JOHN GERLT

Summary

Affiliation: University of Illinois
Country: USA

Publications

  1. pmc The Enzyme Function Initiative
    John A Gerlt
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 50:9950-62. 2011
  2. pmc Divergent evolution in enolase superfamily: strategies for assigning functions
    John A Gerlt
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    J Biol Chem 287:29-34. 2012
  3. pmc A gold standard set of mechanistically diverse enzyme superfamilies
    Shoshana D Brown
    Department of Biopharmaceutical Sciences, University of California, 1700 4th Street, San Francisco, San Francisco, CA 94143 2550, USA
    Genome Biol 7:R8. 2006
  4. ncbi request reprint A Protein Structure (or Function ?) Initiative
    John A Gerlt
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, IL 61801, USA
    Structure 15:1353-6. 2007
  5. pmc Enzyme (re)design: lessons from natural evolution and computation
    John A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, 61801, United States
    Curr Opin Chem Biol 13:10-8. 2009
  6. ncbi request reprint Divergent evolution in the enolase superfamily: the interplay of mechanism and specificity
    John A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, IL 61801, USA
    Arch Biochem Biophys 433:59-70. 2005
  7. ncbi request reprint Divergent evolution of enzymatic function: mechanistically diverse superfamilies and functionally distinct suprafamilies
    J A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, Illinois 61801, USA
    Annu Rev Biochem 70:209-46. 2001
  8. pmc Can sequence determine function?
    J A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, IL 61801, USA
    Genome Biol 1:REVIEWS0005. 2000
  9. ncbi request reprint Mechanistically diverse enzyme superfamilies: the importance of chemistry in the evolution of catalysis
    J A Gerlt
    Department of Biochemistry, University of Illinois at Urbana Champaign 61801, USA
    Curr Opin Chem Biol 2:607-12. 1998
  10. ncbi request reprint Understanding enzymic catalysis: the importance of short, strong hydrogen bonds
    J A Gerlt
    Department of Biochemistry, University of Illinois, 600 South Mathews Avenue, Urbana, IL 61801, USA
    Chem Biol 4:259-67. 1997

Collaborators

Detail Information

Publications57

  1. pmc The Enzyme Function Initiative
    John A Gerlt
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 50:9950-62. 2011
    ....
  2. pmc Divergent evolution in enolase superfamily: strategies for assigning functions
    John A Gerlt
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    J Biol Chem 287:29-34. 2012
    ..We describe strategies for assigning functions to members of the enolase superfamily that should be applicable to other superfamilies...
  3. pmc A gold standard set of mechanistically diverse enzyme superfamilies
    Shoshana D Brown
    Department of Biopharmaceutical Sciences, University of California, 1700 4th Street, San Francisco, San Francisco, CA 94143 2550, USA
    Genome Biol 7:R8. 2006
    ..The gold standard set represents four fold classes and differing clustering difficulties, and includes five superfamilies, 91 families, 4,887 sequences and 282 structures...
  4. ncbi request reprint A Protein Structure (or Function ?) Initiative
    John A Gerlt
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, IL 61801, USA
    Structure 15:1353-6. 2007
  5. pmc Enzyme (re)design: lessons from natural evolution and computation
    John A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, 61801, United States
    Curr Opin Chem Biol 13:10-8. 2009
    ..This review summarizes recent progress in evolution-based and computation-based (re)design...
  6. ncbi request reprint Divergent evolution in the enolase superfamily: the interplay of mechanism and specificity
    John A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, IL 61801, USA
    Arch Biochem Biophys 433:59-70. 2005
    ..In this minireview, our current understanding of structure/function relationships in the divergent members of the superfamily is reviewed, and the use of this knowledge for our future studies is proposed...
  7. ncbi request reprint Divergent evolution of enzymatic function: mechanistically diverse superfamilies and functionally distinct suprafamilies
    J A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, Illinois 61801, USA
    Annu Rev Biochem 70:209-46. 2001
    ....
  8. pmc Can sequence determine function?
    J A Gerlt
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, IL 61801, USA
    Genome Biol 1:REVIEWS0005. 2000
    ....
  9. ncbi request reprint Mechanistically diverse enzyme superfamilies: the importance of chemistry in the evolution of catalysis
    J A Gerlt
    Department of Biochemistry, University of Illinois at Urbana Champaign 61801, USA
    Curr Opin Chem Biol 2:607-12. 1998
    ..Recent work supports a strategy in which a partial reaction, catalyzed by a progenitor, is retained, and the active-site architecture is modified to allow the intermediate generated to be directed to different products...
  10. ncbi request reprint Understanding enzymic catalysis: the importance of short, strong hydrogen bonds
    J A Gerlt
    Department of Biochemistry, University of Illinois, 600 South Mathews Avenue, Urbana, IL 61801, USA
    Chem Biol 4:259-67. 1997
    ..Here, we defend this proposal and provide evidence for likely changes of hydrogen bond strengths during enzymic catalysis...
  11. ncbi request reprint Evolutionary potential of (beta/alpha)8-barrels: in vitro enhancement of a "new" reaction in the enolase superfamily
    Jacob E Vick
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 44:11722-9. 2005
    ..These observations support our hypothesis that evolution of "new" functions in the enolase superfamily can occur simply by changes in specificity-determining residues...
  12. ncbi request reprint Evolutionary potential of (beta/alpha)8-barrels: functional promiscuity produced by single substitutions in the enolase superfamily
    Dawn M Z Schmidt
    Departments of Biochemistry and Chemistry, 419 Roger Adams Laboratory, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 42:8387-93. 2003
    ....
  13. ncbi request reprint 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
    Vadim A Klenchin
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53705, USA
    Biochemistry 42:14427-33. 2003
    ..The epsilon-ammonium group of Lys 235 forms a cation-pi interaction with the cyclohexadienyl moiety of SHCHC, suggesting that Lys 235 also stabilizes the enediolate anion intermediate in the syn dehydration via a similar interaction...
  14. ncbi request reprint Evolutionary potential of (beta/alpha)8-barrels: stepwise evolution of a "new" reaction in the enolase superfamily
    Jacob E Vick
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 S Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 46:14589-97. 2007
    ....
  15. ncbi request reprint Evolution of function in the crotonase superfamily: (3S)-methylglutaconyl-CoA hydratase from Pseudomonas putida
    Brian J Wong
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 43:4646-54. 2004
    ....
  16. ncbi request reprint Evolution of enzymatic activity in the enolase superfamily: functional studies of the promiscuous o-succinylbenzoate synthase from Amycolatopsis
    Erika A Taylor Ringia
    Departments of Biochemistry and Chemistry, University of Illinois, Urbana, IL 61801, USA
    Biochemistry 43:224-9. 2004
    ....
  17. ncbi request reprint 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
    Eric L Wise
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
    Biochemistry 44:1816-23. 2005
    ....
  18. ncbi request reprint Prediction and assignment of function for a divergent N-succinyl amino acid racemase
    Ling Song
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Nat Chem Biol 3:486-91. 2007
    ..These studies establish that ligand docking to a homology model can facilitate functional assignment of unknown proteins by restricting the identities of the possible substrates that must be experimentally tested...
  19. ncbi request reprint Obituary: Frank H. Westheimer (1912-2007)
    John A Gerlt
    John A Gerlt is in the Departments of Biochemistry and Chemistry, University of Illinois, 600 South Mathews Avenue, Urbana, Illinois 61801
    Nature 447:543. 2007
  20. ncbi request reprint Evolution of enzymatic activities in the enolase superfamily: D-tartrate dehydratase from Bradyrhizobium japonicum
    Wen Shan Yew
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 45:14598-608. 2006
    ....
  21. ncbi request reprint Evolution of enzymatic activities in the enolase superfamily: L-fuconate dehydratase from Xanthomonas campestris
    Wen Shan Yew
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 45:14582-97. 2006
    ..The functional promiscuity discovered for FucD highlights possible structural mechanisms for evolution of function in the enolase superfamily...
  22. ncbi request reprint 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
    Vadim A Klenchin
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
    Biochemistry 43:10370-8. 2004
    ..M., Hubbard, B. K., and Gerlt, J. A. (2001) Biochemistry 40, 15707-15715]. These studies provide important new information about the structural bases for substrate specificity in the enolase superfamily...
  23. pmc Evolution of enzymatic activities in the enolase superfamily: L-rhamnonate dehydratase
    John F Rakus
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 47:9944-54. 2008
    ....
  24. pmc Conformational changes in orotidine 5'-monophosphate decarboxylase: "remote" residues that stabilize the active conformation
    B McKay Wood
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 49:3514-6. 2010
    ..The intrinsic binding energies of the 5'-phosphate group of orotidine 5'-monophosphate for the mutant enzymes are similar to that for the wild type, supporting this conclusion...
  25. ncbi request reprint Evolution of enzymatic activities in the enolase superfamily: L-talarate/galactarate dehydratase from Salmonella typhimurium LT2
    Wen Shan Yew
    Departments of Biochemistry and Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 46:9564-77. 2007
    ..The promiscuous catalytic activities discovered for STM3697 highlight the evolutionary potential of a "conserved" active site architecture...
  26. ncbi request reprint Evolution of function in (beta/alpha)8-barrel enzymes
    John A Gerlt
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Curr Opin Chem Biol 7:252-64. 2003
    ..Recent work has examined natural, designed, and directed evolution of function in several superfamilies of (beta/alpha)(8)-barrel containing enzymes...
  27. ncbi request reprint Evolution of enzymatic activity in the enolase superfamily: structural studies of the promiscuous o-succinylbenzoate synthase from Amycolatopsis
    James B Thoden
    Department of Chemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 43:5716-27. 2004
    ..Accommodation of the components of the N-acyl linkage appears to be the reason that this enzyme is capable of a racemization reaction on these substrates, whereas the orthologous OSBS from Escherichia coli lacks this functionality...
  28. ncbi request reprint 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
    Wen Shan Yew
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 43:6427-37. 2004
    ..This study further highlights the opportunistic nature of divergent evolution in conscripting the active site of a progenitor to catalyze a mechanistically distinct reaction...
  29. ncbi request reprint 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
    Eric L Wise
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
    Biochemistry 43:6438-46. 2004
    ..These studies further underscore the wide variation in the reaction mechanisms in the OMPDC suprafamily...
  30. pmc Evolution of enzymatic activities in the enolase superfamily: stereochemically distinct mechanisms in two families of cis,cis-muconate lactonizing enzymes
    Ayano Sakai
    Center for Biophysics and Computational Biology, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 48:1445-53. 2009
    ....
  31. pmc Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: effect of solvent viscosity on kinetic constants
    B McKay Wood
    Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Biochemistry 48:5510-7. 2009
    ..e., substrate binding and product dissociation mask the kinetic effects of stabilization of the intermediate by the substituent...
  32. ncbi request reprint D-Ribulose 5-phosphate 3-epimerase: functional and structural relationships to members of the ribulose-phosphate binding (beta/alpha)8-barrel superfamily
    Julie Akana
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 S Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 45:2493-503. 2006
    ..Instead, this "superfamily" may result from assembly from smaller modules, including the conserved phosphate binding motif associated with the C-terminal (beta/alpha)(2)-quarter barrel...
  33. pmc Mechanism of the orotidine 5'-monophosphate decarboxylase-catalyzed reaction: evidence for substrate destabilization
    Kui K Chan
    Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Biochemistry 48:5518-31. 2009
    ..We propose that the differential effects of substitutions for Asp 70 of MtOMPDC on decarboxylation and exchange provide additional evidence for a carbanionic intermediate as well as the involvement of Asp 70 in substrate destabilization...
  34. pmc Structural basis for substrate specificity in phosphate binding (beta/alpha)8-barrels: D-allulose 6-phosphate 3-epimerase from Escherichia coli K-12
    Kui K Chan
    Departments of Biochemistry and Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 47:9608-17. 2008
    ....
  35. pmc Computation-facilitated assignment of the function in the enolase superfamily: a regiochemically distinct galactarate dehydratase from Oceanobacillus iheyensis
    John F Rakus
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 48:11546-58. 2009
    ....
  36. ncbi request reprint 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
    Wen Shan Yew
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    Biochemistry 44:1807-15. 2005
    ..Thus, the (beta/alpha)(8)-barrel fold shared by members of the OMPDC suprafamily appears well-suited for the evolution of new functions...
  37. ncbi request reprint Homologous (beta/alpha)8-barrel enzymes that catalyze unrelated reactions: orotidine 5'-monophosphate decarboxylase and 3-keto-L-gulonate 6-phosphate decarboxylase
    Eric Wise
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
    Biochemistry 41:3861-9. 2002
    ..Accordingly, sequence or structure homology alone cannot be used to infer the functions of new proteins discovered in genome projects...
  38. ncbi request reprint Evolution of enzymatic activities in the enolase superfamily: D-Mannonate dehydratase from Novosphingobium aromaticivorans
    John F Rakus
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 S Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 46:12896-908. 2007
    ....
  39. ncbi request reprint Chemical and enzymatic synthesis of fluorinated-dehydroalanine-containing peptides
    Hao Zhou
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, IL 61801, USA
    Chembiochem 4:1206-15. 2003
    ..Mechanistic investigations showed that fluoride elimination occurred faster than epimerization and at a rate close to that of epimerization of Ala-Ala...
  40. ncbi request reprint 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
    Eric L Wise
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
    Biochemistry 42:12133-42. 2003
    ..This study further demonstrates that multiple unrelated enzyme functions can evolve from a single active site architecture without regard for substrate binding affinity or mechanism...
  41. ncbi request reprint Mechanistic diversity in the RuBisCO superfamily: the "enolase" in the methionine salvage pathway in Geobacillus kaustophilus
    Heidi J Imker
    Departments of Biochemistry and Chemistry, University of Illinois, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 46:4077-89. 2007
    ..e., coordination to an essential Mg2+, but the proton abstraction is catalyzed by a different general base...
  42. ncbi request reprint Divergent function in the crotonase superfamily: an anhydride intermediate in the reaction catalyzed by 3-hydroxyisobutyryl-CoA hydrolase
    Brian J Wong
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    J Am Chem Soc 125:12076-7. 2003
    ..Thus, we conclude that the conserved oxyanion hole in this superfamily can be used to stabilize a variety of anionic intermediates...
  43. ncbi request reprint 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
    Ayano Sakai
    Center for Biophysics and Computational Biology and Department of Biochemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 45:4455-62. 2006
    ..kaustophilus does not encode an OSBS, raising the possibility that the NSAR is a bifunctional enzyme rather than an accidentally promiscuous enzyme...
  44. ncbi request reprint How to find "missing" genes
    John A Gerlt
    Department of Biochemistry, University of Illinois, 415 Roger Adams Laboratory, 600 S Mathews Avenue, Urbana, IL 61801, USA
    Chem Biol 10:1141-2. 2003
    ..Osterman and Begley break down this barrier by demonstrating that comparative analyses of microbial genomes is a powerful strategy for identifying pathway components...
  45. ncbi request reprint Evolution of function in the crotonase superfamily: the stereochemical course of the reaction catalyzed by 2-ketocyclohexanecarboxyl-CoA hydrolase
    Ellen D Eberhard
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    J Am Chem Soc 126:7188-9. 2004
    ....
  46. pmc Utilization of L-ascorbate by Escherichia coli K-12: assignments of functions to products of the yjf-sga and yia-sgb operons
    Wen Shan Yew
    Department of Biochemistry, University of Illinois, Urbana, Illinois 61801, USA
    J Bacteriol 184:302-6. 2002
    ....
  47. ncbi request reprint Evolution of enzyme superfamilies
    Margaret E Glasner
    Department of Biopharmaceutical Sciences, University of California, San Francisco, CA 94143, USA
    Curr Opin Chem Biol 10:492-7. 2006
    ..Understanding how enzyme superfamilies evolve is vital for accurate genome annotation, predicting protein functions, and protein engineering...
  48. ncbi request reprint Mechanisms of protein evolution and their application to protein engineering
    Margaret E Glasner
    Department of Biopharmaceutical Sciences, University of California San Francisco, San Francisco, CA 94143, USA
    Adv Enzymol Relat Areas Mol Biol 75:193-239, xii-xiii. 2007
    ..Future research will determine if application of these principles will lead to a protein engineering methodology governed by predictable rules for designing efficient, novel catalysts...
  49. pmc Dissecting the total transition state stabilization provided by amino acid side chains at orotidine 5'-monophosphate decarboxylase: a two-part substrate approach
    Shonoi A Barnett
    Department of Chemistry, University at Buffalo, SUNY, Buffalo, New York 14260 3000, USA
    Biochemistry 47:7785-7. 2008
    ....
  50. pmc 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
    Tina L Amyes
    Department of Chemistry, University at Buffalo, Buffalo, New York 14260, USA
    J Am Chem Soc 130:1574-5. 2008
  51. ncbi request reprint Evolution of structure and function in the o-succinylbenzoate synthase/N-acylamino acid racemase family of the enolase superfamily
    Margaret E Glasner
    Department of Biopharmaceutical Sciences, University of California, San Francisco, CA 94143, USA
    J Mol Biol 360:228-50. 2006
    ..Finally, a combination of evolutionary, structural, and sequence analyses identified characteristics that might prime proteins, such as Amycolatopsis OSBS/NAAAR, for the evolution of new activities...
  52. ncbi request reprint Structure of D-ribulose 5-phosphate 3-epimerase from Synechocystis to 1.6 A resolution
    Eric L Wise
    Deparment of Biochemistry, University of Wisconsin, Madison, WI 53706, USA
    Acta Crystallogr D Biol Crystallogr 60:1687-90. 2004
    ..The active site is highly similar to those of two previously reported RPEs and provides further evidence for essential catalytic roles for several active-site residues...
  53. ncbi request reprint "Fishing" for the functional proteome
    John A Gerlt
    Nat Biotechnol 20:786-7. 2002
  54. pmc Mechanistic diversity in the RuBisCO superfamily: a novel isomerization reaction catalyzed by the RuBisCO-like protein from Rhodospirillum rubrum
    Heidi J Imker
    Department of Microbiology and Plant Cellular and Molecular Biology Department Plant Molecular Biology Biotechnology Program, The Ohio State University, 484 West 12th Avenue, Columbus, Ohio 43210, USA
    Biochemistry 47:11171-3. 2008
    ..Disruption of the gene encoding the RLP abolishes the ability of R. rubrum to utilize 5'-methylthioadenosine as a sole sulfur source, implicating a new, as-yet-uncharacterized, pathway for sulfur salvage...
  55. doi request reprint Crystal structure and functional assignment of YfaU, a metal ion dependent class II aldolase from Escherichia coli K12
    Dean Rea
    Department of Biological Sciences, University of Warwick, Gibbet Hill Road, Coventry, UK
    Biochemistry 47:9955-65. 2008
    ..Crystal structures suggest these enzymes use an Asp-His intersubunit dyad to activate a metal-bound water or hydroxide for proton transfer during catalysis...
  56. pmc Identification and characterization of a mandelamide hydrolase and an NAD(P)+-dependent benzaldehyde dehydrogenase from Pseudomonas putida ATCC 12633
    Michael J McLeish
    College of Pharmacy, University of Michigan, Ann Arbor, Michigan 48109, USA
    J Bacteriol 185:2451-6. 2003
    ..The mdlY and mdlD genes were isolated and expressed in Escherichia coli, and the purified gene products were characterized as a mandelamide hydrolase and an NAD(P)(+)-dependent benzaldehyde dehydrogenase, respectively...
  57. pmc Product deuterium isotope effect for orotidine 5'-monophosphate decarboxylase: evidence for the existence of a short-lived carbanion intermediate
    Krisztina Toth
    Department of Chemistry, University at Buffalo, Buffalo, New York 14260, USA
    J Am Chem Soc 129:12946-7. 2007

Research Grants25

  1. STRUCTURAL BASES FOR CATALYTIC EFFICIENCY AND SUBSTRATE SPECIFICITY
    John A Gerlt; Fiscal Year: 2010
    ....
  2. GENOMIC ENZYMOLOGY: OMP DECARBOXYLASE SUPRAFAMILY
    JOHN GERLT; Fiscal Year: 2006
    ..4) A structural blueprint for functional diversity in the ((beta/alpha)8-barrel fold will be tested. ..
  3. GENOMIC ENZYMOLOGY: THE ENOLASE SUPERFAMILY
    JOHN GERLT; Fiscal Year: 2006
    ..4) We will test a structural blueprint for functional diversity in the (beta/alpha)7beta-barrel fold by determining whether new functions can be generated by in vitro evolution. ..
  4. STRUCTURAL BASES FOR CATALYTIC EFFICIENCY AND SUBSTRATE SPECIFICITY
    JOHN GERLT; Fiscal Year: 2009
    ....
  5. GENOMIC ENZYMOLOGY: THE CROTONASE SUPERFAMILY
    JOHN GERLT; Fiscal Year: 2003
    ..5) 3-OH Isobutyryl CoA hydrolase (HIBCH) catalyzes hydrolysis of a thioester in valine catabolism. We will study HIBCH so that we can determine whether the reaction proceeds via and enolate anion or an anionic tetrahedral intermediate. ..
  6. GENOMIC ENZYMOLOGY--THE ENOLASE SUPERFAMILY
    JOHN GERLT; Fiscal Year: 2002
    ..Dr. Gerlt and his group will investigate the mechanism of this reaction so that they can better understand the underlying catalytic strategy used by the members of the superfamily. ..