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Structural basis for L-isoaspartyl-containing protein recognition by the human PCMTD1 cullin-RING E3 ubiquitin ligase. J Biol Chem. 2025 11; 301(11):110735. Pang EZ, Zhao B, Flowers C, Oroudjeva E, Winter JB, Pandey V, Sawaya MR, Wohlschlegel J, Loo JA, Rodriguez JA, Clarke SG. PMID: 40975169; PMCID: PMC12590147.
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Structural basis for L-isoaspartyl-containing protein recognition by the PCMTD1 cullin-RING E3 ubiquitin ligase. bioRxiv. 2025 May 21. Pang EZ, Zhao B, Flowers C, Oroudjeva E, Winter JB, Pandey V, Sawaya MR, Wohlschlegel J, Loo JA, Rodriguez JA, Clarke SG. PMID: 40475564; PMCID: PMC12139721.
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Methylation and phosphorylation of formin homology domain proteins (Fhod1 and Fhod3) by protein arginine methyltransferase 7 (PRMT7) and Rho kinase (ROCK1). J Biol Chem. 2024 11; 300(11):107857. Lowe TL, Valencia DA, Velasquez VE, Quinlan ME, Clarke SG. PMID: 39368550; PMCID: PMC11584945.
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Asymmetric and symmetric protein arginine methylation in methionine-addicted human cancer cells. PLoS One. 2023; 18(12):e0296291. Holtz AG, Lowe TL, Aoki Y, Kubota Y, Hoffman RM, Clarke SG. PMID: 38134182; PMCID: PMC10745221.
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Natural isoaspartyl protein modification of ZAP70 alters T cell responses in lupus. Autoimmunity. 2023 12; 56(1):2282945. Yang ML, Lam TT, Kanyo J, Kang I, Zhou ZS, Clarke SG, Mamula MJ. PMID: 37994408; PMCID: PMC10897934.
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Identification of a Protein Arginine Methyltransferase 7 (PRMT7)/Protein Arginine Methyltransferase 9 (PRMT9) Inhibitor. J Med Chem. 2023 10 12; 66(19):13665-13683. Feoli A, Iannelli G, Cipriano A, Milite C, Shen L, Wang Z, Hadjikyriacou A, Lowe TL, Safaeipour C, Viviano M, Sarno G, Morretta E, Monti MC, Yang Y, Clarke SG, Cosconati S, Castellano S, Sbardella G. PMID: 37560786; PMCID: PMC10578352.
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The exquisite specificity of human protein arginine methyltransferase 7 (PRMT7) toward Arg-X-Arg sites. PLoS One. 2023; 18(5):e0285812. Bondoc TJ, Lowe TL, Clarke SG. PMID: 37216364; PMCID: PMC10202292.
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Reversion of methionine addiction of osteosarcoma cells to methionine independence results in loss of malignancy, modulation of the epithelial-mesenchymal phenotype and alteration of histone-H3 lysine-methylation. Front Oncol. 2022; 12:1009548. Aoki Y, Han Q, Tome Y, Yamamoto J, Kubota Y, Masaki N, Obara K, Hamada K, Wang JD, Inubushi S, Bouvet M, Clarke SG, Nishida K, Hoffman RM. PMID: 36408173; PMCID: PMC9671209.
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Carbonyl Posttranslational Modification Associated With Early-Onset Type 1 Diabetes Autoimmunity. Diabetes. 2022 09 01; 71(9):1979-1993. Yang ML, Connolly SE, Gee RJ, Lam TT, Kanyo J, Peng J, Guyer P, Syed F, Tse HM, Clarke SG, Clarke CF, James EA, Speake C, Evans-Molina C, Arvan P, Herold KC, Wen L, Mamula MJ. PMID: 35730902; PMCID: PMC9450849.
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Human protein arginine methyltransferases (PRMTs) can be optimally active under nonphysiological conditions. J Biol Chem. 2022 09; 298(9):102290. Lowe TL, Clarke SG. PMID: 35868559; PMCID: PMC9418908.
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Human Protein-l-isoaspartate O-Methyltransferase Domain-Containing Protein 1 (PCMTD1) Associates with Cullin-RING Ligase Proteins. Biochemistry. 2022 05 17; 61(10):879-894. Warmack RA, Pang EZ, Peluso E, Lowenson JD, Ong JY, Torres JZ, Clarke SG. PMID: 35486881; PMCID: PMC9875861.
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Linkage of methionine addiction, histone lysine hypermethylation, and malignancy. iScience. 2022 Apr 15; 25(4):104162. Yamamoto J, Inubushi S, Han Q, Tashiro Y, Sugisawa N, Hamada K, Aoki Y, Miyake K, Matsuyama R, Bouvet M, Clarke SG, Endo I, Hoffman RM. PMID: 35434545; PMCID: PMC9010622.
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Extent and Instability of Trimethylation of Histone H3 Lysine Increases With Degree of Malignancy and Methionine Addiction. Cancer Genomics Proteomics. 2022 Jan-Feb; 19(1):12-18. Yamamoto J, Aoki Y, Inubushi S, Han Q, Hamada K, Tashiro Y, Miyake K, Matsuyama R, Bouvet M, Clarke SG, Endo I, Hoffman RM. PMID: 34949655; PMCID: PMC8717956.
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Molecular Damage in Aging. Nat Aging. 2021 12; 1(12):1096-1106. Gladyshev VN, Kritchevsky SB, Clarke SG, Cuervo AM, Fiehn O, de Magalhães JP, Mau T, Maes M, Moritz R, Niedernhofer LJ, Van Schaftingen E, Tranah GJ, Walsh K, Yura Y, Zhang B, Cummings SR. PMID: 36846190; PMCID: PMC9957516.
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Genetic screening reveals phospholipid metabolism as a key regulator of the biosynthesis of the redox-active lipid coenzyme Q. Redox Biol. 2021 10; 46:102127. Ayer A, Fazakerley DJ, Suarna C, Maghzal GJ, Sheipouri D, Lee KJ, Bradley MC, Fernández-Del-Rio L, Tumanov S, Kong SM, van der Veen JN, Yang A, Ho JWK, Clarke SG, James DE, Dawes IW, Vance DE, Clarke CF, Jacobs RL, Stocker R. PMID: 34521065; PMCID: PMC8435697.
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l-Isoaspartyl Methyltransferase Deficiency in Zebrafish Leads to Impaired Calcium Signaling in the Brain. Front Genet. 2020; 11:612343. Soliman R, Cordero-Maldonado ML, Martins TG, Moein M, Conrotte JF, Warmack RA, Skupin A, Crawford AD, Clarke SG, Linster CL. PMID: 33552132; PMCID: PMC7859441.
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Human ARMT1 structure and substrate specificity indicates that it is a DUF89 family damage-control phosphatase. J Struct Biol. 2020 10 01; 212(1):107576. Dennis TN, Kenjic N, Kang AS, Lowenson JD, Kirkwood JS, Clarke SG, Perry JJP. PMID: 32682077.
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Protein Methylation and Translation: Role of Lysine Modification on the Function of Yeast Elongation Factor 1A. Biochemistry. 2019 12 10; 58(49):4997-5010. White JT, Cato T, Deramchi N, Gabunilas J, Roy KR, Wang C, Chanfreau GF, Clarke SG. PMID: 31738538; PMCID: PMC6913935.
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Structure of amyloid-β (20-34) with Alzheimer's-associated isomerization at Asp23 reveals a distinct protofilament interface. Nat Commun. 2019 07 26; 10(1):3357. Warmack RA, Boyer DR, Zee CT, Richards LS, Sawaya MR, Cascio D, Gonen T, Eisenberg DS, Clarke SG. PMID: 31350392; PMCID: PMC6659688.
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The l-isoaspartate modification within protein fragments in the aging lens can promote protein aggregation. J Biol Chem. 2019 08 09; 294(32):12203-12219. Warmack RA, Shawa H, Liu K, Lopez K, Loo JA, Horwitz J, Clarke SG. PMID: 31239355; PMCID: PMC6690693.
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PRMT7 as a unique member of the protein arginine methyltransferase family: A review. Arch Biochem Biophys. 2019 04 15; 665:36-45. Jain K, Clarke SG. PMID: 30802433; PMCID: PMC6461449.
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The ribosome: A hot spot for the identification of new types of protein methyltransferases. J Biol Chem. 2018 07 06; 293(27):10438-10446. Clarke SG. PMID: 29743234; PMCID: PMC6036201.
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Oxidative Modifications in Tissue Pathology and Autoimmune Disease. Antioxid Redox Signal. 2018 11 10; 29(14):1415-1431. Yang ML, Doyle HA, Clarke SG, Herold KC, Mamula MJ. PMID: 29088923; PMCID: PMC6166690.
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Epigenetic control via allosteric regulation of mammalian protein arginine methyltransferases. Proc Natl Acad Sci U S A. 2017 09 19; 114(38):10101-10106. Jain K, Jin CY, Clarke SG. PMID: 28874563; PMCID: PMC5617285.
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APP/Aβ structural diversity and Alzheimer's disease pathogenesis. Neurochem Int. 2017 Nov; 110:1-13. Roher AE, Kokjohn TA, Clarke SG, Sierks MR, Maarouf CL, Serrano GE, Sabbagh MS, Beach TG. PMID: 28811267; PMCID: PMC5688956.
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Caenorhabditis elegans PRMT-7 and PRMT-9 Are Evolutionarily Conserved Protein Arginine Methyltransferases with Distinct Substrate Specificities. Biochemistry. 2017 05 23; 56(20):2612-2626. Hadjikyriacou A, Clarke SG. PMID: 28441492; PMCID: PMC5503151.
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The Major Protein Arginine Methyltransferase in Trypanosoma brucei Functions as an Enzyme-Prozyme Complex. J Biol Chem. 2017 02 10; 292(6):2089-2100. Kafková L, Debler EW, Fisk JC, Jain K, Clarke SG, Read LK. PMID: 27998975; PMCID: PMC5313084.
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Determining the Mitochondrial Methyl Proteome in Saccharomyces cerevisiae using Heavy Methyl SILAC. J Proteome Res. 2016 12 02; 15(12):4436-4451. Caslavka Zempel KE, Vashisht AA, Barshop WD, Wohlschlegel JA, Clarke SG. PMID: 27696855; PMCID: PMC5148652.
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Protein Arginine Methyltransferase Product Specificity Is Mediated by Distinct Active-site Architectures. J Biol Chem. 2016 08 26; 291(35):18299-308. Jain K, Warmack RA, Debler EW, Hadjikyriacou A, Stavropoulos P, Clarke SG. PMID: 27387499; PMCID: PMC5000077.
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Deuteration protects asparagine residues against racemization. Amino Acids. 2016 09; 48(9):2189-96. Lowenson JD, Shmanai VV, Shklyaruck D, Clarke SG, Shchepinov MS. PMID: 27169868; PMCID: PMC4990494.
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Production of FAME biodiesel in E. coli by direct methylation with an insect enzyme. Sci Rep. 2016 Apr 07; 6:24239. Sherkhanov S, Korman TP, Clarke SG, Bowie JU. PMID: 27053100; PMCID: PMC4823748.
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Racemized and Isomerized Proteins in Aging Rat Teeth and Eye Lens. Rejuvenation Res. 2016 Aug; 19(4):309-17. Warmack RA, Mansilla E, Goya RG, Clarke SG. PMID: 26650547; PMCID: PMC4971426.
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A glutamate/aspartate switch controls product specificity in a protein arginine methyltransferase. Proc Natl Acad Sci U S A. 2016 Feb 23; 113(8):2068-73. Debler EW, Jain K, Warmack RA, Feng Y, Clarke SG, Blobel G, Stavropoulos P. PMID: 26858449; PMCID: PMC4776506.
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Methylation of yeast ribosomal protein Rpl3 promotes translational elongation fidelity. RNA. 2016 Apr; 22(4):489-98. Al-Hadid Q, Roy K, Chanfreau G, Clarke SG. PMID: 26826131; PMCID: PMC4793205.
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Ribosomal protein methyltransferases in the yeast Saccharomyces cerevisiae: Roles in ribosome biogenesis and translation. Biochem Biophys Res Commun. 2016 Feb 12; 470(3):552-557. Al-Hadid Q, White J, Clarke S. PMID: 26801560; PMCID: PMC4750496.
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2-Hydroxyglutarate Inhibits ATP Synthase and mTOR Signaling. Cell Metab. 2015 Sep 01; 22(3):508-15. Fu X, Chin RM, Vergnes L, Hwang H, Deng G, Xing Y, Pai MY, Li S, Ta L, Fazlollahi F, Chen C, Prins RM, Teitell MA, Nathanson DA, Lai A, Faull KF, Jiang M, Clarke SG, Cloughesy TF, Graeber TG, Braas D, Christofk HR, Jung ME, Reue K, Huang J. PMID: 26190651; PMCID: PMC4663076.
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Unique Features of Human Protein Arginine Methyltransferase 9 (PRMT9) and Its Substrate RNA Splicing Factor SF3B2. J Biol Chem. 2015 Jul 03; 290(27):16723-43. Hadjikyriacou A, Yang Y, Espejo A, Bedford MT, Clarke SG. PMID: 25979344; PMCID: PMC4505422.
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PRMT9 is a type II methyltransferase that methylates the splicing factor SAP145. Nat Commun. 2015 Mar 04; 6:6428. Yang Y, Hadjikyriacou A, Xia Z, Gayatri S, Kim D, Zurita-Lopez C, Kelly R, Guo A, Li W, Clarke SG, Bedford MT. PMID: 25737013; PMCID: PMC4351962.
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The invertebrate Caenorhabditis elegans biosynthesizes ascorbate. Arch Biochem Biophys. 2015 Mar 01; 569:32-44. Patananan AN, Budenholzer LM, Pedraza ME, Torres ER, Adler LN, Clarke SG. PMID: 25668719; PMCID: PMC4357563.
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Ethanol-induced differential gene expression and acetyl-CoA metabolism in a longevity model of the nematode Caenorhabditis elegans. Exp Gerontol. 2015 Jan; 61:20-30. Patananan AN, Budenholzer LM, Eskin A, Torres ER, Clarke SG. PMID: 25449858; PMCID: PMC4289658.
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A new type of protein lysine methyltransferase trimethylates Lys-79 of elongation factor 1A. Biochem Biophys Res Commun. 2014 Dec 12; 455(3-4):382-9. Dzialo MC, Travaglini KJ, Shen S, Loo JA, Clarke SG. PMID: 25446118; PMCID: PMC4263273.
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Substrate specificity of human protein arginine methyltransferase 7 (PRMT7): the importance of acidic residues in the double E loop. J Biol Chem. 2014 Nov 21; 289(47):32604-16. Feng Y, Hadjikyriacou A, Clarke SG. PMID: 25294873; PMCID: PMC4239614.
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Translational roles of elongation factor 2 protein lysine methylation. J Biol Chem. 2014 Oct 31; 289(44):30511-30524. Dzialo MC, Travaglini KJ, Shen S, Roy K, Chanfreau GF, Loo JA, Clarke SG. PMID: 25231983; PMCID: PMC4215232.
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Histidine methylation of yeast ribosomal protein Rpl3p is required for proper 60S subunit assembly. Mol Cell Biol. 2014 Aug; 34(15):2903-16. Al-Hadid Q, Roy K, Munroe W, Dzialo MC, Chanfreau GF, Clarke SG. PMID: 24865971; PMCID: PMC4135575.
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Non-repair pathways for minimizing protein isoaspartyl damage in the yeast Saccharomyces cerevisiae. J Biol Chem. 2014 Jun 13; 289(24):16936-53. Patananan AN, Capri J, Whitelegge JP, Clarke SG. PMID: 24764295; PMCID: PMC4059137.
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Mammalian protein arginine methyltransferase 7 (PRMT7) specifically targets RXR sites in lysine- and arginine-rich regions. J Biol Chem. 2013 Dec 27; 288(52):37010-25. Feng Y, Maity R, Whitelegge JP, Hadjikyriacou A, Li Z, Zurita-Lopez C, Al-Hadid Q, Clark AT, Bedford MT, Masson JY, Clarke SG. PMID: 24247247; PMCID: PMC3873558.
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A novel small molecule methyltransferase is important for virulence in Candida albicans. ACS Chem Biol. 2013 Dec 20; 8(12):2785-93. Lissina E, Weiss D, Young B, Rella A, Cheung-Ong K, Del Poeta M, Clarke SG, Giaever G, Nislow C. PMID: 24083538; PMCID: PMC3928151.
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Thermal-stable proteins of fruit of long-living Sacred Lotus Nelumbo nucifera Gaertn var. China Antique. Trop Plant Biol. 2013 Sep 01; 6(2-3). Shen-Miller J, Lindner P, Xie Y, Villa S, Wooding K, Clarke SG, Loo RR, Loo JA. PMID: 24363819; PMCID: PMC3869599.
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An Arabidopsis ATP-dependent, DEAD-box RNA helicase loses activity upon IsoAsp formation but is restored by PROTEIN ISOASPARTYL METHYLTRANSFERASE. Plant Cell. 2013 Jul; 25(7):2573-86. Nayak NR, Putnam AA, Addepalli B, Lowenson JD, Chen T, Jankowsky E, Perry SE, Dinkins RD, Limbach PA, Clarke SG, Downie AB. PMID: 23903319; PMCID: PMC3753384.
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Circumventing embryonic lethality with Lcmt1 deficiency: generation of hypomorphic Lcmt1 mice with reduced protein phosphatase 2A methyltransferase expression and defects in insulin signaling. PLoS One. 2013; 8(6):e65967. MacKay KB, Tu Y, Young SG, Clarke SG. PMID: 23840384; PMCID: PMC3688711.
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A novel automethylation reaction in the Aspergillus nidulans LaeA protein generates S-methylmethionine. J Biol Chem. 2013 May 17; 288(20):14032-14045. Patananan AN, Palmer JM, Garvey GS, Keller NP, Clarke SG. PMID: 23532849; PMCID: PMC3656261.
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Protein methylation at the surface and buried deep: thinking outside the histone box. Trends Biochem Sci. 2013 May; 38(5):243-52. Clarke SG. PMID: 23490039; PMCID: PMC3634909.
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Integrated proteomic analysis of major isoaspartyl-containing proteins in the urine of wild type and protein L-isoaspartate O-methyltransferase-deficient mice. Anal Chem. 2013 Feb 19; 85(4):2423-30. Dai S, Ni W, Patananan AN, Clarke SG, Karger BL, Zhou ZS. PMID: 23327623; PMCID: PMC3599293.
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Loss of the major Type I arginine methyltransferase PRMT1 causes substrate scavenging by other PRMTs. Sci Rep. 2013; 3:1311. Dhar S, Vemulapalli V, Patananan AN, Huang GL, Di Lorenzo A, Richard S, Comb MJ, Guo A, Clarke SG, Bedford MT. PMID: 23419748; PMCID: PMC3575585.
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Lupus autoimmunity altered by cellular methylation metabolism. Autoimmunity. 2013 Feb; 46(1):21-31. Yang ML, Gee AJ, Gee RJ, Zurita-Lopez CI, Khare S, Clarke SG, Mamula MJ. PMID: 23039363; PMCID: PMC3543504.
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Systems and trans-system level analysis identifies conserved iron deficiency responses in the plant lineage. Plant Cell. 2012 Oct; 24(10):3921-48. Urzica EI, Casero D, Yamasaki H, Hsieh SI, Adler LN, Karpowicz SJ, Blaby-Haas CE, Clarke SG, Loo JA, Pellegrini M, Merchant SS. PMID: 23043051; PMCID: PMC3517228.
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Wortmannin reduces insulin signaling and death in seizure-prone Pcmt1-/- mice. PLoS One. 2012; 7(10):e46719. MacKay KB, Lowenson JD, Clarke SG. PMID: 23071621; PMCID: PMC3465263.
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Identification of methylated proteins in the yeast small ribosomal subunit: a role for SPOUT methyltransferases in protein arginine methylation. Biochemistry. 2012 Jun 26; 51(25):5091-104. Young BD, Weiss DI, Zurita-Lopez CI, Webb KJ, Clarke SG, McBride AE. PMID: 22650761; PMCID: PMC3383884.
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Impact of oxidative stress on ascorbate biosynthesis in Chlamydomonas via regulation of the VTC2 gene encoding a GDP-L-galactose phosphorylase. J Biol Chem. 2012 Apr 20; 287(17):14234-45. Urzica EI, Adler LN, Page MD, Linster CL, Arbing MA, Casero D, Pellegrini M, Merchant SS, Clarke SG. PMID: 22393048; PMCID: PMC3340187.
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Caenorhabditis elegans battling starvation stress: low levels of ethanol prolong lifespan in L1 larvae. PLoS One. 2012; 7(1):e29984. Castro PV, Khare S, Young BD, Clarke SG. PMID: 22279556; PMCID: PMC3261173.
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Human protein arginine methyltransferase 7 (PRMT7) is a type III enzyme forming ω-NG-monomethylated arginine residues. J Biol Chem. 2012 Mar 09; 287(11):7859-70. Zurita-Lopez CI, Sandberg T, Kelly R, Clarke SG. PMID: 22241471; PMCID: PMC3318701.
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A systems biology approach reveals the role of a novel methyltransferase in response to chemical stress and lipid homeostasis. PLoS Genet. 2011 Oct; 7(10):e1002332. Lissina E, Young B, Urbanus ML, Guan XL, Lowenson J, Hoon S, Baryshnikova A, Riezman I, Michaut M, Riezman H, Cowen LE, Wenk MR, Clarke SG, Giaever G, Nislow C. PMID: 22028670; PMCID: PMC3197675.
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The interplay between protein L-isoaspartyl methyltransferase activity and insulin-like signaling to extend lifespan in Caenorhabditis elegans. PLoS One. 2011; 6(6):e20850. Khare S, Linster CL, Clarke SG. PMID: 21695191; PMCID: PMC3113807.
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A novel GDP-D-glucose phosphorylase involved in quality control of the nucleoside diphosphate sugar pool in Caenorhabditis elegans and mammals. J Biol Chem. 2011 Jun 17; 286(24):21511-23. Adler LN, Gomez TA, Clarke SG, Linster CL. PMID: 21507950; PMCID: PMC3122210.
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The ribosomal l1 protuberance in yeast is methylated on a lysine residue catalyzed by a seven-beta-strand methyltransferase. J Biol Chem. 2011 May 27; 286(21):18405-13. Webb KJ, Al-Hadid Q, Zurita-Lopez CI, Young BD, Lipson RS, Clarke SG. PMID: 21460220; PMCID: PMC3099657.
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Protein-arginine methyltransferase 1 (PRMT1) methylates Ash2L, a shared component of mammalian histone H3K4 methyltransferase complexes. J Biol Chem. 2011 Apr 08; 286(14):12234-44. Butler JS, Zurita-Lopez CI, Clarke SG, Bedford MT, Dent SY. PMID: 21285357; PMCID: PMC3069427.
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Uncovering the human methyltransferasome. Mol Cell Proteomics. 2011 Jan; 10(1):M110.000976. Petrossian TC, Clarke SG. PMID: 20930037; PMCID: PMC3013446.
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Substrates of the Arabidopsis thaliana protein isoaspartyl methyltransferase 1 identified using phage display and biopanning. J Biol Chem. 2010 Nov 26; 285(48):37281-92. Chen T, Nayak N, Majee SM, Lowenson J, Schäfermeyer KR, Eliopoulos AC, Lloyd TD, Dinkins R, Perry SE, Forsthoefel NR, Clarke SG, Vernon DM, Zhou ZS, Rejtar T, Downie AB. PMID: 20870712; PMCID: PMC2988334.
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A novel 3-methylhistidine modification of yeast ribosomal protein Rpl3 is dependent upon the YIL110W methyltransferase. J Biol Chem. 2010 Nov 26; 285(48):37598-606. Webb KJ, Zurita-Lopez CI, Al-Hadid Q, Laganowsky A, Young BD, Lipson RS, Souda P, Faull KF, Whitelegge JP, Clarke SG. PMID: 20864530; PMCID: PMC2988365.
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Identification of protein N-terminal methyltransferases in yeast and humans. Biochemistry. 2010 Jun 29; 49(25):5225-35. Webb KJ, Lipson RS, Al-Hadid Q, Whitelegge JP, Clarke SG. PMID: 20481588; PMCID: PMC2890028.
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Two novel methyltransferases acting upon eukaryotic elongation factor 1A in Saccharomyces cerevisiae. Arch Biochem Biophys. 2010 Aug 15; 500(2):137-43. Lipson RS, Webb KJ, Clarke SG. PMID: 20510667; PMCID: PMC2904425.
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Homocysteine methyltransferases Mht1 and Sam4 prevent the accumulation of age-damaged (R,S)-AdoMet in the yeast Saccharomyces cerevisiae. J Biol Chem. 2010 Jul 02; 285(27):20526-31. Vinci CR, Clarke SG. PMID: 20421295; PMCID: PMC2898356.
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TbPRMT6 is a type I protein arginine methyltransferase that contributes to cytokinesis in Trypanosoma brucei. Eukaryot Cell. 2010 Jun; 9(6):866-77. Fisk JC, Zurita-Lopez C, Sayegh J, Tomasello DL, Clarke SG, Read LK. PMID: 20418380; PMCID: PMC2901642.
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Yeast, plants, worms, and flies use a methyltransferase to metabolize age-damaged (R,S)-AdoMet, but what do mammals do? Rejuvenation Res. 2010 Apr-Jun; 13(2-3):362-4. Vinci CR, Clarke SG. PMID: 20370499; PMCID: PMC2946053.
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Rmt1 catalyzes zinc-finger independent arginine methylation of ribosomal protein Rps2 in Saccharomyces cerevisiae. Biochem Biophys Res Commun. 2010 Jan 22; 391(4):1658-62. Lipson RS, Webb KJ, Clarke SG. PMID: 20035717; PMCID: PMC2813213.
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Bioinformatic Identification of Novel Methyltransferases. Epigenomics. 2009 Oct 01; 1(1):163-175. Petrossian T, Clarke S. PMID: 20582239; PMCID: PMC2891558.
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Approaches to measuring the activities of protein arginine N-methyltransferases. Anal Biochem. 2010 Feb 01; 397(1):1-11. Lakowski TM, Zurita-Lopez C, Clarke SG, Frankel A. PMID: 19761747; PMCID: PMC2808438.
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Defective responses to oxidative stress in protein l-isoaspartyl repair-deficient Caenorhabditis elegans. Mech Ageing Dev. 2009 Oct; 130(10):670-80. Khare S, Gomez T, Linster CL, Clarke SG. PMID: 19682488; PMCID: PMC2757507.
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Multiple Motif Scanning to identify methyltransferases from the yeast proteome. Mol Cell Proteomics. 2009 Jul; 8(7):1516-26. Petrossian TC, Clarke SG. PMID: 19351663; PMCID: PMC2709183.
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A type III protein arginine methyltransferase from the protozoan parasite Trypanosoma brucei. J Biol Chem. 2009 Apr 24; 284(17):11590-600. Fisk JC, Sayegh J, Zurita-Lopez C, Menon S, Presnyak V, Clarke SG, Read LK. PMID: 19254949; PMCID: PMC2670164.
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Protein arginine methylation in mammals: who, what, and why. Mol Cell. 2009 Jan 16; 33(1):1-13. Bedford MT, Clarke SG. PMID: 19150423; PMCID: PMC3372459.
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Identification of two SET domain proteins required for methylation of lysine residues in yeast ribosomal protein Rpl42ab. J Biol Chem. 2008 Dec 19; 283(51):35561-8. Webb KJ, Laganowsky A, Whitelegge JP, Clarke SG. PMID: 18957409; PMCID: PMC2602916.
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The protein L-isoaspartyl-O-methyltransferase functions in the Caenorhabditis elegans stress response. Mech Ageing Dev. 2008 Dec; 129(12):752-8. Gomez TA, Banfield KL, Clarke SG. PMID: 18977240; PMCID: PMC2605584.
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L-Ascorbate biosynthesis in higher plants: the role of VTC2. Trends Plant Sci. 2008 Nov; 13(11):567-73. Linster CL, Clarke SG. PMID: 18824398; PMCID: PMC2583178.
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Hsl7 is a substrate-specific type II protein arginine methyltransferase in yeast. Biochem Biophys Res Commun. 2008 Aug 08; 372(4):811-5. Sayegh J, Clarke SG. PMID: 18515076; PMCID: PMC2505109.
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A second GDP-L-galactose phosphorylase in arabidopsis en route to vitamin C. Covalent intermediate and substrate requirements for the conserved reaction. J Biol Chem. 2008 Jul 04; 283(27):18483-92. Linster CL, Adler LN, Webb K, Christensen KC, Brenner C, Clarke SG. PMID: 18463094; PMCID: PMC2441562.
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Chemo-enzymatic detection of protein isoaspartate using protein isoaspartate methyltransferase and hydrazine trapping. Anal Chem. 2008 May 15; 80(10):3882-9. Alfaro JF, Gillies LA, Sun HG, Dai S, Zang T, Klaene JJ, Kim BJ, Lowenson JD, Clarke SG, Karger BL, Zhou ZS. PMID: 18419136.
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Secreted 3-isopropylmalate methyl ester signals invasive growth during amino acid starvation in Saccharomyces cerevisiae. Biochemistry. 2008 Jan 15; 47(2):698-709. Dumlao DS, Hertz N, Clarke S. PMID: 18092814.
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Guidelines for the use and interpretation of assays for monitoring autophagy in higher eukaryotes. Autophagy. 2008 Feb; 4(2):151-75. Klionsky DJ, Abeliovich H, Agostinis P, Agrawal DK, Aliev G, Askew DS, Baba M, Baehrecke EH, Bahr BA, Ballabio A, Bamber BA, Bassham DC, Bergamini E, Bi X, Biard-Piechaczyk M, Blum JS, Bredesen DE, Brodsky JL, Brumell JH, Brunk UT, Bursch W, Camougrand N, Cebollero E, Cecconi F, Chen Y, Chin LS, Choi A, Chu CT, Chung J, Clarke PG, Clark RS, Clarke SG, Clavé C, Cleveland JL, Codogno P, Colombo MI, Coto-Montes A, Cregg JM, Cuervo AM, Debnath J, Demarchi F, Dennis PB, Dennis PA, Deretic V, Devenish RJ, Di Sano F, Dice JF, Difiglia M, Dinesh-Kumar S, Distelhorst CW, Djavaheri-Mergny M, Dorsey FC, Dröge W, Dron M, Dunn WA, Duszenko M, Eissa NT, Elazar Z, Esclatine A, Eskelinen EL, Fésüs L, Finley KD, Fuentes JM, Fueyo J, Fujisaki K, Galliot B, Gao FB, Gewirtz DA, Gibson SB, Gohla A, Goldberg AL, Gonzalez R, González-Estévez C, Gorski S, Gottlieb RA, Häussinger D, He YW, Heidenreich K, Hill JA, Høyer-Hansen M, Hu X, Huang WP, Iwasaki A, Jäättelä M, Jackson WT, Jiang X, Jin S, Johansen T, Jung JU, Kadowaki M, Kang C, Kelekar A, Kessel DH, Kiel JA, Kim HP, Kimchi A, Kinsella TJ, Kiselyov K, Kitamoto K, Knecht E, Komatsu M, Kominami E, Kondo S, Kovács AL, Kroemer G, Kuan CY, Kumar R, Kundu M, Landry J, Laporte M, Le W, Lei HY, Lenardo MJ, Levine B, Lieberman A, Lim KL, Lin FC, Liou W, Liu LF, Lopez-Berestein G, López-Otín C, Lu B, Macleod KF, Malorni W, Martinet W, Matsuoka K, Mautner J, Meijer AJ, Meléndez A, Michels P, Miotto G, Mistiaen WP, Mizushima N, Mograbi B, Monastyrska I, Moore MN, Moreira PI, Moriyasu Y, Motyl T, Münz C, Murphy LO, Naqvi NI, Neufeld TP, Nishino I, Nixon RA, Noda T, Nürnberg B, Ogawa M, Oleinick NL, Olsen LJ, Ozpolat B, Paglin S, Palmer GE, Papassideri I, Parkes M, Perlmutter DH, Perry G, Piacentini M, Pinkas-Kramarski R, Prescott M, Proikas-Cezanne T, Raben N, Rami A, Reggiori F, Rohrer B, Rubinsztein DC, Ryan KM, Sadoshima J, Sakagami H, Sakai Y, Sandri M, Sasakawa C, Sass M, Schneider C, Seglen PO, Seleverstov O, Settleman J, Shacka JJ, Shapiro IM, Sibirny A, Silva-Zacarin EC, Simon HU, Simone C, Simonsen A, Smith MA, Spanel-Borowski K, Srinivas V, Steeves M, Stenmark H, Stromhaug PE, Subauste CS, Sugimoto S, Sulzer D, Suzuki T, Swanson MS, Tabas I, Takeshita F, Talbot NJ, Tallóczy Z, Tanaka K, Tanaka K, Tanida I, Taylor GS, Taylor JP, Terman A, Tettamanti G, Thompson CB, Thumm M, Tolkovsky AM, Tooze SA, Truant R, Tumanovska LV, Uchiyama Y, Ueno T, Uzcátegui NL, van der Klei I, Vaquero EC, Vellai T, Vogel MW, Wang HG, Webster P, Wiley JW, Xi Z, Xiao G, Yahalom J, Yang JM, Yap G, Yin XM, Yoshimori T, Yu L, Yue Z, Yuzaki M, Zabirnyk O, Zheng X, Zhu X, Deter RL. PMID: 18188003; PMCID: PMC2654259.
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Regulation of protein arginine methyltransferase 8 (PRMT8) activity by its N-terminal domain. J Biol Chem. 2007 Dec 14; 282(50):36444-53. Sayegh J, Webb K, Cheng D, Bedford MT, Clarke SG. PMID: 17925405.
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S-adenosylmethionine-dependent protein methylation in mammalian cytosol via tyrphostin modification by catechol-O-methyltransferase. J Biol Chem. 2007 Oct 19; 282(42):31094-102. Lipson RS, Clarke SG. PMID: 17724020.
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HIV protease inhibitors and nuclear lamin processing: getting the right bells and whistles. Proc Natl Acad Sci U S A. 2007 Aug 28; 104(35):13857-8. Clarke SG. PMID: 17709742; PMCID: PMC1955769.
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Autophagy and insulin/TOR signaling in Caenorhabditis elegans pcm-1 protein repair mutants. Autophagy. 2007 Jul-Aug; 3(4):357-9. Gomez TA, Clarke SG. PMID: 17404495.
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16 Inhibition of mammalian protein methyltransferases by 5'-methylthioadenosine (MTA): A mechanism of action of dietary same? Enzymes. 2006; 24:467-93. Clarke SG. PMID: 26718050.
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Arabidopsis VTC2 encodes a GDP-L-galactose phosphorylase, the last unknown enzyme in the Smirnoff-Wheeler pathway to ascorbic acid in plants. J Biol Chem. 2007 Jun 29; 282(26):18879-85. Linster CL, Gomez TA, Christensen KC, Adler LN, Young BD, Brenner C, Clarke SG. PMID: 17462988; PMCID: PMC2556065.
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Yeast ribosomal/cytochrome c SET domain methyltransferase subfamily: identification of Rpl23ab methylation sites and recognition motifs. J Biol Chem. 2007 Apr 27; 282(17):12368-76. Porras-Yakushi TR, Whitelegge JP, Clarke S. PMID: 17327221.
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Recognition of age-damaged (R,S)-adenosyl-L-methionine by two methyltransferases in the yeast Saccharomyces cerevisiae. J Biol Chem. 2007 Mar 23; 282(12):8604-12. Vinci CR, Clarke SG. PMID: 17264075.
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Arabidopsis Protein Repair L-Isoaspartyl Methyltransferases: Predominant Activities at Lethal Temperatures. Physiol Plant. 2006 Dec; 128(4):581-592. Villa ST, Xu Q, Downie AB, Clarke SG. PMID: 21076691; PMCID: PMC2980331.
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The L-isoaspartyl-O-methyltransferase in Caenorhabditis elegans larval longevity and autophagy. Dev Biol. 2007 Mar 15; 303(2):493-500. Gomez TA, Banfield KL, Trogler DM, Clarke SG. PMID: 17187774; PMCID: PMC1868680.
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A novel SET domain methyltransferase in yeast: Rkm2-dependent trimethylation of ribosomal protein L12ab at lysine 10. J Biol Chem. 2006 Nov 24; 281(47):35835-45. Porras-Yakushi TR, Whitelegge JP, Clarke S. PMID: 17005568.
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Yeast Hsl7 (histone synthetic lethal 7) catalyses the in vitro formation of omega-N(G)-monomethylarginine in calf thymus histone H2A. Biochem J. 2006 May 01; 395(3):563-70. Miranda TB, Sayegh J, Frankel A, Katz JE, Miranda M, Clarke S. PMID: 16426232; PMCID: PMC1462694.
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Increased cell proliferation and granule cell number in the dentate gyrus of protein repair-deficient mice. J Comp Neurol. 2005 Dec 26; 493(4):524-37. Farrar CE, Huang CS, Clarke SG, Houser CR. PMID: 16304629.
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Protein arginine methyltransferase 6 specifically methylates the nonhistone chromatin protein HMGA1a. Biochem Biophys Res Commun. 2005 Oct 28; 336(3):831-5. Miranda TB, Webb KJ, Edberg DD, Reeves R, Clarke S. PMID: 16157300.
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Diet-dependent survival of protein repair-deficient mice. J Nutr Biochem. 2005 Sep; 16(9):554-61. Farrar CE, Clarke S. PMID: 16115544.
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A novel methyltransferase required for the formation of the hypermodified nucleoside wybutosine in eucaryotic tRNA. Biochem Biophys Res Commun. 2005 Aug 26; 334(2):433-40. Kalhor HR, Penjwini M, Clarke S. PMID: 16005430.
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A novel SET domain methyltransferase modifies ribosomal protein Rpl23ab in yeast. J Biol Chem. 2005 Oct 14; 280(41):34590-8. Porras-Yakushi TR, Whitelegge JP, Miranda TB, Clarke S. PMID: 16096273.
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A new type of protein methylation activated by tyrphostin A25 and vanadate. FEBS Lett. 2004 Nov 05; 577(1-2):181-6. Miranda TB, Lowenson JD, Clarke S. PMID: 15527782.
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Spliceosome Sm proteins D1, D3, and B/B' are asymmetrically dimethylated at arginine residues in the nucleus. Biochem Biophys Res Commun. 2004 Oct 15; 323(2):382-7. Miranda TB, Khusial P, Cook JR, Lee JH, Gunderson SI, Pestka S, Zieve GW, Clarke S. PMID: 15369763.
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A second protein L-isoaspartyl methyltransferase gene in Arabidopsis produces two transcripts whose products are sequestered in the nucleus. Plant Physiol. 2004 Sep; 136(1):2652-64. Xu Q, Belcastro MP, Villa ST, Dinkins RD, Clarke SG, Downie AB. PMID: 15347786; PMCID: PMC523330.
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Improved rotorod performance and hyperactivity in mice deficient in a protein repair methyltransferase. Behav Brain Res. 2004 Aug 12; 153(1):129-41. Vitali R, Clarke S. PMID: 15219714.
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PRMT7 is a member of the protein arginine methyltransferase family with a distinct substrate specificity. J Biol Chem. 2004 May 28; 279(22):22902-7. Miranda TB, Miranda M, Frankel A, Clarke S. PMID: 15044439.
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Fighting cancer by disrupting C-terminal methylation of signaling proteins. J Clin Invest. 2004 Feb; 113(4):513-5. Clarke S, Tamanoi F. PMID: 14966560; PMCID: PMC338270.
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Novel methyltransferase for modified uridine residues at the wobble position of tRNA. Mol Cell Biol. 2003 Dec; 23(24):9283-92. Kalhor HR, Clarke S. PMID: 14645538; PMCID: PMC309612.
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Automated identification of putative methyltransferases from genomic open reading frames. Mol Cell Proteomics. 2003 Aug; 2(8):525-40. Katz JE, Dlakic M, Clarke S. PMID: 12872006.
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Aging as war between chemical and biochemical processes: protein methylation and the recognition of age-damaged proteins for repair. Ageing Res Rev. 2003 Jul; 2(3):263-85. Clarke S. PMID: 12726775.
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Structure and function of an archaeal homolog of survival protein E (SurEalpha): an acid phosphatase with purine nucleotide specificity. J Mol Biol. 2003 Mar 07; 326(5):1559-75. Mura C, Katz JE, Clarke SG, Eisenberg D. PMID: 12595266.
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Altered levels of S-adenosylmethionine and S-adenosylhomocysteine in the brains of L-isoaspartyl (D-Aspartyl) O-methyltransferase-deficient mice. J Biol Chem. 2002 Aug 02; 277(31):27856-63. Farrar C, Clarke S. PMID: 12023972.
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The methylator meets the terminator. Proc Natl Acad Sci U S A. 2002 Feb 05; 99(3):1104-6. Clarke S. PMID: 11830650; PMCID: PMC122150.
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Crystal structure of human L-isoaspartyl methyltransferase. J Biol Chem. 2002 Mar 22; 277(12):10642-6. Ryttersgaard C, Griffith SC, Sawaya MR, MacLaren DC, Clarke S, Yeates TO. PMID: 11792715.
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Protein repair methyltransferase from the hyperthermophilic archaeon Pyrococcus furiosus. Unusual methyl-accepting affinity for D-aspartyl and N-succinyl-containing peptides. J Biol Chem. 2002 Jan 11; 277(2):1058-65. Thapar N, Griffith SC, Yeates TO, Clarke S. PMID: 11694513.
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