Exploring and exploiting allostery: Models, evolution, and drug targeting.
暂无分享,去创建一个
[1] M. Perutz. Species adaptation in a protein molecule. , 1983, Molecular biology and evolution.
[2] Max F. Perutz,et al. Hemoglobin as a receptor of drugs and peptides: x-ray studies of the stereochemistry of binding , 1986 .
[3] T. Yonetani,et al. Protein dynamics explain the allosteric behaviors of hemoglobin. , 2008, Biochimica et biophysica acta.
[4] R. G. Kemp,et al. Identification of allosteric sites in rabbit phosphofructo-1-kinase. , 1999, Biochemistry.
[5] S. Schmidl,et al. Regulatory Protein Phosphorylation in Mycoplasma pneumoniae , 2006, Journal of Biological Chemistry.
[6] W. Rocque,et al. Human recombinant phosphodiesterase 4B2B binds (R)-rolipram at a single site with two affinities. , 1997, Biochemistry.
[7] A. Estévez,et al. Creation of an Allosteric Phosphofructokinase Starting with a Nonallosteric Enzyme , 2002, The Journal of Biological Chemistry.
[8] T. Kenakin. Ligand Detection in the Allosteric World , 2010, Journal of biomolecular screening.
[9] J. Hofrichter,et al. Delay time of hemoglobin S polymerization prevents most cells from sickling in vivo. , 1987, Science.
[10] P. Reichard. Ribonucleotide reductases: the evolution of allosteric regulation. , 2002, Archives of biochemistry and biophysics.
[11] L. Altucci,et al. RAR and RXR modulation in cancer and metabolic disease , 2007, Nature Reviews Drug Discovery.
[12] T. Schwartz,et al. Allosteric enhancers, allosteric agonists and ago-allosteric modulators: where do they bind and how do they act? , 2007, Trends in pharmacological sciences.
[13] R. G. Kemp,et al. Evolution of the allosteric ligand sites of mammalian phosphofructo-1-kinase. , 2002, Biochemistry.
[14] S. Peroutka. 5‐Hydroxytryptamine Receptors , 1993, Journal of neurochemistry.
[15] R. Heinrikson,et al. Evolution of phosphofructokinase—gene duplication and creation of new effector sites , 1984, Nature.
[16] Aron W Fenton,et al. Allostery: an illustrated definition for the 'second secret of life'. , 2008, Trends in biochemical sciences.
[17] Olivier Lichtarge,et al. Evolution-guided discovery and recoding of allosteric pathway specificity determinants in psychoactive bioamine receptors , 2010, Proceedings of the National Academy of Sciences.
[18] E. Henry,et al. A tertiary two-state allosteric model for hemoglobin. , 2002, Biophysical chemistry.
[19] M Karplus,et al. A Dynamic Model for the Allosteric Mechanism of GroEL , 2000 .
[20] Tom L. Blundell,et al. Keynote review: Structural biology and drug discovery , 2005 .
[21] S N Vinogradov,et al. Nonvertebrate hemoglobins: functions and molecular adaptations. , 2001, Physiological reviews.
[22] A. Mozzarelli,et al. Allosteric regulation of tryptophan synthase: effects of pH, temperature, and alpha-subunit ligands on the equilibrium distribution of pyridoxal 5'-phosphate-L-serine intermediates. , 1996, Biochemistry.
[23] A. Mozzarelli,et al. Oxygen Delivery via Allosteric Effectors of Hemoglobin and Blood Substitutes , 2010 .
[24] G. Reinhart,et al. Disentangling the web of allosteric communication in a homotetramer: heterotropic inhibition in phosphofructokinase from Escherichia coli. , 2004, Biochemistry.
[25] R D Young,et al. Protein states and proteinquakes. , 1985, Proceedings of the National Academy of Sciences of the United States of America.
[26] K. Gersonde,et al. Heterotropic allosterism of monomeric haemoglobins of Chironomus thummi thummi. , 1972, European journal of biochemistry.
[27] I. Schlichting,et al. Tryptophan synthase, an allosteric molecular factory. , 2008, Current opinion in chemical biology.
[28] O. Martínez-Costa,et al. Subunit Interactions and Composition of the Fructose 6-Phosphate Catalytic Site and the Fructose 2,6-Bisphosphate Allosteric Site of Mammalian Phosphofructokinase* , 2009, Journal of Biological Chemistry.
[29] D. Dryden,et al. Allostery without conformational change , 1984, European Biophysics Journal.
[30] Y Van de Peer,et al. Globins in nonvertebrate species: dispersal by horizontal gene transfer and evolution of the structure-function relationships. , 1996, Molecular biology and evolution.
[31] R. Nussinov,et al. Allostery: absence of a change in shape does not imply that allostery is not at play. , 2008, Journal of molecular biology.
[32] M Karplus,et al. Mechanism of tertiary structural change in hemoglobin. , 1977, Proceedings of the National Academy of Sciences of the United States of America.
[33] M. Paoli,et al. Crystal structure of T state haemoglobin with oxygen bound at all four haems. , 1996, Journal of molecular biology.
[34] B. Ganem. RNA world , 1987, Nature.
[35] P B Sigler,et al. GroEL/GroES: structure and function of a two-stroke folding machine. , 1998, Journal of structural biology.
[36] G G Dodson,et al. Human deoxyhaemoglobin-2,3-diphosphoglycerate complex low-salt structure at 2.5 A resolution. , 1993, Journal of molecular biology.
[37] A. Mozzarelli,et al. Cooperative Oxygen Binding to Scapharca inaequivalvis Hemoglobin in the Crystal (*) , 1996, The Journal of Biological Chemistry.
[38] U. Sauer,et al. Metabolic Flux Ratio Analysis of Genetic and Environmental Modulations of Escherichia coli Central Carbon Metabolism , 1999, Journal of bacteriology.
[39] J. Thornton,et al. The structural basis of allosteric regulation in proteins , 2009, FEBS letters.
[40] Heung-Shick Lee,et al. Characteristics of methionine production by an engineered Corynebacterium glutamicum strain. , 2007, Metabolic engineering.
[41] William A. Eaton,et al. The relationship between coding sequences and function in haemoglobin , 1980, Nature.
[42] Dan V. Nicolau,et al. Conformational Spread as a Mechanism for Cooperativity in the Bacterial Flagellar Switch , 2010, Science.
[43] John Kuriyan,et al. Protein-protein interactions in the allosteric regulation of protein kinases. , 2006, Current opinion in structural biology.
[44] N. Shibayama,et al. Asymmetric cyanomet valency hybrid hemoglobin, (alpha+CN-beta+CN-)(alpha beta): the issue of valency exchange. , 1998, Biochemistry.
[45] J. Friedman,et al. Ordered water molecules as key allosteric mediators in a cooperative dimeric hemoglobin. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[46] K. Volz,et al. A Distinct Meta-active Conformation in the 1.1-Å Resolution Structure of Wild-type ApoCheY* , 2001, The Journal of Biological Chemistry.
[47] Donald J. Abraham,et al. Burger's medicinal chemistry, drug discovery, and development , 2010 .
[48] J. Changeux,et al. Allosteric receptors after 30 years , 1998, Neuron.
[49] Bryan L Roth,et al. G-protein-coupled receptors at a glance , 2003, Journal of Cell Science.
[50] S. Benkovic,et al. Evolution of protein function by domain swapping. , 2000, Advances in protein chemistry.
[51] M. Hackert,et al. Evolution of cooperativity in hemoglobins: what can invertebrate hemoglobins tell us? , 1998, The Journal of experimental zoology.
[52] W. Eaton,et al. New insights into allosteric mechanisms from trapping unstable protein conformations in silica gels. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[53] J. Monod,et al. Teleonomic mechanisms in cellular metabolism, growth, and differentiation. , 1961, Cold Spring Harbor symposia on quantitative biology.
[54] A. Mozzarelli,et al. Identification of the Geometric Requirements for Allosteric Communication between the α- and β-Subunits of Tryptophan Synthase* , 2005, Journal of Biological Chemistry.
[55] A. Horwich,et al. Structure and function in GroEL-mediated protein folding. , 1998, Annual review of biochemistry.
[56] D. Koshland,et al. Comparison of experimental binding data and theoretical models in proteins containing subunits. , 1966, Biochemistry.
[57] N. Goodey,et al. Allosteric regulation and catalysis emerge via a common route. , 2008, Nature chemical biology.
[58] Jie Yuan,et al. Achieving Optimal Growth through Product Feedback Inhibition in Metabolism , 2010, PLoS Comput. Biol..
[59] J. Ferrer,et al. Amino acid biosynthesis: new architectures in allosteric enzymes. , 2008, Plant physiology and biochemistry : PPB.
[60] Jeffrey J. Gray,et al. Allosteric Communication Occurs via Networks of Tertiary and Quaternary Motions in Proteins , 2009, PLoS Comput. Biol..
[61] R R Breaker,et al. Rational design of allosteric ribozymes. , 1997, Chemistry & biology.
[62] Stefan Reuss,et al. Neuroglobin and cytoglobin in search of their role in the vertebrate globin family. , 2005, Journal of inorganic biochemistry.
[63] A. Riggs,et al. Oxygenation properties of hemoglobin from the earthworm, Lumbricus terrestris. Effects of pH, salts, and temperature. , 1986, The Journal of biological chemistry.
[64] O. Martínez-Costa,et al. Electron microscopy analysis of mammalian phosphofructokinase reveals an unusual 3‐dimensional structure with significant implications for enzyme function , 2010, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.
[65] R L Jernigan,et al. Cooperative fluctuations and subunit communication in tryptophan synthase. , 1999, Biochemistry.
[66] E. Henry,et al. Crystals of haemoglobin with the T quaternary structure bind oxygen noncooperatively with no Bohr effect , 1991, Nature.
[67] L. Johnson,et al. Structural mechanism for glycogen phosphorylase control by phosphorylation and AMP. , 1992, Journal of molecular biology.
[68] P. Reichard. Ribonucleotide reductases: substrate specificity by allostery. , 2010, Biochemical and biophysical research communications.
[69] A. Goldhammer,et al. Phosphofructokinase: structure and function. , 1979, Current topics in cellular regulation.
[70] J. W. Wong,et al. Allosteric Disulfide Bonds , 2006 .
[71] Arthur Christopoulos,et al. Allosteric modulators of GPCRs: a novel approach for the treatment of CNS disorders , 2009, Nature Reviews Drug Discovery.
[72] D. Abraham,et al. High–resolution crystal structure of deoxy hemoglobin complexed with a potent allosteric effector , 2000, Protein science : a publication of the Protein Society.
[73] M. Perutz. Stereochemistry of Cooperative Effects in Haemoglobin: Haem–Haem Interaction and the Problem of Allostery , 1970, Nature.
[74] Amnon Horovitz,et al. Allosteric regulation of chaperonins. , 2005, Current opinion in structural biology.
[75] Max F. Perutz,et al. Mechanisms of Cooperativity and Allosteric Regulation in Proteins , 1990 .
[76] T. Burmester,et al. The respiratory proteins of insects. , 2007, Journal of insect physiology.
[77] R. Dumas,et al. Allosteric activation of Arabidopsis threonine synthase by S-adenosylmethionine. , 1998, Biochemistry.
[78] T. Malliavin,et al. Use of allostery to identify inhibitors of calmodulin-induced activation of Bacillus anthracis edema factor , 2010, Proceedings of the National Academy of Sciences.
[79] T. Smithgall,et al. Allosteric loss-of-function mutations in HIV-1 Nef from a long-term non-progressor. , 2007, Journal of molecular biology.
[80] Laurence J. Miller,et al. Seven Transmembrane Receptors as Shapeshifting Proteins: The Impact of Allosteric Modulation and Functional Selectivity on New Drug Discovery , 2010, Pharmacological Reviews.
[81] B. Santamaría,et al. Identification of C-terminal motifs responsible for transmission of inhibition by ATP of mammalian phosphofructokinase, and their contribution to other allosteric effects. , 2004, The Biochemical journal.
[82] J. Changeux,et al. ON THE NATURE OF ALLOSTERIC TRANSITIONS: A PLAUSIBLE MODEL. , 1965, Journal of molecular biology.
[83] A. Pardee,et al. Beginnings of feedback inhibition, allostery, and multi-protein complexes. , 2003, Gene.
[84] A. Mozzarelli,et al. T State Hemoglobin Binds Oxygen Noncooperatively with Allosteric Effects of Protons, Inositol Hexaphosphate, and Chloride* , 1997, The Journal of Biological Chemistry.
[85] G. Reinhart,et al. Disentangling the web of allosteric communication in a homotetramer: heterotropic inhibition of phosphofructokinase from Bacillus stearothermophilus. , 2004, Biochemistry.
[86] Marc Ostermeier,et al. Creation of an allosteric enzyme by domain insertion. , 2004, Journal of molecular biology.
[87] John Kuriyan,et al. The origin of protein interactions and allostery in colocalization , 2007, Nature.
[88] E. Henry,et al. Evolution of allosteric models for hemoglobin , 2007, IUBMB life.
[89] Lila M Gierasch,et al. The changing landscape of protein allostery. , 2006, Current opinion in structural biology.
[90] K N Sheth,et al. Purification of serine racemase: biosynthesis of the neuromodulator D-serine. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[91] Zhou Yu,et al. The induction of folding cooperativity by ligand binding drives the allosteric response of tetracycline repressor , 2009, Proceedings of the National Academy of Sciences.
[92] A. Mozzarelli,et al. Tryptophan synthase: a mine for enzymologists , 2009, Cellular and Molecular Life Sciences.
[93] J. Wells,et al. Searching for new allosteric sites in enzymes. , 2004, Current opinion in structural biology.
[94] B. Sullivan,et al. Elasmobranch hemoglobins: dimerization and polymerization in various species. , 1975, Comparative biochemistry and physiology. B, Comparative biochemistry.
[95] Marc Ostermeier,et al. Engineering allosteric protein switches by domain insertion. , 2005, Protein engineering, design & selection : PEDS.
[96] F. Uckun,et al. Dawn of non-nucleoside inhibitor-based anti-HIV microbicides. , 2006, The Journal of antimicrobial chemotherapy.
[97] L. Pauling,et al. The Oxygen Equilibrium of Hemoglobin and Its Structural Interpretation. , 1935, Proceedings of the National Academy of Sciences of the United States of America.
[98] R. Switzer,et al. The genetic and functional basis of purine nucleotide feedback-resistant phosphoribosylpyrophosphate synthetase superactivity. , 1995, The Journal of clinical investigation.
[99] Timothy Hagen,et al. Design of phosphodiesterase 4D (PDE4D) allosteric modulators for enhancing cognition with improved safety , 2010, Nature Biotechnology.
[100] R. Ebright,et al. Dynamically driven protein allostery , 2006, Nature Structural &Molecular Biology.
[101] C. Ho,et al. How much do we know about the Bohr effect of hemoglobin? , 1987, Biochemistry.
[102] V. Biou,et al. Allosteric Threonine Synthase , 2006, Journal of Biological Chemistry.
[103] M. Brunori,et al. Cooperative free energies for nested allosteric models as applied to human hemoglobin. , 1986, Biophysical Journal.
[104] Kiyohiro Imai,et al. Global Allostery Model of Hemoglobin , 2002, The Journal of Biological Chemistry.
[105] E. Henry,et al. Allosteric effectors do not alter the oxygen affinity of hemoglobin crystals , 1997, Protein science : a publication of the Protein Society.
[106] D. Thirumalai,et al. Allostery wiring diagrams in the transitions that drive the GroEL reaction cycle. , 2009, Journal of molecular biology.
[107] X. Daura,et al. Assessing the structural conservation of protein pockets to study functional and allosteric sites: implications for drug discovery , 2010, BMC Structural Biology.
[108] Reinhard Pahl,et al. Allosteric action in real time: Time-resolved crystallographic studies of a cooperative dimeric hemoglobin , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[109] I. Schlichting,et al. Loop closure and intersubunit communication in tryptophan synthase. , 1998, Biochemistry.
[110] D. Davies,et al. Crystal structures of a mutant (betaK87T) tryptophan synthase alpha2beta2 complex with ligands bound to the active sites of the alpha- and beta-subunits reveal ligand-induced conformational changes. , 1997, Biochemistry.
[111] H. Winkler,et al. Reduction of ribonucleotides by the obligate intracytoplasmic bacterium Rickettsia prowazekii , 1991, Journal of bacteriology.
[112] D. Herschlag,et al. Rescue of abasic hammerhead ribozymes by exogenous addition of specific bases. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[113] R. Nussinov,et al. Is allostery an intrinsic property of all dynamic proteins? , 2004, Proteins.
[114] M. Ostermeier,et al. Ligand binding and allostery can emerge simultaneously , 2007, Protein science : a publication of the Protein Society.
[115] M. Brunori. Hemoglobin is an honorary enzyme. , 1999, Trends in biochemical sciences.
[116] Gerard J Kleywegt,et al. Limitations and lessons in the use of X-ray structural information in drug design , 2008, Drug Discovery Today.
[117] K. Lowe,et al. Circular dichroism spectroscopy of tertiary and quaternary conformations of human hemoglobin entrapped in wet silica gels , 2006, Protein science : a publication of the Protein Society.
[118] Andrea Mozzarelli,et al. Is cooperative oxygen binding by hemoglobin really understood? , 1999, Nature Structural Biology.
[119] N. Shibayama,et al. Fixation of the quaternary structures of human adult haemoglobin by encapsulation in transparent porous silica gels. , 1995, Journal of molecular biology.
[120] R. Nussinov,et al. The origin of allosteric functional modulation: multiple pre-existing pathways. , 2009, Structure.
[121] J. Changeux,et al. Allosteric Mechanisms of Signal Transduction , 2005, Science.
[122] J. Wyman,et al. LINKED FUNCTIONS AND RECIPROCAL EFFECTS IN HEMOGLOBIN: A SECOND LOOK. , 1964, Advances in protein chemistry.
[123] M Karplus,et al. A mathematical model for structure-function relations in hemoglobin. , 1972, Journal of molecular biology.
[124] E. W. Miles. Tryptophan synthase: a multienzyme complex with an intramolecular tunnel. , 2001, Chemical record.
[125] Philip R. Evans,et al. Structural basis of the allosteric behaviour of phosphofructokinase , 1990, Nature.
[126] V. Guallar,et al. A quantum-chemical picture of hemoglobin affinity , 2007, Proceedings of the National Academy of Sciences.
[127] R. Breaker,et al. Regulation of bacterial gene expression by riboswitches. , 2005, Annual review of microbiology.
[128] J. Zorn,et al. Turning enzymes ON with small molecules. , 2010, Nature chemical biology.
[129] Patrice Soumillion,et al. Selection of allosteric β‐lactamase mutants featuring an activity regulation by transition metal ions , 2006 .
[130] E. Henry,et al. Oxygen binding by single crystals of hemoglobin. , 1993, Biochemistry.
[131] V. Biou,et al. Crystal structure of threonine synthase from Arabidopsis thaliana , 2001, Protein science : a publication of the Protein Society.
[132] J. Changeux,et al. The feedback control mechanisms of biosynthetic L-threonine deaminase by L-isoleucine. , 1961, Cold Spring Harbor symposia on quantitative biology.
[133] Engineering Allosteric Regulation into Biological Catalysts , 2009, Chembiochem : a European journal of chemical biology.
[134] R. G. Kemp,et al. Role of Ser530, Arg292, and His662 in the allosteric behavior of rabbit muscle phosphofructokinase. , 2002, Biochemical and biophysical research communications.
[135] J. Kavanaugh,et al. Crystallographic evidence for a new ensemble of ligand-induced allosteric transitions in hemoglobin: the T-to-T(high) quaternary transitions. , 2005, Biochemistry.
[136] A. Sinskey,et al. A C-terminal deletion in Corynebacterium glutamicum homoserine dehydrogenase abolishes allosteric inhibition by L-threonine. , 1991, Gene.
[137] Alessio Amadasi,et al. Pyridoxal 5'-phosphate enzymes as targets for therapeutic agents. , 2007, Current medicinal chemistry.
[138] S. Nabuurs,et al. PRPS1 mutations: four distinct syndromes and potential treatment. , 2010, American journal of human genetics.
[139] V. Mack,et al. The Structure of Mammalian Serine Racemase , 2010, The Journal of Biological Chemistry.
[140] M. Karplus,et al. Allostery and cooperativity revisited , 2008, Protein science : a publication of the Protein Society.
[141] B. Hwang,et al. Methionine biosynthesis and its regulation in Corynebacterium glutamicum: parallel pathways of transsulfuration and direct sulfhydrylation , 2003, Applied Microbiology and Biotechnology.
[142] J. Vincent,et al. Evolution and cell biology of dopamine receptors in vertebrates , 2003, Biology of the cell.
[143] D. Abraham,et al. 5‐hydroxymethyl‐2‐furfural modifies intracellular sickle haemoglobin and inhibits sickling of red blood cells †,‡ , 2005, British journal of haematology.
[144] N. Shibayama,et al. Reexamination of the hyper thermodynamic stability of asymmetric cyanomet valency hybrid hemoglobin, (alpha+CN-beta+CN-)(alpha beta): no preferentially populating asymmetric hybrid at equilibrium. , 1997, Biochemistry.
[145] W. Royer,et al. Crystal structure of the hemoglobin dodecamer from Lumbricus erythrocruorin: allosteric core of giant annelid respiratory complexes. , 2004, Journal of molecular biology.
[146] M. Becker. Phosphoribosylpyrophosphate synthetase and the regulation of phosphoribosylpyrophosphate production in human cells. , 2001, Progress in nucleic acid research and molecular biology.
[147] F. Spyrakis,et al. Allosteric communication between alpha and beta subunits of tryptophan synthase: modelling the open-closed transition of the alpha subunit. , 2006, Biochimica et biophysica acta.
[148] G. K. Ackers,et al. Asymmetric Cooperativity in a Symmetric Tetramer: Human Hemoglobin* , 2006, Journal of Biological Chemistry.
[149] Elizabeth H C Bromley,et al. Synthetic biology through biomolecular design and engineering. , 2008, Current opinion in structural biology.
[150] W. Lipscomb,et al. Coevolution of transcriptional and allosteric regulation at the chorismate metabolic branch point of Saccharomyces cerevisiae. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[151] A. Horovitz,et al. Review: allostery in chaperonins. , 2001, Journal of structural biology.
[152] K. Mizuguchi,et al. A novel mechanism of allosteric regulation of archaeal phosphoenolpyruvate carboxylase: a combined approach to structure-based alignment and model assessment. , 2006, Protein engineering, design & selection : PEDS.
[153] A. Mozzarelli,et al. High and low oxygen affinity conformations of T state hemoglobin , 2001, Protein science : a publication of the Protein Society.