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alexg's enzyme [54 articles]

Recent papers added to alexg's library classified by the tag enzyme. You can also see everyone's enzyme.
  • Synthesis and function of membrane phosphoinositides in budding yeast, Saccharomyces cerevisiae.
    Biochim Biophys Acta, Vol. 1771, No. 3. (March 2007), pp. 353-404.
    by T Strahl, J Thorner
    posted to enzyme regulation by alexg on 2007-10-01 05:48:40 as **
  • The global transcriptional regulatory network for metabolism in Escherichia coli exhibits few dominant functional states.
    Proc Natl Acad Sci U S A, Vol. 102, No. 52. (27 December 2005), pp. 19103-19108.
    by CL Barrett, CD Herring, JL Reed, BO Palsson
    posted to enzyme metabolism net_paper regulation by alexg on 2006-05-22 06:55:33 as ** along with 3 people heliopais madhadron comb
  • BRENDA, the enzyme database: updates and major new developments.
    Nucleic Acids Res, Vol. 32, No. Database issue. (1 January 2004)
    by I Schomburg, A Chang, C Ebeling, M Gremse, C Heldt, G Huhn, D Schomburg
    posted to database enzyme net_paper by alexg on 2006-05-22 06:45:41 as ** along with 4 people and 2 groups sim82 jberro helliontroy shung biomedical-nlp Projet_ENSIMAG
  • How enzymes work: analysis by modern rate theory and computer simulations.
    Science, Vol. 303, No. 5655. (9 January 2004), pp. 186-195.
    by M Garcia-Viloca, J Gao, M Karplus, DG Truhlar
    posted to catalysis enzyme by alexg on 2006-01-05 02:12:42 as ***** along with 3 people BragilMassoud baaden tny
  • Second-sphere electrostatic effects in the active site of glutathione S-transferase. Observation of an on-face hydrogen bond between the side chain of threonine 13 and the .pi.-cloud of tyrosine 6 and its influence on catalysis
    Journal of the American Chemical Society, Vol. 115, No. 17. (1993), pp. 7910-7911.
    by Suxing Liu, Xinhua Ji, Gary L Gilliland, Walter J Stevens, Richard N Armstrong
    posted to catalysis enzyme protein_structure by alexg on 2005-11-03 11:03:02 as read
  • Transition state stabilization by general acid catalysis, water expulsion, and enzyme reorganization in Medicago savita chalcone isomerase.
    Proc Natl Acad Sci U S A, Vol. 101, No. 9. (2 March 2004), pp. 2730-2735.
    by S Hur, ZE Newby, TC Bruice
    posted to catalysis enzyme protein_structure by alexg on 2005-11-01 17:18:30 as *****
  • Enzymes do what is expected (chalcone isomerase versus chorismate mutase).
    J Am Chem Soc, Vol. 125, No. 6. (12 February 2003), pp. 1472-1473.
    by S Hur, TC Bruice
    posted to catalysis enzyme by alexg on 2005-11-01 17:09:47 as **
  • Role of hydrogen bonds in the reaction mechanism of chalcone isomerase.
    Biochemistry, Vol. 41, No. 16. (23 April 2002), pp. 5168-5176.
    by JM Jez, ME Bowman, JP Noel
    posted to catalysis enzyme hydrogen_bonds pka protein_structure by alexg on 2005-11-01 17:07:57 as read
  • Structural basis of perturbed pKa values of catalytic groups in enzyme active sites.
    IUBMB Life, Vol. 53, No. 2. (February 2002), pp. 85-98.
    by TK Harris, GJ Turner
    posted to catalysis enzyme pka protein_structure by alexg on 2005-10-27 15:27:36 as read
  • On the magnitude and specificity of medium effects in enzyme-like catalysts for proton transfer.
    J Org Chem, Vol. 66, No. 17. (24 August 2001), pp. 5866-5874.
    by F Hollfelder, AJ Kirby, DS Tawfik
    posted to catalysis enzyme hydrophobic_effects by alexg on 2005-10-27 15:22:04 as read
  • Constructing an enzyme-centric view of metabolism.
    Bioinformatics, Vol. 20, No. 13. (1 September 2004), pp. 2050-2055.
    by AB Horne, TC Hodgman, HD Spence, AR Dalby
    posted to enzyme metabolism networks by alexg on 2005-10-24 15:12:37 as ** along with 2 people eweaver tny
  • Metabolic networks: enzyme function and metabolite structure
    Current Opinion in Structural Biology, Vol. 14, No. 3. (June 2004), pp. 300-306.
    by Vassily Hatzimanikatis, Chunhui Li, Justin A Ionita, Linda J Broadbelt
    posted to enzyme metabolism networks by alexg on 2005-10-24 15:12:08 as ** along with 3 people kuhn eweaver tny
  • Pathway evolution, structurally speaking.
    Curr Opin Struct Biol, Vol. 12, No. 3. (June 2002), pp. 374-382.
    by SC Rison, JM Thornton
    posted to enzyme evolution pathways by alexg on 2005-10-24 15:11:11 as ** along with 3 people kuhn eweaver bluto
  • Network analysis of metabolic enzyme evolution in Escherichia coli.
    BMC Bioinformatics, Vol. 5 (18 February 2004)
    by S Light, P Kraulis
    posted to enzyme evolution metabolism networks by alexg on 2005-10-24 14:38:59 as ** along with 6 people and 1 group kuhn eweaver tny azuma livingthingdan pekrau livingthing
  • Computational assignment of the EC numbers for genomic-scale analysis of enzymatic reactions.
    J Am Chem Soc, Vol. 126, No. 50. (22 December 2004), pp. 16487-16498.
    by M Kotera, Y Okuno, M Hattori, S Goto, M Kanehisa
    posted to ec_classification enzyme by alexg on 2005-10-24 14:35:50 as ** along with 3 people BragilMassoud eweaver koerner
  • Analysis and prediction of the location of catalytic residues in enzymes.
    Protein Eng, Vol. 2 (1988), pp. 127-38.
    by MJ Zvelebil, MJ Sternberg
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • A novel combination of two classic catalytic schemes.
    J Mol Biol, Vol. 320 (2002)
    by A Shaw, R Bott, C Vonrhein, G Bricogne, S Power, AG Day
    posted to catalysis enzyme templates by alexg on 2005-10-24 10:52:49 as read
  • The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data.
    Nucleic Acids Res, Vol. 32 Database issue (2004), pp. D129-33.
    by CT Porter, GJ Bartlett, JM Thornton
    posted to csa enzyme by alexg on 2005-10-24 10:52:49 as read
  • Prediction of catalytic residues in enzymes based on known tertiary structure, stability profile, and sequence conservation.
    J Mol Biol, Vol. 327 (2003)
    by M Ota, K Kinoshita, K Nishikawa
    posted to enzyme functional_prediction by alexg on 2005-10-24 10:52:49 as read
  • THEMATICS: a simple computational predictor of enzyme function from structure.
    Proc Natl Acad Sci U S A, Vol. 98 (2001), pp. 12473-8.
    by MJ Ondrechen, JG Clifton, D Ringe
    posted to enzyme functional_prediction pka by alexg on 2005-10-24 10:52:49 as read
  • Calculating pKa values in enzyme active sites.
    Protein Sci, Vol. 12 (2003), pp. 1894-901.
    by JE Nielsen, JA Mccammon
    posted to enzyme pka by alexg on 2005-10-24 10:52:49 as read
  • The (beta/alpha)(8) glycosidases: sequence and structure analyses suggest distant evolutionary relationships.
    Protein Eng, Vol. 14 (2001), pp. 845-55.
    by N Nagano, CT Porter, JM Thornton
    posted to enzyme evolution by alexg on 2005-10-24 10:52:49 as read
  • Orbital steering in the catalytic power of enzymes: small structural changes with large catalytic consequences.
    Science, Vol. 277 (1997), pp. 202-6.
    by AD Mesecar, BL Stoddard, DE Koshland
    posted to catalysis conformational_change enzyme by alexg on 2005-10-24 10:52:49 as read
  • Protein clefts in molecular recognition and function.
    Protein Sci, Vol. 5 (1996), pp. 2438-52.
    by RA Laskowski, NM Luscombe, MB Swindells, JM Thornton
    posted to enzyme protein_structure by alexg on 2005-10-24 10:52:49 as read
  • Challenges in enzyme mechanism and energetics.
    Annu Rev Biochem, Vol. 72 (2003), pp. 517-71.
    by DA Kraut, KS Carroll, D Herschlag
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • Conformational changes: how small is big enough?
    Nat Med, Vol. 4 (1998), pp. 1112-4.
    by DE Koshland
    posted to catalysis conformational_change enzyme by alexg on 2005-10-24 10:52:49 as read
  • Enzyme catalysis: not different, just better.
    Nature, Vol. 350 (1991), pp. 121-4.
    by JR Knowles
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • Correlation of structure and function in enzyme action.
    Science, Vol. 142 (1963), pp. 1533-41.
    by DE Koshland
    posted to catalysis enzyme protein_structure by alexg on 2005-10-24 10:52:49 as read
  • Anatomy of a conformational change: hinged "lid" motion of the triosephosphate isomerase loop.
    Science, Vol. 249 (1990), pp. 1425-8.
    by D Joseph, GA Petsko, M Karplus
    posted to catalysis conformational_change enzyme protein_structure by alexg on 2005-10-24 10:52:49 as read
  • Serine protease mechanism and specificity.
    Chem Rev, Vol. 102 (2002), pp. 4501-24.
    by L Hedstrom
    posted to enzyme serine_proteases by alexg on 2005-10-24 10:52:49 as read
  • Multiple conformational changes in enzyme catalysis.
    Biochemistry, Vol. 41 (2002), pp. 8221-8.
    by GG Hammes
    posted to catalysis conformational_change enzyme protein_structure by alexg on 2005-10-24 10:52:49 as read
  • Divergent evolution of enzymatic function: mechanistically diverse superfamilies and functionally distinct suprafamilies.
    Annu Rev Biochem, Vol. 70 (2001), pp. 209-46.
    by JA Gerlt, PC Babbitt
    posted to enzyme evolution protein_structure by alexg on 2005-10-24 10:52:49 as read
  • Prediction of functionally important residues based solely on the computed energetics of protein structure
    J Mol Biol, Vol. 312 (2001), pp. 885-896.
    by AH Elcock
    posted to enzyme functional_prediction by alexg on 2005-10-24 10:52:49 as read
  • Enzyme dynamics during catalysis.
    Science, Vol. 295 (2002), pp. 1520-3.
    by EZ Eisenmesser, DA Bosco, M Akke, D Kern
    posted to dynamics enzyme by alexg on 2005-10-24 10:52:49 as read
  • Low-barrier hydrogen bonds and enzymic catalysis.
    Science, Vol. 264 (1994), pp. 1887-90.
    by WW Cleland, MM Kreevoy
    posted to catalysis enzyme hydrogen_bonds by alexg on 2005-10-24 10:52:49 as read
  • Hydrogen tunneling in enzyme reactions.
    Science, Vol. 243 (1989), pp. 1325-30.
    by Y Cha, CJ Murray, JP Klinman
    posted to catalysis enzyme quantum_mechanics by alexg on 2005-10-24 10:52:49 as read
  • A perspective on biological catalysis.
    Nat Struct Biol, Vol. 3 (1996), pp. 821-33.
    by WR Cannon, SF Singleton, SJ Benkovic
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • The development of mechanistic enzymology in the 20th century.
    Nat Prod Rep, Vol. 18 (2001), pp. 465-93.
    by TD Bugg
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • Chemical basis for enzyme catalysis.
    Biochemistry, Vol. 39 (2000), pp. 6267-74.
    by TC Bruice, SJ Benkovic
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • So do we understand how enzymes work?
    Structure Fold Des, Vol. 8 (2000), pp. R77-81.
    by D Blow
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • Structure of hen egg-white lysozyme. A three-dimensional Fourier synthesis at 2 Angstrom resolution.
    Nature, Vol. 206 (1965), pp. 757-61.
    by CC Blake, DF Koenig, GA Mair, AC North, DC Phillips, VR Sarma
    posted to crystallography enzyme historic protein_structure by alexg on 2005-10-24 10:52:49 as read
  • A perspective on enzyme catalysis.
    Science, Vol. 301 (2003), pp. 1196-202.
    by SJ Benkovic, Hammes S Schiffer
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • Catalysing new reactions during evolution: economy of residues and mechanism.
    J Mol Biol, Vol. 331 (2003), pp. 829-60.
    by GJ Bartlett, N Borkakoti, JM Thornton
    posted to catalysis enzyme evolution by alexg on 2005-10-24 10:52:49 as read
  • Analysis of Catalytic Residues in Enzyme Active Sites
    J Mol Biol, Vol. 324 (2002), pp. 105-121.
    by GJ Bartlett, CT Porter, N Borkakoti, JM Thornton
    posted to catalysis csa enzyme by alexg on 2005-10-24 10:52:49 as read
  • Energetics of enzyme catalysis. I. Isotopic experiments, enzyme interconversion, and oversaturation.
    J Theor Biol, Vol. 124 (1987), pp. 137-71.
    by WJ Albery, JR Knowles
    posted to catalysis enzyme historic by alexg on 2005-10-24 10:52:49 as read
  • Energetics of enzyme catalysis. II. Oversaturation, case diagrams, reversible and irreversible behaviour.
    J Theor Biol, Vol. 124 (1987), pp. 173-89.
    by WJ Albery, JR Knowles
    posted to catalysis enzyme historic by alexg on 2005-10-24 10:52:49 as read
  • Free-energy profile of the reaction catalyzed by triosephosphate isomerase.
    Biochemistry, Vol. 15 (1976), pp. 5627-31.
    by WJ Albery, JR Knowles
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • Evolution of enzyme function and the development of catalytic efficiency.
    Biochemistry, Vol. 15 (1976), pp. 5631-40.
    by WJ Albery, JR Knowles
    posted to catalysis enzyme by alexg on 2005-10-24 10:52:49 as read
  • Network of coupled promoting motions in enzyme catalysis.
    Proc Natl Acad Sci U S A, Vol. 99 (2002), pp. 2794-9.
    by PK Agarwal, SR Billeter, PT Rajagopalan, SJ Benkovic, Hammes S Schiffer
    posted to catalysis dynamics enzyme by alexg on 2005-10-24 10:52:49 as read
  • Using a library of structural templates to recognise catalytic sites and explore their evolution in homologous families.
    J Mol Biol, Vol. 347, No. 3. (1 April 2005), pp. 565-581.
    by JW Torrance, GJ Bartlett, CT Porter, JM Thornton
    posted to annotation csa enzyme functional_prediction protein_structure by alexg on 2005-10-24 10:32:26 as read along with 4 people and 1 group jwm chrn Einat gbart structural_bioinformatics
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