John A. Gerlt - Publications

Affiliations: 
University of Illinois, Urbana-Champaign, Urbana-Champaign, IL 
Area:
structure/function relationships for enzyme-catalyzed reactions
Website:
http://mcb.illinois.edu/faculty/profile/942

208 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Yuan Y, Zallot R, Grove TL, Payan DJ, Martin-Verstraete I, Šepić S, Balamkundu S, Neelakandan R, Gadi VK, Liu CF, Swairjo MA, Dedon PC, Almo SC, Gerlt JA, de Crécy-Lagard V. Discovery of novel bacterial queuine salvage enzymes and pathways in human pathogens. Proceedings of the National Academy of Sciences of the United States of America. PMID 31481610 DOI: 10.1073/pnas.1909604116  0.6
2018 Gerlt JA, Erb TJ. Editorial overview: Novel enzymes, coenzymes, and metabolic pathways. Current Opinion in Chemical Biology. 47: A4-A6. PMID 30497880 DOI: 10.1016/j.cbpa.2018.11.008  0.88
2018 Reyes AC, Plache DC, Koudelka AP, Amyes TL, Gerlt JA, Richard JP. Enzyme Architecture: Breaking Down the Catalytic Cage that Activates Orotidine 5'-Monophosphate Decarboxylase for Catalysis. Journal of the American Chemical Society. PMID 30475611 DOI: 10.1021/jacs.8b09609  0.6
2018 Bouvier JT, Sernova NV, Ghasempur S, Rodionova IA, Vetting MW, Al-Obaidi NF, Almo SC, Gerlt JA, Rodionov DA. Novel Metabolic Pathways and Regulons for Hexuronate Utilization in Proteobacteria. Journal of Bacteriology. PMID 30249705 DOI: 10.1128/JB.00431-18  0.6
2018 Carter MS, Zhang X, Huang H, Bouvier JT, Francisco BS, Vetting MW, Al-Obaidi N, Bonanno JB, Ghosh A, Zallot RG, Andersen HM, Almo SC, Gerlt JA. Functional assignment of multiple catabolic pathways for D-apiose. Nature Chemical Biology. PMID 29867142 DOI: 10.1038/s41589-018-0067-7  0.6
2018 Calhoun S, Korczynska M, Wichelecki DJ, San Francisco B, Zhao S, Rodionov DA, Vetting MW, Al-Obaidi NF, Lin H, O'Meara MJ, Scott DA, Morris JH, Russel D, Almo SC, Osterman AL, ... Gerlt JA, et al. Prediction of enzymatic pathways by integrative pathway mapping. Elife. 7. PMID 29377793 DOI: 10.7554/eLife.31097  0.6
2016 Zhang X, Carter MS, Vetting MW, San Francisco B, Zhao S, Al-Obaidi NF, Solbiati JO, Thiaville JJ, de Crécy-Lagard V, Jacobson MP, Almo SC, Gerlt JA. Assignment of function to a domain of unknown function: DUF1537 is a new kinase family in catabolic pathways for acid sugars. Proceedings of the National Academy of Sciences of the United States of America. PMID 27402745 DOI: 10.1073/pnas.1605546113  0.6
2016 Yadava U, Vetting MW, Al Obaidi N, Carter MS, Gerlt JA, Almo SC. Structure of an ABC transporter solute-binding protein specific for the amino sugars glucosamine and galactosamine. Acta Crystallographica. Section F, Structural Biology Communications. 72: 467-472. PMID 27303900 DOI: 10.1107/S2053230X16007500  1
2016 Huang H, Carter MS, Vetting MW, Al-Obaidi N, Patskovsky Y, Almo SC, Gerlt JA. Correction to "A General Strategy for the Discovery of Metabolic Pathways: d-Threitol, l-Threitol, and Erythritol Utilization in Mycobacterium smegmatis". Journal of the American Chemical Society. PMID 26978037 DOI: 10.1021/jacs.6b01906  1
2016 Vetting MW, Bouvier JT, Gerlt JA, Almo SC. Purification, crystallization and structural elucidation of D-galactaro-1,4-lactone cycloisomerase from Agrobacterium tumefaciens involved in pectin degradation. Acta Crystallographica. Section F, Structural Biology Communications. 72: 36-41. PMID 26750482 DOI: 10.1107/S2053230X15023286  1
2015 Huang H, Carter MS, Vetting MW, Al-Obaidi N, Patskovsky Y, Almo SC, Gerlt JA. A General Strategy for the Discovery of Metabolic Pathways: D-Threitol, L-Threitol, and Erythritol Utilization in Mycobacterium smegmatis. Journal of the American Chemical Society. PMID 26560079 DOI: 10.1021/jacs.5b08968  1
2015 Wichelecki DJ, Vetting MW, Chou L, Al-Obaidi N, Bouvier JT, Almo SC, Gerlt JA. ABC Transport System Solute Binding Protein-Guided Identification of Novel D-Altritol and Galactitol Catabolic Pathways in Agrobacterium tumefaciencs C58. The Journal of Biological Chemistry. PMID 26472925 DOI: 10.1074/jbc.M115.686857  1
2015 Goryanova B, Goldman LM, Ming S, Amyes TL, Gerlt JA, Richard JP. Rate and Equilibrium Constants for an Enzyme Conformational Change during Catalysis by Orotidine 5'-Monophosphate Decarboxylase. Biochemistry. 54: 4555-64. PMID 26135041 DOI: 10.1021/acs.biochem.5b00591  1
2015 Gerlt JA, Bouvier JT, Davidson DB, Imker HJ, Sadkhin B, Slater DR, Whalen KL. Enzyme Function Initiative-Enzyme Similarity Tool (EFI-EST): A web tool for generating protein sequence similarity networks. Biochimica Et Biophysica Acta. 1854: 1019-1037. PMID 25900361 DOI: 10.1016/j.bbapap.2015.04.015  1
2015 Zhang X, Kumar R, Vetting MW, Zhao S, Jacobson MP, Almo SC, Gerlt JA. A unique cis-3-hydroxy-l-proline dehydratase in the enolase superfamily. Journal of the American Chemical Society. 137: 1388-91. PMID 25608448 DOI: 10.1021/ja5103986  1
2015 Vetting MW, Al-Obaidi N, Zhao S, San Francisco B, Kim J, Wichelecki DJ, Bouvier JT, Solbiati JO, Vu H, Zhang X, Rodionov DA, Love JD, Hillerich BS, Seidel RD, Quinn RJ, ... ... Gerlt JA, et al. Experimental strategies for functional annotation and metabolism discovery: targeted screening of solute binding proteins and unbiased panning of metabolomes. Biochemistry. 54: 909-31. PMID 25540822 DOI: 10.1021/bi501388y  0.6
2014 Cho K, Evans BS, Wood BM, Kumar R, Erb TJ, Warlick BP, Gerlt JA, Sweedler JV. Integration of untargeted metabolomics with transcriptomics reveals active metabolic pathways. Metabolomics : Official Journal of the Metabolomic Society. 2014. PMID 25705145 DOI: 10.1007/s11306-014-0713-3  0.88
2014 Desai BJ, Goto Y, Cembran A, Fedorov AA, Almo SC, Gao J, Suga H, Gerlt JA. Investigating the role of a backbone to substrate hydrogen bond in OMP decarboxylase using a site-specific amide to ester substitution. Proceedings of the National Academy of Sciences of the United States of America. 111: 15066-71. PMID 25275007 DOI: 10.1073/pnas.1411772111  1
2014 Wichelecki DJ, Vendiola JA, Jones AM, Al-Obaidi N, Almo SC, Gerlt JA. Investigating the physiological roles of low-efficiency D-mannonate and D-gluconate dehydratases in the enolase superfamily: pathways for the catabolism of L-gulonate and L-idonate. Biochemistry. 53: 5692-9. PMID 25145794 DOI: 10.1021/bi500837w  1
2014 Zhao S, Sakai A, Zhang X, Vetting MW, Kumar R, Hillerich B, San Francisco B, Solbiati J, Steves A, Brown S, Akiva E, Barber A, Seidel RD, Babbitt PC, Almo SC, ... Gerlt JA, et al. Prediction and characterization of enzymatic activities guided by sequence similarity and genome neighborhood networks. Elife. 3. PMID 24980702 DOI: 10.7554/eLife.03275  1
2014 Goldman LM, Amyes TL, Goryanova B, Gerlt JA, Richard JP. Enzyme architecture: Deconstruction of the enzyme-activating phosphodianion interactions of orotidine 5′-monophosphate decarboxylase Journal of the American Chemical Society. 136: 10156-10165. PMID 24958125 DOI: 10.1021/ja505037v  1
2014 Wichelecki DJ, Graff DC, Al-Obaidi N, Almo SC, Gerlt JA. Identification of the in vivo function of the high-efficiency D-mannonate dehydratase in Caulobacter crescentus NA1000 from the enolase superfamily. Biochemistry. 53: 4087-9. PMID 24947666 DOI: 10.1021/bi500683x  1
2014 Groninger-Poe FP, Bouvier JT, Vetting MW, Kalyanaraman C, Kumar R, Almo SC, Jacobson MP, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: galactarate dehydratase III from Agrobacterium tumefaciens C58. Biochemistry. 53: 4192-203. PMID 24926996 DOI: 10.1021/bi5005377  1
2014 Ghasempur S, Eswaramoorthy S, Hillerich BS, Seidel RD, Swaminathan S, Almo SC, Gerlt JA. Discovery of a novel L-lyxonate degradation pathway in Pseudomonas aeruginosa PAO1. Biochemistry. 53: 3357-66. PMID 24831290 DOI: 10.1021/bi5004298  1
2014 Wichelecki DJ, Balthazor BM, Chau AC, Vetting MW, Fedorov AA, Fedorov EV, Lukk T, Patskovsky YV, Stead MB, Hillerich BS, Seidel RD, Almo SC, Gerlt JA. Discovery of function in the enolase superfamily: D-mannonate and d-gluconate dehydratases in the d-mannonate dehydratase subgroup Biochemistry. 53: 2722-2731. PMID 24697546 DOI: 10.1021/bi500264p  1
2014 Wichelecki DJ, Froese DS, Kopec J, Muniz JR, Yue WW, Gerlt JA. Enzymatic and structural characterization of rTSγ provides insights into the function of rTSβ. Biochemistry. 53: 2732-8. PMID 24697329 DOI: 10.1021/bi500349e  1
2014 Kumar R, Zhao S, Vetting MW, Wood BM, Sakai A, Cho K, Solbiati J, Almo SC, Sweedler JV, Jacobson MP, Gerlt JA, Cronan JE. Prediction and biochemical demonstration of a catabolic pathway for the osmoprotectant proline betaine. Mbio. 5: e00933-13. PMID 24520058 DOI: 10.1128/mBio.00933-13  0.6
2014 Bouvier JT, Groninger-Poe FP, Vetting M, Almo SC, Gerlt JA. Galactaro δ-lactone isomerase: Lactone isomerization by a member of the amidohydrolase superfamily Biochemistry. 53: 614-616. PMID 24450804 DOI: 10.1021/bi5000492  1
2013 Zhao S, Kumar R, Sakai A, Vetting MW, Wood BM, Brown S, Bonanno JB, Hillerich BS, Seidel RD, Babbitt PC, Almo SC, Sweedler JV, Gerlt JA, Cronan JE, Jacobson MP. Discovery of new enzymes and metabolic pathways by using structure and genome context. Nature. 502: 698-702. PMID 24056934 DOI: 10.1038/nature12576  0.6
2013 Goryanova B, Goldman LM, Amyes TL, Gerlt JA, Richard JP. Role of a guanidinium cation-phosphodianion pair in stabilizing the vinyl carbanion intermediate of orotidine 5′-phosphate decarboxylase-catalyzed reactions Biochemistry. 52: 7500-7511. PMID 24053466 DOI: 10.1021/bi401117y  1
2013 Kellett WF, Brunk E, Desai BJ, Fedorov AA, Almo SC, Gerlt JA, Rothlisberger U, Richards NG. Computational, structural, and kinetic evidence that Vibrio vulnificus FrsA is not a cofactor-independent pyruvate decarboxylase. Biochemistry. 52: 1842-4. PMID 23452154 DOI: 10.1021/bi400093y  0.6
2012 Warlick BPE, Imker HJ, Sriram J, Tabita FR, Gerlt JA. Mechanistic diversity in the RuBisCO superfamily: RuBisCO from rhodospirillum rubrum is not promiscuous for reactions catalyzed by RuBisCO-like proteins Biochemistry. 51: 9470-9479. PMID 23110715 DOI: 10.1021/bi301311t  1
2012 Erb TJ, Evans BS, Cho K, Warlick BP, Sriram J, Wood BM, Imker HJ, Sweedler JV, Tabita FR, Gerlt JA. A RubisCO-like protein links SAM metabolism with isoprenoid biosynthesis. Nature Chemical Biology. 8: 926-32. PMID 23042035 DOI: 10.1038/nchembio.1087  0.88
2012 Warlick BP, Evans BS, Erb TJ, Ramagopal UA, Sriram J, Imker HJ, Sauder JM, Bonanno JB, Burley SK, Tabita FR, Almo SC, Sweedler JS, Gerlt JA. 1-methylthio-d-xylulose 5-phosphate methylsulfurylase: A novel route to 1-deoxy-d-xylulose 5-phosphate in Rhodospirillum rubrum Biochemistry. 51: 8324-8326. PMID 23035785 DOI: 10.1021/bi301215g  1
2012 Desai BJ, Wood BM, Fedorov AA, Fedorov EV, Goryanova B, Amyes TL, Richard JP, Almo SC, Gerlt JA. Conformational changes in orotidine 5′-monophosphate decarboxylase: A structure-based explanation for how the 5′-phosphate group activates the enzyme Biochemistry. 51: 8665-8678. PMID 23030629 DOI: 10.1021/bi301188k  1
2012 Tsang WY, Wood BM, Wong FM, Wu W, Gerlt JA, Amyes TL, Richard JP. Proton transfer from C-6 of uridine 5′-monophosphate catalyzed by orotidine 5′-monophosphate decarboxylase: Formation and stability of a vinyl carbanion intermediate and the effect of a 5-fluoro substituent Journal of the American Chemical Society. 134: 14580-14594. PMID 22812629 DOI: 10.1021/ja3058474  1
2012 Amyes TL, Ming SA, Goldman LM, Wood BM, Desai BJ, Gerlt JA, Richard JP. Orotidine 5′-monophosphate decarboxylase: Transition state stabilization from remote protein-phosphodianion interactions Biochemistry. 51: 4630-4632. PMID 22620855 DOI: 10.1021/bi300585e  1
2012 Lukk T, Sakai A, Kalyanaraman C, Brown SD, Imker HJ, Song L, Fedorov AA, Fedorov EV, Toro R, Hillerich B, Seidel R, Patskovsky Y, Vetting MW, Nair SK, Babbitt PC, ... ... Gerlt JA, et al. Homology models guide discovery of diverse enzyme specificities among dipeptide epimerases in the enolase superfamily. Proceedings of the National Academy of Sciences of the United States of America. 109: 4122-7. PMID 22392983 DOI: 10.1073/pnas.1112081109  1
2012 Gerlt JA, Babbitt PC, Jacobson MP, Almo SC. Divergent evolution in enolase superfamily: strategies for assigning functions. The Journal of Biological Chemistry. 287: 29-34. PMID 22069326 DOI: 10.1074/jbc.R111.240945  1
2012 Gerlt JA. Use of Chiral [16O,17O,18O]Phosphate Esters to Determine the Stereochemical Course of Enzymatic Phosphoryl Transfer Reactions Phosphorous-31 Nmr: Principles and Applications. 199-232. DOI: 10.1016/B978-0-08-091841-9.50012-6  1
2011 Gerlt JA, Allen KN, Almo SC, Armstrong RN, Babbitt PC, Cronan JE, Dunaway-Mariano D, Imker HJ, Jacobson MP, Minor W, Poulter CD, Raushel FM, Sali A, Shoichet BK, Sweedler JV. The Enzyme Function Initiative. Biochemistry. 50: 9950-62. PMID 21999478 DOI: 10.1021/bi201312u  0.6
2011 Iiams V, Desai BJ, Fedorov AA, Fedorov EV, Almo SC, Gerlt JA. Mechanism of the orotidine 5′-monophosphate decarboxylase-catalyzed reaction: Importance of residues in the orotate binding site Biochemistry. 50: 8497-8507. PMID 21870810 DOI: 10.1021/bi2012355  1
2011 Goryanova B, Amyes TL, Gerlt JA, Richard JP. OMP decarboxylase: Phosphodianion binding energy is used to stabilize a vinyl carbanion intermediate Journal of the American Chemical Society. 133: 6545-6548. PMID 21486036 DOI: 10.1021/ja201734z  1
2010 Toth K, Amyes TL, Wood BM, Chan K, Gerlt JA, Richard JP. Product deuterium isotope effects for orotidine 5'-monophosphate decarboxylase: effect of changing substrate and enzyme structure on the partitioning of the vinyl carbanion reaction intermediate. Journal of the American Chemical Society. 132: 7018-24. PMID 20441167 DOI: 10.1021/ja102408k  1
2010 Wood BM, Amyes TL, Fedorov AA, Fedorov EV, Shabila A, Almo SC, Richard JP, Gerlt JA. Conformational changes in orotidine 5′-monophosphate decarboxylase: "remote" residues that stabilize the active conformation Biochemistry. 49: 3514-3516. PMID 20369850 DOI: 10.1021/bi100443a  1
2010 Barnett SA, Amyes TL, Wood BM, Gerlt JA, Richard JP. Activation of R235A mutant orotidine 5′-monophosphate decarboxylase by the guanidinium cation: Effective molarity of the cationic side chain of Arg-235 Biochemistry. 49: 824-826. PMID 20050635 DOI: 10.1021/bi902174q  1
2009 Rakus JF, Kalyanaraman C, Fedorov AA, Fedorov EV, Mills-Groninger FP, Toro R, Bonanno J, Bain K, Sauder JM, Burley SK, Almo SC, Jacobson MP, Gerlt JA. Computation-facilitated assignment of the function in the enolase superfamily: a regiochemically distinct galactarate dehydratase from Oceanobacillus iheyensis . Biochemistry. 48: 11546-58. PMID 19883118 DOI: 10.1021/bi901731c  1
2009 Toth K, Amyes TL, Wood BM, Chan KK, Gerlt JA, Richard JP. An examination of the relationship between active site loop size and thermodynamic activation parameters for orotidine 5'-monophosphate decarboxylase from mesophilic and thermophilic organisms. Biochemistry. 48: 8006-13. PMID 19618917 DOI: 10.1021/bi901064k  1
2009 Gerlt JA. Acetoacetate decarboxylase: Hydrophobics, not electrostatics Nature Chemical Biology. 5: 454-455. PMID 19536104 DOI: 10.1038/nchembio0709-454  1
2009 Chan KK, Wood BM, Fedorov AA, Fedorov EV, Imker HJ, Amyes TL, Richard JP, Almo SC, Gerlt JA. Mechanism of the orotidine 5′-monophosphate decarboxylase-catalyzed reaction: Evidence for substrate destabilization Biochemistry. 48: 5518-5531. PMID 19435314 DOI: 10.1021/bi900623r  1
2009 Wood BM, Chan KK, Amyes TL, Richard JP, Gerlt JA. Mechanism of the orotidine 5′-monophosphate decarboxylase-catalyzed reaction: Effect of solvent viscosity on kinetic constants Biochemistry. 48: 5510-5517. PMID 19435313 DOI: 10.1021/bi9006226  1
2009 Gerlt JA, Babbitt PC. Enzyme (re)design: lessons from natural evolution and computation Current Opinion in Chemical Biology. 13: 10-18. PMID 19237310 DOI: 10.1016/j.cbpa.2009.01.014  1
2009 Sakai A, Fedorov AA, Fedorov EV, Schnoes AM, Glasner ME, Brown S, Rutter ME, Bain K, Chang S, Gheyi T, Sauder JM, Burley SK, Babbitt PC, Almo SC, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: stereochemically distinct mechanisms in two families of cis,cis-muconate lactonizing enzymes. Biochemistry. 48: 1445-53. PMID 19220063 DOI: 10.1021/bi802277h  1
2009 Pieper U, Chiang R, Seffernick JJ, Brown SD, Glasner ME, Kelly L, Eswar N, Sauder JM, Bonanno JB, Swaminathan S, Burley SK, Zheng X, Chance MR, Almo SC, Gerlt JA, et al. Target selection and annotation for the structural genomics of the amidohydrolase and enolase superfamilies. Journal of Structural and Functional Genomics. 10: 107-25. PMID 19219566 DOI: 10.1007/s10969-008-9056-5  1
2009 Froese DS, Dobson CM, White AP, Wu X, Padovani D, Banerjee R, Haller T, Gerlt JA, Surette MG, Gravel RA. Sleeping beauty mutase (sbm) is expressed and interacts with ygfd in Escherichia coli Microbiological Research. 164: 1-8. PMID 18950999 DOI: 10.1016/j.micres.2008.08.006  1
2008 Karp PD, Sherlock G, Gerlt JA, Sim I, Paulsen I, Babbitt PC, Laderoute K, Hunter L, Sternberg P, Wooley J, Bourne PE. Changes to NIH grant system may backfire Science. 322: 1187-1188. PMID 19023064  1
2008 Kalyanaraman C, Imker HJ, Fedorov AA, Fedorov EV, Glasner ME, Babbitt PC, Almo SC, Gerlt JA, Jacobson MP. Discovery of a dipeptide epimerase enzymatic function guided by homology modeling and virtual screening. Structure (London, England : 1993). 16: 1668-77. PMID 19000819 DOI: 10.1016/j.str.2008.08.015  1
2008 Imker HJ, Singh J, Warlick BP, Tabita FR, Gerlt JA. Mechanistic diversity in the RuBisCO superfamily: A novel isomerization reaction catalyzed by the RuBisCO-like protein from Rhodospirillum rubrum Biochemistry. 47: 11171-11173. PMID 18826254 DOI: 10.1021/bi801685f  1
2008 Rakus JF, Fedorov AA, Fedorov EV, Glasner ME, Hubbard BK, Delli JD, Babbitt PC, Almo SC, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: L-rhamnonate dehydratase Biochemistry. 47: 9944-9954. PMID 18754693 DOI: 10.1021/bi800914r  1
2008 Rea D, Hovington R, Rakus JF, Gerlt JA, Fülöp V, Bugg TDH, Roper DI. Crystal structure and functional assignment of YfaU, a metal ion dependent class II aldolase from Escherichia coli K12 Biochemistry. 47: 9955-9965. PMID 18754683 DOI: 10.1021/bi800943g  1
2008 Chan KK, Fedorov AA, Fedorov EV, Almo SC, Gerlt JA. Structural basis for substrate specificity in phosphate binding (β/α)8-barrels: D-allulose 6-phosphate 3-epimerase from Escherichia coli K-12 Biochemistry. 47: 9608-9617. PMID 18700786 DOI: 10.1021/bi800821v  1
2008 Barnett SA, Amyes TL, Wood BM, Gerlt JA, Richard JP. Dissecting the total transition state stabilization provided by amino acid side chains at orotidine 5′-monophosphate decarboxylase: A two-part substrate approach Biochemistry. 47: 7785-7787. PMID 18598058 DOI: 10.1021/bi800939k  1
2008 Amyes TL, Wood BM, Chan K, Gerlt JA, Richard JP. Formation and stability of a vinyl carbanion at the active site of orotidine 5′-monophosphate decarboxylase: pKa of the C-6 proton of enzyme-bound UMP Journal of the American Chemical Society. 130: 1574-1575. PMID 18186641 DOI: 10.1021/ja710384t  1
2007 Vick JE, Gerlt JA. Evolutionary potential of (beta/alpha)8-barrels: stepwise evolution of a "new" reaction in the enolase superfamily. Biochemistry. 46: 14589-97. PMID 18020459 DOI: 10.1021/bi7019063  1
2007 Gerlt JA. A Protein Structure (or Function ?) Initiative Structure. 15: 1353-1356. PMID 17997960 DOI: 10.1016/j.str.2007.10.003  1
2007 Rakus JF, Fedorov AA, Fedorov EV, Glasner ME, Vick JE, Babbitt PC, Almo SC, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: D-Mannonate dehydratase from Novosphingobium aromaticivorans. Biochemistry. 46: 12896-908. PMID 17944491 DOI: 10.1021/bi701703w  1
2007 Toth K, Amyes TL, Wood BM, Chan K, Gerlt JA, Richard JP. Product deuterium isotope effect for orotidine 5'-monophosphate decarboxylase: evidence for the existence of a short-lived carbanion intermediate. Journal of the American Chemical Society. 129: 12946-7. PMID 17918849 DOI: 10.1021/ja076222f  1
2007 Wen SY, Fedorov AA, Fedorov EV, Almo SC, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: L-talarate/galactarate dehydratase from Salmonella typhimurium LT2 Biochemistry. 46: 9564-9577. PMID 17649980 DOI: 10.1021/bi7008882  1
2007 Song L, Kalyanaraman C, Fedorov AA, Fedorov EV, Glasner ME, Brown S, Imker HJ, Babbitt PC, Almo SC, Jacobson MP, Gerlt JA. Prediction and assignment of function for a divergent N-succinyl amino acid racemase. Nature Chemical Biology. 3: 486-91. PMID 17603539 DOI: 10.1038/nchembio.2007.11  1
2007 Gerlt JA. Obituary: Frank H. Westheimer (1912-2007). Nature. 447: 543. PMID 17538611 DOI: 10.1038/447543a  1
2007 Imker HJ, Fedorov AA, Fedorov EV, Almo SC, Gerlt JA. Mechanistic diversity in the RuBisCO superfamily: The "enolase" in the methionine salvage pathway in Geobacillus kaustophilus Biochemistry. 46: 4077-4089. PMID 17352497 DOI: 10.1021/bi7000483  1
2007 Glasner ME, Gerlt JA, Babbitt PC. Mechanisms of protein evolution and their application to protein engineering Advances in Enzymology and Related Areas of Molecular Biology. 75: 193-239. PMID 17124868  1
2007 Gerlt JA. Enzymatic Catalysis of Proton Transfer at Carbon Atoms Hydrogen-Transfer Reactions. 3: 1107-1137. DOI: 10.1002/9783527611546.ch35  1
2006 Yew WS, Fedorov AA, Fedorov EV, Wood BM, Almo SC, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: D-tartrate dehydratase from Bradyrhizobium japonicum Biochemistry. 45: 14598-14608. PMID 17144653 DOI: 10.1021/bi061688g  1
2006 Yew WS, Fedorov AA, Fedorov EV, Rakus JF, Pierce RW, Almo SC, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: L-fuconate dehydratase from Xanthomonas campestris Biochemistry. 45: 14582-14597. PMID 17144652 DOI: 10.1021/bi061687o  1
2006 Glasner ME, Gerlt JA, Babbitt PC. Evolution of enzyme superfamilies Current Opinion in Chemical Biology. 10: 492-497. PMID 16935022 DOI: 10.1016/j.cbpa.2006.08.012  1
2006 Glasner ME, Fayazmanesh N, Chiang RA, Sakai A, Jacobson MP, Gerlt JA, Babbitt PC. Evolution of Structure and Function in the o-Succinylbenzoate Synthase/N-Acylamino Acid Racemase Family of the Enolase Superfamily Journal of Molecular Biology. 360: 228-250. PMID 16740275 DOI: 10.1016/j.jmb.2006.04.055  1
2006 Sakai A, Xiang DF, Xu C, Song L, Yew WS, Raushel FM, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: N-succinylamino acid racemase and a new pathway for the irreversible conversion of D- to L-amino acids. Biochemistry. 45: 4455-62. PMID 16584181 DOI: 10.1021/bi060230b  1
2006 Brown SD, Gerlt JA, Seffernick JL, Babbitt P. A gold standard set of mechanistically diverse enzyme superfamilies Genome Biology. 7. PMID 16507141 DOI: 10.1186/gb-2006-7-1-r8  1
2006 Akana J, Fedorov AA, Fedorov E, Novak WRP, Babbitt PC, Almo SC, Gerlt JA. D-ribulose 5-phosphate 3-epimerase: Functional and structural relationships to members of the ribulose-phosphate binding (β/α) 8-barrel superfamily Biochemistry. 45: 2493-2503. PMID 16489742 DOI: 10.1021/bi052474m  1
2005 Vick JE, Schmidt DM, Gerlt JA. Evolutionary potential of (beta/alpha)8-barrels: in vitro enhancement of a "new" reaction in the enolase superfamily. Biochemistry. 44: 11722-9. PMID 16128573 DOI: 10.1021/bi050963g  1
2005 Wise EL, Yew WS, Akana J, Gerlt JA, Rayment I. Evolution of enzymatic activities in the orotidine 5'-monophosphate decarboxylase suprafamily: structural basis for catalytic promiscuity in wild-type and designed mutants of 3-keto-L-gulonate 6-phosphate decarboxylase. Biochemistry. 44: 1816-23. PMID 15697207 DOI: 10.1021/bi0478143  1
2005 Yew WS, Akana J, Wise EL, Rayment I, Gerlt JA. Evolution of enzymatic activities in the orotidine 5'-monophosphate decarboxylase suprafamily: enhancing the promiscuous D-arabino-hex-3-ulose 6-phosphate synthase reaction catalyzed by 3-keto-L-gulonate 6-phosphate decarboxylase. Biochemistry. 44: 1807-15. PMID 15697206 DOI: 10.1021/bi047815v  1
2005 Gerlt JA, Babbitt PC, Rayment I. Divergent evolution in the enolase superfamily: the interplay of mechanism and specificity. Archives of Biochemistry and Biophysics. 433: 59-70. PMID 15581566 DOI: 10.1016/j.abb.2004.07.034  1
2004 Wise EL, Akana J, Gerlt JA, Rayment I. Structure of D-ribulose 5-phosphate 3-epimerase from Synechocystis to 1.6 A resolution. Acta Crystallographica. Section D, Biological Crystallography. 60: 1687-90. PMID 15333955 DOI: 10.1107/S0907444904015896  1
2004 Klenchin VA, Schmidt DM, Gerlt JA, Rayment I. Evolution of enzymatic activities in the enolase superfamily: structure of a substrate-liganded complex of the L-Ala-D/L-Glu epimerase from Bacillus subtilis. Biochemistry. 43: 10370-8. PMID 15301535 DOI: 10.1021/bi049197o  1
2004 Eberhard ED, Gerlt JA. Evolution of function in the crotonase superfamily: The stereochemical course of the reaction catalyzed by 2-ketocyclohexanecarboxyl-CoA hydrolase Journal of the American Chemical Society. 126: 7188-7189. PMID 15186151 DOI: 10.1021/ja0482381  1
2004 Wise EL, Yew WS, Gerlt JA, Rayment I. Evolution of enzymatic activities in the orotidine 5'-monophosphate decarboxylase suprafamily: crystallographic evidence for a proton relay system in the active site of 3-keto-L-gulonate 6-phosphate decarboxylase. Biochemistry. 43: 6438-46. PMID 15157078 DOI: 10.1021/bi0497392  1
2004 Yew WS, Wise EL, Rayment I, Gerlt JA. Evolution of enzymatic activities in the orotidine 5'-monophosphate decarboxylase suprafamily: mechanistic evidence for a proton relay system in the active site of 3-keto-L-gulonate 6-phosphate decarboxylase. Biochemistry. 43: 6427-37. PMID 15157077 DOI: 10.1021/bi049741t  1
2004 Thoden JB, Taylor Ringia EA, Garrett JB, Gerlt JA, Holden HM, Rayment I. Evolution of enzymatic activity in the enolase superfamily: structural studies of the promiscuous o-succinylbenzoate synthase from Amycolatopsis. Biochemistry. 43: 5716-27. PMID 15134446 DOI: 10.1021/bi0497897  1
2004 Wong BJ, Gerlt JA. Evolution of Function in the Crotonase Superfamily: (3S)-Methylglutaconyl-CoA Hydratase from Pseudomonas putida Biochemistry. 43: 4646-4654. PMID 15096032 DOI: 10.1021/bi0360307  1
2004 Taylor Ringia EA, Garrett JB, Thoden JB, Holden HM, Rayment I, Gerlt JA. Evolution of enzymatic activity in the enolase superfamily: functional studies of the promiscuous o-succinylbenzoate synthase from Amycolatopsis. Biochemistry. 43: 224-9. PMID 14705949 DOI: 10.1021/bi035815+  1
2003 Gerlt JA. How to Find "missing" Genes Chemistry and Biology. 10: 1141-1142. PMID 14700618 DOI: 10.1016/j.chembiol.2003.12.008  1
2003 Klenchin VA, Taylor Ringia EA, Gerlt JA, Rayment I. Evolution of enzymatic activity in the enolase superfamily: structural and mutagenic studies of the mechanism of the reaction catalyzed by o-succinylbenzoate synthase from Escherichia coli. Biochemistry. 42: 14427-33. PMID 14661953 DOI: 10.1021/bi035545v  1
2003 Zhou H, Schmidt DMZ, Gerlt JA, Van Der Donk WA. Chemical and Enzymatic Synthesis of Fluorinated-Dehydroalanine-Containing Peptides Chembiochem. 4: 1206-1215. PMID 14613113 DOI: 10.1002/cbic.200300654  1
2003 Wise EL, Yew WS, Gerlt JA, Rayment I. Structural evidence for a 1,2-enediolate intermediate in the reaction catalyzed by 3-keto-L-gulonate 6-phosphate decarboxylase, a member of the orotidine 5'-monophosphate decarboxylase suprafamily. Biochemistry. 42: 12133-42. PMID 14567674 DOI: 10.1021/bi0348819  1
2003 Wong BJ, Gerlt JA. Divergent function in the crotonase superfamily: An anhydride intermediate in the reaction catalyzed by 3-hydroxyisobutyryl-CoA hydrolase Journal of the American Chemical Society. 125: 12076-12077. PMID 14518977 DOI: 10.1021/ja037652i  1
2003 Schmidt DM, Mundorff EC, Dojka M, Bermudez E, Ness JE, Govindarajan S, Babbitt PC, Minshull J, Gerlt JA. Evolutionary potential of (beta/alpha)8-barrels: functional promiscuity produced by single substitutions in the enolase superfamily. Biochemistry. 42: 8387-93. PMID 12859183 DOI: 10.1021/bi034769a  1
2003 Gerlt JA, Raushel FM. Evolution of function in (beta/alpha)8-barrel enzymes. Current Opinion in Chemical Biology. 7: 252-64. PMID 12714059 DOI: 10.1016/S1367-5931(03)00019-X  1
2003 McLeish MJ, Kneen MM, Gopalakrishna KN, Koo CW, Babbitt PC, Gerlt JA, Kenyon GL. Identification and characterization of a mandelamide hydrolase and an NAD(P)+-dependent benzaldehyde dehydrogenase from Pseudomonas putida ATCC 12633. Journal of Bacteriology. 185: 2451-6. PMID 12670968 DOI: 10.1128/JB.185.8.2451-2456.2003  1
2002 Gerlt JA. "Fishing" for the functional proteome Nature Biotechnology. 20: 786-787. PMID 12148003 DOI: 10.1038/nbt0802-786  1
2002 Wise E, Yew WS, Babbitt PC, Gerlt JA, Rayment I. Homologous (beta/alpha)8-barrel enzymes that catalyze unrelated reactions: orotidine 5'-monophosphate decarboxylase and 3-keto-L-gulonate 6-phosphate decarboxylase. Biochemistry. 41: 3861-9. PMID 11900527 DOI: 10.1021/bi012174e  1
2002 Wen Shan Yew, Gerlt JA. Utilization of L-ascorbate by Escherichia coli K-12: Assignments of functions to products of the yjf-sga and yia-sgb operons Journal of Bacteriology. 184: 302-306. PMID 11741871 DOI: 10.1128/JB.184.1.302-306.2002  1
2002 Kenyon GL, Gerlt JA. Bioorganic Chemistry: Introduction Bioorganic Chemistry. 30: 1-2. DOI: 10.1006/bioo.2002.1236  1
2001 Gulick AM, Schmidt DM, Gerlt JA, Rayment I. Evolution of enzymatic activities in the enolase superfamily: crystal structures of the L-Ala-D/L-Glu epimerases from Escherichia coli and Bacillus subtilis. Biochemistry. 40: 15716-24. PMID 11747448 DOI: 10.1021/bi011641p  1
2001 Schmidt DMZ, Hubbard BK, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: Functional assignment of unknown proteins in bacillus subtilis and Escherichia coli as L-Ala-D/L-Glu epimerases Biochemistry. 40: 15707-15715. PMID 11747447 DOI: 10.1021/bi011640x  1
2001 Gulick AM, Hubbard BK, Gerlt JA, Rayment I. Evolution of enzymatic activities in the enolase superfamily: identification of the general acid catalyst in the active site of D-glucarate dehydratase from Escherichia coli. Biochemistry. 40: 10054-62. PMID 11513584 DOI: 10.1021/bi010733b  1
2001 Taylor EA, Palmer DRJ, Gerlt JA. The lesser "burden borne" by o-succinylbenzoate synthase: An "easy" reaction involving a carboxylate carbon acid [1] Journal of the American Chemical Society. 123: 5824-5825. PMID 11403626 DOI: 10.1021/ja010882h  1
2001 Gerlt JA, Babbitt PC. Divergent evolution of enzymatic function: Mechanistically diverse superfamilies and functionally distinct suprafamilies Annual Review of Biochemistry. 70: 209-246. PMID 11395407 DOI: 10.1146/annurev.biochem.70.1.209  1
2001 Holden HM, Benning MM, Haller T, Gerlt JA. The crotonase superfamily: Divergently related enzymes that catalyze different reactions involving acyl coenzyme a thioesters Accounts of Chemical Research. 34: 145-157. PMID 11263873 DOI: 10.1021/ar000053l  1
2001 Gerlt JA, Babbitt PC. Barrels in pieces? Nature Structural Biology. 8: 5-7. PMID 11135656 DOI: 10.1038/83048  1
2000 Gerlt JA, Babbitt PC. Can sequence determine function? Genome Biology. 1: REVIEWS0005. PMID 11178260  1
2000 Babbitt PC, Gerlt JA. New functions from old scaffolds: how nature reengineers enzymes for new functions. Advances in Protein Chemistry. 55: 1-28. PMID 11050931  1
2000 Thompson TB, Garrett JB, Taylor EA, Meganathan R, Gerlt JA, Rayment I. Evolution of enzymatic activity in the enolase superfamily: structure of o-succinylbenzoate synthase from Escherichia coli in complex with Mg2+ and o-succinylbenzoate. Biochemistry. 39: 10662-76. PMID 10978150 DOI: 10.1021/bi000855o  1
2000 Benning MM, Haller T, Gerlt JA, Holden HM. New reactions in the crotonase superfamily: structure of methylmalonyl CoA decarboxylase from Escherichia coli. Biochemistry. 39: 4630-9. PMID 10769118 DOI: 10.1021/bi9928896  1
2000 Haller T, Buckel T, Rétey J, Gerlt JA. Discovering new enzymes and metabolic pathways: conversion of succinate to propionate by Escherichia coli. Biochemistry. 39: 4622-9. PMID 10769117 DOI: 10.1021/bi992888d  1
2000 Gulick AM, Hubbard BK, Gerlt JA, Rayment I. Evolution of enzymatic activities in the enolase superfamily: crystallographic and mutagenesis studies of the reaction catalyzed by D-glucarate dehydratase from Escherichia coli. Biochemistry. 39: 4590-602. PMID 10769114 DOI: 10.1021/bi992782i  1
2000 Gerlt JA. New wine from old barrels. Nature Structural Biology. 7: 171-3. PMID 10700266 DOI: 10.1038/73249  1
2000 Marletta MA, Gerlt JA. Mechanisms of catalysis - Macroscopic and microscopic progress: Editorial overview Current Opinion in Chemical Biology. 4: 531-532. DOI: 10.1016/S1367-5931(00)00127-7  1
1999 Palmer DR, Garrett JB, Sharma V, Meganathan R, Babbitt PC, Gerlt JA. Unexpected divergence of enzyme function and sequence: "N-acylamino acid racemase" is o-succinylbenzoate synthase. Biochemistry. 38: 4252-8. PMID 10194342 DOI: 10.1021/bi990140p  1
1999 Wieczorek SJ, Kalivoda KA, Clifton JG, Ringe D, Petsko GA, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: Identification of a 'new' general acid catalyst in the active site of D- galactonate dehydratase from Escherichia coli Journal of the American Chemical Society. 121: 4540-4541. DOI: 10.1021/ja990500w  1
1998 Gerlt JA, Babbitt PC. Mechanistically diverse enzyme superfamilies: the importance of chemistry in the evolution of catalysis. Current Opinion in Chemical Biology. 2: 607-12. PMID 9818186  1
1998 Hubbard BK, Koch M, Palmer DR, Babbitt PC, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: characterization of the (D)-glucarate/galactarate catabolic pathway in Escherichia coli. Biochemistry. 37: 14369-75. PMID 9772162 DOI: 10.1021/bi981124f  1
1998 Gulick AM, Palmer DR, Babbitt PC, Gerlt JA, Rayment I. Evolution of enzymatic activities in the enolase superfamily: crystal structure of (D)-glucarate dehydratase from Pseudomonas putida. Biochemistry. 37: 14358-68. PMID 9772161 DOI: 10.1021/bi981123n  1
1998 Palmer DR, Hubbard BK, Gerlt JA. Evolution of enzymatic activities in the enolase superfamily: partitioning of reactive intermediates by (D)-glucarate dehydratase from Pseudomonas putida. Biochemistry. 37: 14350-7. PMID 9772160 DOI: 10.1021/bi981122v  1
1998 Cleland WW, Frey PA, Gerlt JA. The low barrier hydrogen bond in enzymatic catalysis. The Journal of Biological Chemistry. 273: 25529-32. PMID 9748211 DOI: 10.1074/jbc.273.40.25529  1
1998 Hasson MS, Schlichting I, Moulai J, Taylor K, Barrett W, Kenyon GL, Babbitt PC, Gerlt JA, Petsko GA, Ringe D. Evolution of an enzyme active site: the structure of a new crystal form of muconate lactonizing enzyme compared with mandelate racemase and enolase. Proceedings of the National Academy of Sciences of the United States of America. 95: 10396-401. PMID 9724714 DOI: 10.1073/pnas.95.18.10396  1
1998 Hasson MS, Muscate A, McLeish MJ, Polovnikova LS, Gerlt JA, Kenyon GL, Petsko GA, Ringe D. The crystal structure of benzoylformate decarboxylase at 1.6 A resolution: diversity of catalytic residues in thiamin diphosphate-dependent enzymes. Biochemistry. 37: 9918-30. PMID 9665697 DOI: 10.1021/bi973047e  1
1998 Kenvon QL, Hasson MS, Muscate A, McLeish MJ, Harris TK, Babbitt PC, Gerlt JA, Petsko GA, Rinye D. Structure and mechanism of benzoylformate decarboxylase, a thiamin dtthosphate-dependent enzyme Faseb Journal. 12: A1332.  1
1997 Babbitt PC, Gerlt JA. Understanding enzyme superfamilies. Chemistry As the fundamental determinant in the evolution of new catalytic activities. The Journal of Biological Chemistry. 272: 30591-4. PMID 9388188 DOI: 10.1074/jbc.272.49.30591  1
1997 Gerlt JA, Kreevoy MM, Cleland W, Frey PA. Understanding enzymic catalysis: the importance of short, strong hydrogen bonds. Chemistry & Biology. 4: 259-67. PMID 9195866  1
1997 Palmer DRJ, Wieczorek SJ, Hubbard BK, Mrachko GT, Gerlt JA. Importance of mechanistic imperatives in enzyme-catalyzed β-elimination reactions: Stereochemical consequences of the dehydration reactions catalyzed by D-galactonate dehydratase from Escherichia coli and D-glucarate dehydratase from Pseudomonas putida Journal of the American Chemical Society. 119: 9580-9581. DOI: 10.1021/ja970977c  1
1997 Gerlt JA, Babbitt PC. The enolase superfamily: Different reactions catalyzed by similar active sites Faseb Journal. 11: A1006.  1
1997 Wieczorek SJ, Mrachko GT, Gerlt JA. Stereochemistry of the reaction catalyzed by galactonate dehydratase Faseb Journal. 11: A1017.  1
1996 Babbitt PC, Hasson MS, Wedekind JE, Palmer DR, Barrett WC, Reed GH, Rayment I, Ringe D, Kenyon GL, Gerlt JA. The enolase superfamily: a general strategy for enzyme-catalyzed abstraction of the alpha-protons of carboxylic acids. Biochemistry. 35: 16489-501. PMID 8987982 DOI: 10.1021/bi9616413  1
1996 Schafer SL, Barrett WC, Kallarakal AT, Mitra B, Kozarich JW, Gerlt JA, Clifton JG, Petsko GA, Kenyon GL. Mechanism of the reaction catalyzed by mandelate racemase: structure and mechanistic properties of the D270N mutant. Biochemistry. 35: 5662-9. PMID 8639525 DOI: 10.1021/bi960174m  1
1996 Bhagwat M, Gerlt JA. 3'- and 5'-strand cleavage reactions catalyzed by the Fpg protein from Escherichia coli occur via successive beta- and delta-elimination mechanisms, respectively. Biochemistry. 35: 659-65. PMID 8555240 DOI: 10.1021/bi9522662  1
1996 Highbarger LA, Gerlt JA, Kenyon GL. Mechanism of the reaction catalyzed by acetoacetate decarboxylase. Importance of lysine 116 in determining the pKa of active-site lysine 115. Biochemistry. 35: 41-6. PMID 8555196 DOI: 10.1021/bi9518306  1
1996 Palmer DRJ, Gerlt JA. Evolution of enzymatic activities: Multiple pathways for generating and partitioning a common enolic intermediate by glucarate dehydratase from Pseudomonas putida Journal of the American Chemical Society. 118: 10323-10324. DOI: 10.1021/ja962126v  1
1996 Sargent AL, Rollog ME, Almlöf JE, Gassman PG, Gerlt JA. Enzyme-catalyzed enolization reactions: A theoretical study on the energetics of concerted and stepwise pathways Journal of Molecular Structure: Theochem. 388: 145-159.  1
1995 Kallarakal AT, Mitra B, Kozarich JW, Gerlt JA, Clifton JG, Petsko GA, Kenyon GL. Mechanism of the reaction catalyzed by mandelate racemase: structure and mechanistic properties of the K166R mutant. Biochemistry. 34: 2788-97. PMID 7893690  1
1995 Mitra B, Kallarakal AT, Kozarich JW, Gerlt JA, Clifton JG, Petsko GA, Kenyon GL. Mechanism of the reaction catalyzed by mandelate racemase: importance of electrophilic catalysis by glutamic acid 317. Biochemistry. 34: 2777-87. PMID 7893689  1
1995 Babbitt PC, Mrachko GT, Hasson MS, Huisman GW, Kolter R, Ringe D, Petsko GA, Kenyon GL, Gerlt JA. A functionally diverse enzyme superfamily that abstracts the alpha protons of carboxylic acids. Science (New York, N.Y.). 267: 1159-61. PMID 7855594  1
1995 Kenyon GL, Gerlt JA, Petsko GA, Kozarich JW. Mandelate Racemase: Structure-Function Studies of a Pseudosymmetric Enzyme Accounts of Chemical Research. 28: 178-186.  1
1994 Landro JA, Gerlt JA, Kozarich JW, Koo CW, Shah VJ, Kenyon GL, Neidhart DJ, Fujita S, Petsko GA. The role of lysine 166 in the mechanism of mandelate racemase from Pseudomonas putida: mechanistic and crystallographic evidence for stereospecific alkylation by (R)-alpha-phenylglycidate. Biochemistry. 33: 635-43. PMID 8292591  1
1994 Gerlt JA. Protein engineering to study enzyme catalytic mechanisms Current Opinion in Structural Biology. 4: 593-600. DOI: 10.1016/S0959-440X(94)90223-2  1
1993 Hale SP, Poole LB, Gerlt JA. Mechanism of the reaction catalyzed by staphylococcal nuclease: identification of the rate-determining step. Biochemistry. 32: 7479-87. PMID 8338846  1
1993 Petsko GA, Kenyon GL, Gerlt JA, Ringe D, Kozarich JW. On the origin of enzymatic species. Trends in Biochemical Sciences. 18: 372-6. PMID 8256284 DOI: 10.1016/0968-0004(93)90091-Z  1
1993 Mitra B, Gerlt JA, Babbitt PC, Koo CW, Kenyon GL, Joseph D, Petsko GA. A novel structural basis for membrane association of a protein: construction of a chimeric soluble mutant of (S)-mandelate dehydrogenase from Pseudomonas putida. Biochemistry. 32: 12959-67. PMID 8241149  1
1993 Gerlt JA, Gassman PG. Understanding the rates of certain enzyme-catalyzed reactions: proton abstraction from carbon acids, acyl-transfer reactions, and displacement reactions of phosphodiesters. Biochemistry. 32: 11943-52. PMID 8218268  1
1993 Gerlt JA, Gassman PG. An explanation for rapid enzyme-catalyzed proton abstraction from carbon acids: Importance of late transition states in concerted mechanisms Journal of the American Chemical Society. 115: 11552-11568.  1
1992 Gerlt JA. 3 Phosphate Ester Hydrolysis Enzymes. 20: 95-139. DOI: 10.1016/S1874-6047(08)60021-9  1
1992 Gerlt JA, Kenyon GL, Kozarich JW, Neidhart DJ, Petsko GA, Powers VM. Mandelate racemase and class-related enzymes Current Opinion in Structural Biology. 2: 736-742. DOI: 10.1016/0959-440X(92)90209-P  1
1992 Gerlt JA, Gassman PG. Understanding enzyme-catalyzed proton abstraction from carbon acids: Details of stepwise mechanisms for β-elimination reactions Journal of the American Chemical Society. 114: 5928-5934.  1
1991 Baldisseri DM, Torchia DA, Poole LB, Gerlt JA. Deletion of the omega-loop in the active site of staphylococcal nuclease. 2. Effects on protein structure and dynamics. Biochemistry. 30: 3628-33. PMID 2015220  1
1991 Poole LB, Loveys DA, Hale SP, Gerlt JA, Stanczyk SM, Bolton PH. Deletion of the omega-loop in the active site of staphylococcal nuclease. 1. Effect on catalysis and stability. Biochemistry. 30: 3621-7. PMID 2015219  1
1991 Ammon HL, Prasad SM, Gerlt JA. Structure of thialysine hydrochloride. Acta Crystallographica. Section C, Crystal Structure Communications. 47: 1476-8. PMID 1930822 DOI: 10.1107/S0108270190012835  1
1991 Withka JM, Wilde JA, Bolton PH, Mazumder A, Gerlt JA. Characterization of conformational features of DNA heteroduplexes containing aldehydic abasic sites. Biochemistry. 30: 9931-40. PMID 1911785  1
1991 Landro JA, Kallarakal AT, Ransom SC, Gerlt JA, Kozarich JW, Neidhart DJ, Kenyon GL. Mechanism of the reaction catalyzed by mandelate racemase. 3. Asymmetry in reactions catalyzed by the H297N mutant. Biochemistry. 30: 9274-81. PMID 1909893  1
1991 Neidhart DJ, Howell PL, Petsko GA, Powers VM, Li RS, Kenyon GL, Gerlt JA. Mechanism of the reaction catalyzed by mandelate racemase. 2. Crystal structure of mandelate racemase at 2.5-A resolution: identification of the active site and possible catalytic residues. Biochemistry. 30: 9264-73. PMID 1892834  1
1991 Powers VM, Koo CW, Kenyon GL, Gerlt JA, Kozarich JW. Mechanism of the reaction catalyzed by mandelate racemase. 1. Chemical and kinetic evidence for a two-base mechanism. Biochemistry. 30: 9255-63. PMID 1892833  1
1991 Mazumder A, Gerlt JA, Absalon MJ, Stubbe J, Cunningham RP, Withka J, Bolton PH. Stereochemical studies of the beta-elimination reactions at aldehydic abasic sites in DNA: endonuclease III from Escherichia coli, sodium hydroxide, and Lys-Trp-Lys. Biochemistry. 30: 1119-26. PMID 1846560  1
1990 Tsou AY, Ransom SC, Gerlt JA, Buechter DD, Babbitt PC, Kenyon GL. Mandelate pathway of Pseudomonas putida: sequence relationships involving mandelate racemase, (S)-mandelate dehydrogenase, and benzoylformate decarboxylase and expression of benzoylformate decarboxylase in Escherichia coli. Biochemistry. 29: 9856-62. PMID 2271624  1
1990 Neidhart DJ, Kenyon GL, Gerlt JA, Petsko GA. Mandelate racemase and muconate lactonizing enzyme are mechanistically distinct and structurally homologous. Nature. 347: 692-4. PMID 2215699 DOI: 10.1038/347692a0  1
1990 Pourmotabbed T, Dell'Acqua M, Gerlt JA, Stanczyk SM, Bolton PH. Kinetic and conformational effects of lysine substitutions for arginines 35 and 87 in the active site of staphylococcal nuclease. Biochemistry. 29: 3677-83. PMID 2111164  1
1990 Neidhart DC, Howell PL, Petsko GA, Gerlt JA, Kozarich JW, Powers VM, Kenyon GL. Restructuring catalysis in the mandelate pathway. Biochemical Society Symposium. 57: 135-41. PMID 2099737  1
1989 Hibler DW, Harpold L, Dell'Acqua M, Pourmotabbed T, Gerlt JA, Wilde JA, Bolton PH. Isotopic labeling with hydrogen-2 and carbon-13 to compare conformations of proteins and mutants generated by site-directed mutagenesis, I. Methods in Enzymology. 177: 74-86. PMID 2691847 DOI: 10.1016/0076-6879(89)77006-3  1
1989 Wilde JA, Bolton PH, Hibler DW, Harpold L, Pourmotabbed T, Dell'Acqua M, Gerlt JA. Isotopic labeling with hydrogen-2 and carbon-13 to compare conformations of proteins and mutants generated by site-directed mutagenesis, II. Methods in Enzymology. 177: 282-92. PMID 2607983 DOI: 10.1016/0076-6879(89)77016-6  1
1989 Serpersu EH, Hibler DW, Gerlt JA, Mildvan AS. Kinetic and magnetic resonance studies of the glutamate-43 to serine mutant of staphylococcal nuclease. Biochemistry. 28: 1539-48. PMID 2566322  1
1989 Tsou AY, Ransom SC, Gerlt JA, Powers VM, Kenyon GL. Selection and characterization of a mutant of the cloned gene for mandelate racemase that confers resistance to an affinity label by greatly enhanced production of enzyme. Biochemistry. 28: 969-75. PMID 2496759  1
1989 Manoharan M, Ransom SC, Mazumder A, Gerlt JA. Site-specific 13C labeling of DNA to deduce DNA repair mechanisms of uracil-DNA glycosylase and UV endonuclease V Nucleosides and Nucleotides. 8: 879-883. DOI: 10.1080/07328318908054235  1
1989 Mazumder A, Gerlt JA, Rabow L, Absalon MJ, Stubbe J, Bolton PH. UV endonuclease V from bacteriophage T4 catalyzes DNA strand cleavage at aldehydic abasic sites by a syn β-elimination reaction Journal of the American Chemical Society. 111: 8029-8030.  1
1989 Stanczyk SM, Bolton PH, Dell'Acqua M, Gerlt JA. Observation and sequence assignment of a cis prolyl peptide bond in unliganded staphylococcal nuclease Journal of the American Chemical Society. 111: 8317-8318.  1
1989 Wilde JA, Bolton PH, Mazumder A, Manoharan M, Gerlt JA. Characterization of the equilibrating forms of the aldehydic abasic site in duplex DNA by 17O NMR Journal of the American Chemical Society. 111: 1894-1896.  1
1988 Neidhart DJ, Powers VM, Kenyon GL, Tsou AY, Ransom SC, Gerlt JA, Petsko GA. Preliminary x-ray data on crystals of mandelate racemase. The Journal of Biological Chemistry. 263: 9268-70. PMID 3132459  1
1988 Holland MM, Leib TK, Gerlt JA. Isolation and characterization of a small catalytic domain released from the adenylate cyclase from Escherichia coli by digestion with trypsin. The Journal of Biological Chemistry. 263: 14661-8. PMID 3049583  1
1988 Wilde JA, Bolton PH, Dell'Acqua M, Hibler DW, Pourmotabbed T, Gerlt JA. Identification of residues involved in a conformational change accompanying substitutions for glutamate-43 in staphylococcal nuclease. Biochemistry. 27: 4127-32. PMID 2843224  1
1988 Ransom SC, Gerlt JA, Powers VM, Kenyon GL. Cloning, DNA sequence analysis, and expression in Escherichia coli of the gene for mandelate racemase from Pseudomonas putida. Biochemistry. 27: 540-5. PMID 2831968  1
1988 Stanczyk SM, Bolton PH, Dell'Acqua M, Pourmotabbed T, Gerlt JA. Direct observation of multiple environments for the Hδ but not the Hε proton of a histidine residue in staphylococcal nuclease Journal of the American Chemical Society. 110: 7908-7910.  1
1988 Manoharan M, Ransom SC, Mazumder A, Gerlt JA, Wilde JA, Withka JA, Bolton PH. The characterization of abasic sites in DNA heteroduplexes by site specific labeling with 13C Journal of the American Chemical Society. 110: 1620-1622.  1
1988 Manoharan M, Mazumder A, Ransom SC, Gerlt JA, Bolton PH. Mechanism of UV endonuclease V cleavage of abasic sites in DNA determined by 13C labeling Journal of the American Chemical Society. 110: 2690-2691.  1
1987 Hibler DW, Stolowich NJ, Reynolds MA, Gerlt JA, Wilde JA, Bolton PH. Site-directed mutants of staphylococcal nuclease. Detection and localization by 1H NMR spectroscopy of conformational changes accompanying substitutions for glutamic acid-43. Biochemistry. 26: 6278-86. PMID 2891375  1
1987 Manoharan M, Gerlt JA, Wilde JA, Withka JM, Bolton PH. Coexistence of conformations in a DNA heteroduplex revealed by site specific labeling with 13C-labeled nucleotides Journal of the American Chemical Society. 109: 7217-7219.  1
1987 Gerlt JA. Relationships between enzymatic catalysis and active site structure revealed by applications of site-directed mutagenesis Chemical Reviews. 87: 1079-1105.  1
1986 Wilde JA, Bolton PH, Stolowich NJ, Gerlt JA. A method for the observation of selected proton NMR resonances of proteins Journal of Magnetic Resonance (1969). 68: 168-171. DOI: 10.1016/0022-2364(86)90327-6  1
1986 Rabow L, Stubbe J, Kozarich JW, Gerlt JA. Identification of the alkaline-labile product accompanying cytosine release during bleomycin-mediated degradation of d(CGCGCG) Journal of the American Chemical Society. 108: 7130-7131.  1
1985 Calderon RO, Stolowich NJ, Gerlt JA, Sturtevant JM. Thermal denaturation of staphylococcal nuclease. Biochemistry. 24: 6044-9. PMID 3910087  1
1985 Takahara M, Hibler DW, Barr PJ, Gerlt JA, Inouye M. The ompA signal peptide directed secretion of Staphylococcal nuclease A by Escherichia coli. The Journal of Biological Chemistry. 260: 2670-4. PMID 2982833  1
1984 Mehdi S, Gerlt JA. Syntheses and configurational analyses of thymidine 4-nitrophenyl [17O,18O]phosphates and the stereochemical course of a reaction catalyzed by bovine pancreatic deoxyribonuclease I. Biochemistry. 23: 4844-52. PMID 6498163  1
1984 Petersheim M, Mehdi S, Gerlt JA. A general procedure for assigning the 31P spectra of nucleic acids Journal of the American Chemical Society. 106: 439-440.  1
1983 Leib TK, Gerlt JA. Evidence for a small catalytic domain in the adenylate cyclase from Salmonella typhimurium. The Journal of Biological Chemistry. 258: 12982-7. PMID 6313684  1
1983 Gerlt JA, Coderre JA, Mehdi S. Oxygen chiral phosphate esters. Advances in Enzymology and Related Areas of Molecular Biology. 55: 291-380. PMID 6312782  1
1983 Mehdi S, Coderre JA, Gerlt JA. Oxygen chiral phosphodiesters-8. Stereochemical course of the base-catalyzed hydrolysis of cyclic 2'-deoxyadenosine 3',5'-[17O, 18O]monophosphate Tetrahedron. 39: 3483-3492. DOI: 10.1016/S0040-4020(01)88658-0  1
1983 Petersheim M, Miner VW, Gerlt JA, Prestegard JH. 17O NMR as a probe of nucleic acid dynamics Journal of the American Chemical Society. 105: 6357-6358.  1
1982 Mehdi S, Gerlt JA. Oxygen chiral phosphodiesters. 7. Stereochemical course of a reaction catalyzed by staphylococcal nuclease Journal of the American Chemical Society. 104: 3223-3225.  1
1982 Gerlt JA, Demou PC, Mehdi S. 17O NMR spectral properties of simple phosphate esters and adenine nucleotides Journal of the American Chemical Society. 104: 2848-2856.  1
1981 Mehdi S, Gerlt JA. Stereochemical course of the hydrolysis of thymidine 5'-(4-nitrophenyl [17O,18O]phosphate) in H216O catalyzed by the phosphodiesterase from snake venom. The Journal of Biological Chemistry. 256: 12164-6. PMID 6271775  1
1981 Coderre JA, Mehdi S, Demou PC, Weber R, Traficante DD, Gerlt JA. Oxygen chiral phosphodiesters. 3. Use of 17O NMR spectroscopy to demonstrate configurational differences in the diastereomers of cyclic 2′-deoxyadenosine 3′,5′-[17O,18O]monophosphate Journal of the American Chemical Society. 103: 1870-1872.  1
1981 Mehdi S, Gerlt JA. Oxygen chiral phosphodiesters. 5. Stereochemical course of the hydrolysis of thymidine 3′-[(4-nitrophenyl)[17O,18O]phosphate] in H2 16O catalyzed by the exonuclease from bovine spleen Journal of the American Chemical Society. 103: 7018-7020.  1
1981 Coderre JA, Mehdi S, Gerlt JA. Oxygen chiral phosphodiesters. 4. Stereochemical course of the hydrolysis of 2′-deoxyadenosine 3′,5′-[17O,18O]monophosphate in H2 16O catalyzed by bovine heart cyclic nucleotide phosphodiesterase Journal of the American Chemical Society. 103: 1872-1875.  1
1980 Gerlt JA, Coderre JA, Wolin MS. Mechanism of the adenylate cyclase reaction. Stereochemistry of the reaction catalyzed by the enzyme from Brevibacterium liquefaciens. The Journal of Biological Chemistry. 255: 331-4. PMID 6243273  1
1980 Gerlt JA, Coderre JA. Oxygen chiral phosphodiesters. 1. Synthesis and configurational analysis of cyclic [18O]-2′-deoxyadenosine 3′,5′-monophosphate [11] Journal of the American Chemical Society. 102: 4531-4533.  1
1980 Coderre JA, Gerlt JA. Oxygen chiral phosphodiesters. 2. Enzymatic synthesis and configurational analysis of [α-18O]-2′-deoxyadenosine 5′-diphosphate [27] Journal of the American Chemical Society. 102: 6594-6597.  1
1980 Gerlt JA, Gutterson NI, Drews RE, Sokolow JA. Conformational properties of 5-alkoxy and 5-alkyl substituted trimethylene phosphates in solution Journal of the American Chemical Society. 102: 1665-1670.  1
1980 Gerlt JA, Chodosh DF, Drews RE, Adams RD. Crystal and molecular structure of 5-ethoxytrimethylenephosphoric acid Journal of Organic Chemistry. 45: 1282-1286.  1
1980 Marsh FJ, Weiner P, Douglas JE, Kollman PA, Kenyon GL, Gerlt JA. Theoretical calculations on the geometric destabilization of 3′,5′- and 2′,3′-cyclic nucleotides Journal of the American Chemical Society. 102: 1660-1665.  1
1975 Gerlt JA, Westheimer FH, Sturtevant JM. The enthalpies of hydrolysis of acyclic, monocyclic, and glycoside cyclic phosphate diesters. The Journal of Biological Chemistry. 250: 5059-67. PMID 168198  1
1973 Gerlt JA, Westheimer FH. Letter: A phosphodiesterase from Enterobacter aerogenes. Journal of the American Chemical Society. 95: 8166-8. PMID 4357681  1
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