint of success and tasting triumph.
Nature chemical biology Nov, 2007 | Pubmed ID: 17948014
Discovery and characterization of a marine bacterial SAM-dependent chlorinase.
Nature chemical biology Jan, 2008 | Pubmed ID: 18059261
Structural, biochemical, and phylogenetic analyses suggest that indole-3-acetic acid methyltransferase is an evolutionarily ancient member of the SABATH family.
Plant physiology Feb, 2008 | Pubmed ID: 18162595
The multiple phenylpropene synthases in both Clarkia breweri and Petunia hybrida represent two distinct protein lineages.
The Plant journal : for cell and molecular biology May, 2008 | Pubmed ID: 18208524
Evolving biosynthetic tangos negotiate mechanistic landscapes.
Nature chemical biology Apr, 2008 | Pubmed ID: 18347585
Metabolite induction of Caenorhabditis elegans dauer larvae arises via transport in the pharynx.
ACS chemical biology May, 2008 | Pubmed ID: 18376812
Rapid synthesis of auxin via a new tryptophan-dependent pathway is required for shade avoidance in plants.
Cell Apr, 2008 | Pubmed ID: 18394996
Chemoenzymatic syntheses of prenylated aromatic small molecules using Streptomyces prenyltransferases with relaxed substrate specificities.
Bioorganic & medicinal chemistry Sep, 2008 | Pubmed ID: 18682327
S-Adenosyl-L-methionine hydrolase (adenosine-forming), a conserved bacterial and archaeal protein related to SAM-dependent halogenases.
Chembiochem : a European journal of chemical biology Sep, 2008 | Pubmed ID: 18720493
Quantitative exploration of the catalytic landscape separating divergent plant sesquiterpene synthases.
Nature chemical biology Oct, 2008 | Pubmed ID: 18776889
Biosynthesis of t-anethole in anise: characterization of t-anol/isoeugenol synthase and an O-methyltransferase specific for a C7-C8 propenyl side chain.
Plant physiology Jan, 2009 | Pubmed ID: 18987218
The lack of floral synthesis and emission of isoeugenol in Petunia axillaris subsp. parodii is due to a mutation in the isoeugenol synthase gene.
The Plant journal : for cell and molecular biology Jun, 2009 | Pubmed ID: 19222805
Multiple biochemical and morphological factors underlie the production of methylketones in tomato trichomes.
Plant physiology Dec, 2009 | Pubmed ID: 19801397
Structural elucidation of cisoid and transoid cyclization pathways of a sesquiterpene synthase using 2-fluorofarnesyl diphosphates.
ACS chemical biology Apr, 2010 | Pubmed ID: 20175559
Mutation of archaeal isopentenyl phosphate kinase highlights mechanism and guides phosphorylation of additional isoprenoid monophosphates.
ACS chemical biology Jun, 2010 | Pubmed ID: 20392112
Enzymatic functions of wild tomato methylketone synthases 1 and 2.
Plant physiology Sep, 2010 | Pubmed ID: 20605911
Functional analyses of caffeic acid O-Methyltransferase and Cinnamoyl-CoA-reductase genes from perennial ryegrass (Lolium perenne).
The Plant cell Oct, 2010 | Pubmed ID: 20952635
Structure-function analyses of a caffeic acid O-methyltransferase from perennial ryegrass reveal the molecular basis for substrate preference.
The Plant cell Dec, 2010 | Pubmed ID: 21177481
Stereochemical basis for engineered pyrrolysyl-tRNA synthetase and the efficient in vivo incorporation of structurally divergent non-native amino acids.
ACS chemical biology Jul, 2011 | Pubmed ID: 21545173
Structural basis of steroid hormone perception by the receptor kinase BRI1.
Nature Jun, 2011 | Pubmed ID: 21666665
Genetically encoding unnatural amino acids in neural stem cells and optically reporting voltage-sensitive domain changes in differentiated neurons.
Stem cells (Dayton, Ohio) Aug, 2011 | Pubmed ID: 21681861
Emergent decarboxylase activity and attenuation of α/β-hydrolase activity during the evolution of methylketone biosynthesis in tomato.
The Plant cell Apr, 2012 | Pubmed ID: 22523203
Evolution of the chalcone-isomerase fold from fatty-acid binding to stereospecific catalysis.
Nature May, 2012 | Pubmed ID: 22622584
The rise of chemodiversity in plants.
Science (New York, N.Y.) Jun, 2012 | Pubmed ID: 22745420
Architectures, mechanisms and molecular evolution of natural product methyltransferases.
Natural product reports Oct, 2012 | Pubmed ID: 22850796
Structure-function analyses of plant type III polyketide synthases.
Methods in enzymology , 2012 | Pubmed ID: 22999180
Identification of a 3-aminoimidazo[1,2-a]pyridine inhibitor of HIV-1 reverse transcriptase.
Virology journal , 2012 | Pubmed ID: 23231773
Coordination of auxin and ethylene biosynthesis by the aminotransferase VAS1.
Nature chemical biology Apr, 2013 | Pubmed ID: 23377040
Confluence of structural and chemical biology: plant polyketide synthases as biocatalysts for a bio-based future.
Current opinion in plant biology Jun, 2013 | Pubmed ID: 23481348
Smoke-derived karrikin perception by the α/β-hydrolase KAI2 from Arabidopsis.
Proceedings of the National Academy of Sciences of the United States of America May, 2013 | Pubmed ID: 23613584
Chemodiversity in Selaginella: a reference system for parallel and convergent metabolic evolution in terrestrial plants.
Frontiers in plant science , 2013 | Pubmed ID: 23717312
Expanding the library and substrate diversity of the pyrrolysyl-tRNA synthetase to incorporate unnatural amino acids containing conjugated rings.
Chembiochem : a European journal of chemical biology Nov, 2013 | Pubmed ID: 24019075
Flavin-mediated dual oxidation controls an enzymatic Favorskii-type rearrangement.
Nature Nov, 2013 | Pubmed ID: 24162851
Genetic basis for the biosynthesis of the pharmaceutically important class of epoxyketone proteasome inhibitors.
ACS chemical biology Jan, 2014 | Pubmed ID: 24168704
The phosphopantetheinyl transferases: catalysis of a post-translational modification crucial for life.
Natural product reports Jan, 2014 | Pubmed ID: 24292120
Discovery of a metabolic alternative to the classical mevalonate pathway.
eLife Dec, 2013 | Pubmed ID: 24327557
Genetically encoding photoswitchable click amino acids in Escherichia coli and mammalian cells.
Angewandte Chemie (International ed. in English) Apr, 2014 | Pubmed ID: 24615769
Spectral and structural comparison between bright and dim green fluorescent proteins in Amphioxus.
Scientific reports Jun, 2014 | Pubmed ID: 24968921
Structural studies of cinnamoyl-CoA reductase and cinnamyl-alcohol dehydrogenase, key enzymes of monolignol biosynthesis.
The Plant cell Sep, 2014 | Pubmed ID: 25217505
Orthologs of the archaeal isopentenyl phosphate kinase regulate terpenoid production in plants.
Proceedings of the National Academy of Sciences of the United States of America Aug, 2015 | Pubmed ID: 26216978
Mechanism-Based Post-Translational Modification and Inactivation in Terpene Synthases.
ACS chemical biology Nov, 2015 | Pubmed ID: 26378620
Cryptochrome 1 interacts with PIF4 to regulate high temperature-mediated hypocotyl elongation in response to blue light.
Proceedings of the National Academy of Sciences of the United States of America Jan, 2016 | Pubmed ID: 26699514
Harvesting the biosynthetic machineries that cultivate a variety of indispensable plant natural products.
Current opinion in chemical biology 04, 2016 | Pubmed ID: 26851514
Biosynthesis of coral settlement cue tetrabromopyrrole in marine bacteria by a uniquely adapted brominase-thioesterase enzyme pair.
Proceedings of the National Academy of Sciences of the United States of America Apr, 2016 | Pubmed ID: 27001835
Local auxin metabolism regulates environment-induced hypocotyl elongation.
Nature plants 03, 2016 | Pubmed ID: 27249562
Biosynthetic potential of sesquiterpene synthases: product profiles of Egyptian Henbane premnaspirodiene synthase and related mutants.
The Journal of antibiotics 07, 2016 | Pubmed ID: 27328867
Co-evolution of Hormone Metabolism and Signaling Networks Expands Plant Adaptive Plasticity.
Cell Aug, 2016 | Pubmed ID: 27518563
Unveiling the functional diversity of the alpha/beta hydrolase superfamily in the plant kingdom.
Current opinion in structural biology 12, 2016 | Pubmed ID: 27662376
Dynamic Conformational States Dictate Selectivity toward the Native Substrate in a Substrate-Permissive Acyltransferase.
Biochemistry 11, 2016 | Pubmed ID: 27805809
Corrigendum to "Unveiling the functional diversity of the alpha/beta hydrolase superfamily in the plant kingdom" [Curr Opin Struct Biol 2016, 41:233-246].
Current opinion in structural biology 12, 2016 | Pubmed ID: 27884574
Structural basis for specific ligation of the peroxisome proliferator-activated receptor δ.
Proceedings of the National Academy of Sciences of the United States of America 03, 2017 | Pubmed ID: 28320959
A Red Algal Bourbonane Sesquiterpene Synthase Defined by Microgram-Scale NMR-Coupled Crystalline Sponge X-ray Diffraction Analysis.
Journal of the American Chemical Society 11, 2017 | Pubmed ID: 29083151
Molecular architectures of benzoic acid-specific type III polyketide synthases.
Acta crystallographica. Section D, Structural biology Dec, 2017 | Pubmed ID: 29199980
A coupled in vitro/in vivo approach for engineering a heterologous type III PKS to enhance polyketide biosynthesis in Saccharomyces cerevisiae.
Biotechnology and bioengineering 06, 2018 | Pubmed ID: 29457628
Evolution of chalcone isomerase from a noncatalytic ancestor.
Nature chemical biology 06, 2018 | Pubmed ID: 29686356
Publisher Correction: Evolution of chalcone isomerase from a noncatalytic ancestor.
Nature chemical biology Oct, 2018 | Pubmed ID: 29760514
Contribution of isopentenyl phosphate to plant terpenoid metabolism.
Nature plants 09, 2018 | Pubmed ID: 30127411
Strigolactone perception and deactivation by a hydrolase receptor DWARF14.
Nature communications 01, 2019 | Pubmed ID: 30643123
Dissecting modular synthases through inhibition: A complementary chemical and genetic approach.
Bioorganic & medicinal chemistry letters 01, 2020 | Pubmed ID: 31812466
Gating mechanism of elongating β-ketoacyl-ACP synthases.
Nature communications 04, 2020 | Pubmed ID: 32265440
Modulation of auxin formation by the cytosolic phenylalanine biosynthetic pathway.
Nature chemical biology 08, 2020 | Pubmed ID: 32284603
Algal neurotoxin biosynthesis repurposes the terpene cyclase structural fold into an -prenyltransferase.
Proceedings of the National Academy of Sciences of the United States of America 06, 2020 | Pubmed ID: 32457155
Activity Mapping the Acyl Carrier Protein: Elongating Ketosynthase Interaction in Fatty Acid Biosynthesis.
Biochemistry 09, 2020 | Pubmed ID: 32857494
Interfacial plasticity facilitates high reaction rate of FAS malonyl-CoA:ACP transacylase, FabD.
Proceedings of the National Academy of Sciences of the United States of America 09, 2020 | Pubmed ID: 32929027
Plant-based CO drawdown and storage as SiC.
RSC advances Apr, 2021 | Pubmed ID: 35481209
Sriram Aiyer1,
Timothy S. Strutzenberg1,
Marianne E. Bowman2,
Joseph P. Noel2,3,
Dmitry Lyumkis1,4,5
1Laboratory of Genetics, The Salk Institute for Biological Studies,
2Jack H. Skirball Center for Chemical Biology and Proteomics, The Salk Institute for Biological Studies,
3Department of Chemistry and Biochemistry, University of California San Diego,
4Graduate School of Biological Sciences, Section of Molecular Biology, University of California San Diego,
5Department of Integrative Structural and Computational Biology, The Scripps Research Institute
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