lacI

Summary

Gene Symbol: lacI
Description: lactose-inducible lac operon transcriptional repressor
Alias: ECK0342, JW0336
Species: Escherichia coli str. K-12 substr. MG1655

Top Publications

  1. ncbi The lac repressor
    Mitchell Lewis
    School of Medicine, University of Pennsylvania, 813 Stellar Chance Building, Philadelphia, PA 19104 6059, USA
    C R Biol 328:521-48. 2005
  2. pmc Inferring the in vivo looping properties of DNA
    Leonor Saiz
    Integrative Biological Modeling Laboratory, Computational Biology Program, Memorial Sloan Kettering Cancer Center, 307 East 63rd Street, New York, NY 10021, USA
    Proc Natl Acad Sci U S A 102:17642-5. 2005
  3. pmc Analysis of in-vivo LacR-mediated gene repression based on the mechanics of DNA looping
    Yongli Zhang
    Departments of Chemistry and Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America
    PLoS ONE 1:e136. 2006
  4. pmc lac repressor mutants with double or triple exchanges in the recognition helix bind specifically to lac operator variants with multiple exchanges
    J Sartorius
    Institut für Genetik der Universität zu Köln, FRG
    EMBO J 8:1265-70. 1989
  5. pmc Mutants that make more lac repressor
    B Müller-Hill
    Proc Natl Acad Sci U S A 59:1259-64. 1968
  6. ncbi Crystal structure of the lactose operon repressor and its complexes with DNA and inducer
    M Lewis
    Johnson Research Foundation, University of Pennsylvania, Philadelphia 19104, USA
    Science 271:1247-54. 1996
  7. ncbi The function of auxiliary operators
    B Müller-Hill
    Institut fur Genetik, Universitat zu Koln, Germany
    Mol Microbiol 29:13-8. 1998
  8. pmc Plasticity in protein-DNA recognition: lac repressor interacts with its natural operator 01 through alternative conformations of its DNA-binding domain
    Charalampos G Kalodimos
    Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, NL 3584 CH Utrecht, The Netherlands
    EMBO J 21:2866-76. 2002
  9. pmc Feedback regulation in the lactose operon: a mathematical modeling study and comparison with experimental data
    Necmettin Yildirim
    Centre for Nonlinear Dynamics, McGill University, Montreal, Quebec, Canada H4X 2C1
    Biophys J 84:2841-51. 2003
  10. ncbi Multistability in the lactose utilization network of Escherichia coli
    Ertugrul M Ozbudak
    Department of Physics, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Nature 427:737-40. 2004

Research Grants

  1. MOLECULAR INTERACTION IN T4 DNA REPLICATION COMPLEX
    PETER VON HIPPEL; Fiscal Year: 2003
  2. Structure & Function of Prokaryotic Transcript Cleavage
    Sergei Borukhov; Fiscal Year: 2005
  3. Molecular mechanism of DNA-polymerase choice in vivo
    Susan Rosenberg; Fiscal Year: 2007
  4. DNA REPAIR IN DRUG RESISTANCE MUTATION
    Susan Rosenberg; Fiscal Year: 2003
  5. BIOSYNTHESIS OF VITAMIN B12 AND ANAEROBIC METABOLISM
    John Roth; Fiscal Year: 2004
  6. Mechanisms of Adaptive Amplification
    Philip J Hastings; Fiscal Year: 2010
  7. GENETIC CONTROL OF NITRATE RESPIRATION IN E. COLI
    Valley J Stewart; Fiscal Year: 2010

Scientific Experts

Detail Information

Publications115 found, 100 shown here

  1. ncbi The lac repressor
    Mitchell Lewis
    School of Medicine, University of Pennsylvania, 813 Stellar Chance Building, Philadelphia, PA 19104 6059, USA
    C R Biol 328:521-48. 2005
    ..The structures of lac repressor, bound to its operator and inducer, have also been invaluable for interpreting a plethora of biochemical and genetic data...
  2. pmc Inferring the in vivo looping properties of DNA
    Leonor Saiz
    Integrative Biological Modeling Laboratory, Computational Biology Program, Memorial Sloan Kettering Cancer Center, 307 East 63rd Street, New York, NY 10021, USA
    Proc Natl Acad Sci U S A 102:17642-5. 2005
    ..These unexpected results can confer to the physical properties of DNA a more prominent role at shaping the properties of gene regulation than previously thought...
  3. pmc Analysis of in-vivo LacR-mediated gene repression based on the mechanics of DNA looping
    Yongli Zhang
    Departments of Chemistry and Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, United States of America
    PLoS ONE 1:e136. 2006
    ....
  4. pmc lac repressor mutants with double or triple exchanges in the recognition helix bind specifically to lac operator variants with multiple exchanges
    J Sartorius
    Institut für Genetik der Universität zu Köln, FRG
    EMBO J 8:1265-70. 1989
    ..Mutations of residues 1 and 2 may be combined with a mutation of residue 6. The resulting mutant protein binds specifically to an operator variant with three symmetric exchanges in base pairs 4, 5 and 6...
  5. pmc Mutants that make more lac repressor
    B Müller-Hill
    Proc Natl Acad Sci U S A 59:1259-64. 1968
  6. ncbi Crystal structure of the lactose operon repressor and its complexes with DNA and inducer
    M Lewis
    Johnson Research Foundation, University of Pennsylvania, Philadelphia 19104, USA
    Science 271:1247-54. 1996
    ..Its key component is the lac repressor, a product of the lacI gene...
  7. ncbi The function of auxiliary operators
    B Müller-Hill
    Institut fur Genetik, Universitat zu Koln, Germany
    Mol Microbiol 29:13-8. 1998
    ..For this purpose, a strategy is used over and over again. It is called increase in local concentration. How Escherichia coli uses this strategy efficiently is discussed...
  8. pmc Plasticity in protein-DNA recognition: lac repressor interacts with its natural operator 01 through alternative conformations of its DNA-binding domain
    Charalampos G Kalodimos
    Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, NL 3584 CH Utrecht, The Netherlands
    EMBO J 21:2866-76. 2002
    ....
  9. pmc Feedback regulation in the lactose operon: a mathematical modeling study and comparison with experimental data
    Necmettin Yildirim
    Centre for Nonlinear Dynamics, McGill University, Montreal, Quebec, Canada H4X 2C1
    Biophys J 84:2841-51. 2003
    ....
  10. ncbi Multistability in the lactose utilization network of Escherichia coli
    Ertugrul M Ozbudak
    Department of Physics, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Nature 427:737-40. 2004
    ..The phase diagram thus serves as a sensitive probe of molecular interactions and as a powerful tool for rational network design...
  11. ncbi Altered specificity in DNA binding by the lac repressor: a mutant lac headpiece that mimics the gal repressor
    Roberto Kopke Salinas
    Department of NMR Spectroscopy, Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584CH Utrecht, The Netherlands
    Chembiochem 6:1628-37. 2005
    ....
  12. ncbi A bottom-up approach to gene regulation
    Nicholas J Guido
    Department of Biomedical Engineering, Bioinformatics Program, Center for BioDynamics and Center for Advanced Biotechnology, Boston University, 44 Cummington Street, Boston, Massachusetts 02215, USA
    Nature 439:856-60. 2006
    ..This work shows that the properties of regulatory subsystems can be used to predict the behaviour of larger, more complex regulatory networks, and that this bottom-up approach can provide insights into gene regulation...
  13. pmc In silico evolved lac operons exhibit bistability for artificial inducers, but not for lactose
    M J A van Hoek
    Theoretical Biology Bioinformatics Group, Utrecht University, Utrecht, The Netherlands
    Biophys J 91:2833-43. 2006
    ..Nevertheless, for engineering purposes, this operon can be used as a bistable switch with artificial inducers...
  14. pmc The effect of stochasticity on the lac operon: an evolutionary perspective
    Milan van Hoek
    Theoretical Biology Bioinformatics Group, Utrecht University, Utrecht, The Netherlands
    PLoS Comput Biol 3:e111. 2007
    ..Moreover, we demonstrate that in silico evolution in a quantitative model, by mutating the parameters of interest, is a promising way to unravel the functional properties of biological systems...
  15. pmc Bistable behavior in a model of the lac operon in Escherichia coli with variable growth rate
    M Santillan
    Unidad Monterrey, Centro de Investigacion y Estudios Avanzados del IPN, Monterrey, Mexico
    Biophys J 94:2065-81. 2008
    ..The results are discussed in regard to the bistable behavior of the lactose operon. Special attention is paid to the effect that a variable growth rate has on the system dynamics...
  16. doi Specificity and affinity of Lac repressor for the auxiliary operators O2 and O3 are explained by the structures of their protein-DNA complexes
    Julija Romanuka
    Bijvoet Center for Biomolecular Research, Utrecht University, The Netherlands
    J Mol Biol 390:478-89. 2009
    ....
  17. pmc SsrA-mediated tagging and proteolysis of LacI and its role in the regulation of lac operon
    T Abo
    Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
    EMBO J 19:3762-9. 2000
    ..COLI: cells. More specifically, we report that the lacI mRNA encoding Lac repressor (LacI) is a specific natural target for trans-translation...
  18. pmc Modeling network dynamics: the lac operon, a case study
    Jose M G Vilar
    The Rockefeller University, 1230 York Avenue, Box 34, New York, NY 10021, USA
    J Cell Biol 161:471-6. 2003
    ..We integrate three different levels of description (molecular, cellular, and that of cell population) into a single model, which seems to capture many experimental aspects of the system...
  19. pmc Modeling the Lac repressor-operator assembly: the influence of DNA looping on Lac repressor conformation
    David Swigon
    Departments of Chemistry and Chemical Biology, Rutgers The State University of New Jersey, Piscataway, NJ 08854, USA
    Proc Natl Acad Sci U S A 103:9879-84. 2006
    ....
  20. ncbi The mechanism of CAP-lac repressor binding cooperativity at the E. coli lactose promoter
    K M Vossen
    Department of Biochemistry and Molecular Biology, Pennsylvania State University College of Medicine, Hershey 17033, USA
    J Mol Biol 255:44-54. 1996
    ..reduced by the removal of DNA located upstream of the CAP binding site or by substitution of the dimeric lacI-18 mutant repressor for the wild-type tetrameric protein...
  21. pmc 5'-Terminal nucleotide sequence of Escherichia coli lactose repressor mRNA: features of translational initiation and reinitiation sites
    D A Steege
    Proc Natl Acad Sci U S A 74:4163-7. 1977
    ..Third, the formation of stable secondary structures predicted for the untranslated I mRNA beyond chain-terminating nonsense mutations may prevent ribosome access to some potential reinitiation sites...
  22. ncbi A model of the lac repressor-operator complex based on physical and genetic data
    B Kisters-Woike
    Institut fur Genetik, Universitat zu Koln, Federal Republic of Germany
    Eur J Biochem 198:411-9. 1991
    ....
  23. ncbi Cloning and characterization of several dominant-negative and tight-binding mutants of lac repressor
    J L Betz
    Gene 42:283-92. 1986
    Using both general recombination and molecular cloning techniques, 13I-, I-d and Itb missense mutations in the lacI gene were transferred from F'lacIq episomes to ColE1 derivative plasmids...
  24. pmc Catabolite repression of the lac operon. The contribution f trascriptional repression
    M D Yudkin
    Biochem J 114:307-11. 1969
    ..It is also concluded that the extent of translational repression varies between strains...
  25. ncbi The nature of lactose operator constitive mutations
    T F Smith
    J Mol Biol 59:273-305. 1971
  26. ncbi Escherichia coli lac repressor-lac operator interaction and the influence of allosteric effectors
    N Horton
    Department of Chemistry, University of Pennsylvania, Philadelphia 19104, USA
    J Mol Biol 265:1-7. 1997
    ..Conversely, the anti-inducer orthonitrophenylfucoside (ONPF) which stabilizes the lac repressor-lac operator complex increases the binding affinity, particularly to the right half of the operator...
  27. ncbi Toggles and oscillators: new genetic circuit designs
    E M Judd
    Department of Applied Physics, Stanford University
    Bioessays 22:507-9. 2000
    ..Further study of the observed behaviors not predicted by the model would lead to new insight into the properties of genetic networks. BioEssays 22:507-509, 2000...
  28. ncbi Structure and flexibility adaptation in nonspecific and specific protein-DNA complexes
    Charalampos G Kalodimos
    Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, Netherlands
    Science 305:386-9. 2004
    ..The protein-DNA interface of the nonspecific complex is flexible on biologically relevant time scales that may assist in the rapid and efficient finding of the target site...
  29. pmc Single-molecule spectroscopic determination of lac repressor-DNA loop conformation
    Michael A Morgan
    Department of Chemistry and Biochemistry, University of Maryland, College Park, MD 20742, USA
    Biophys J 89:2588-96. 2005
    The Escherichia coli lactose repressor protein (LacI) provides a classic model for understanding protein-induced DNA looping. LacI has a C-terminal four-helix bundle tetramerization domain that may act as a flexible hinge...
  30. pmc Structure and function of negative feedback loops at the interface of genetic and metabolic networks
    Sandeep Krishna
    Center for Models of Life, Niels Bohr Institute, Blegdamsvej 17, 2100 Copenhagen, Denmark
    Nucleic Acids Res 34:2455-62. 2006
    ..We use three examples, the bet, mer and lac systems in Escherichia coli, to illustrate the behaviour of such feedback loops...
  31. doi The lac repressor displays facilitated diffusion in living cells
    Petter Hammar
    Department of Cell and Molecular Biology, Science for Life Laboratory, Uppsala University, Uppsala, Sweden
    Science 336:1595-8. 2012
    ..Furthermore, the repressor frequently (>90%) slides over its natural lacO(1) operator several times before binding. This suggests a trade-off between rapid search on nonspecific sequences and fast binding at the specific sequence...
  32. pmc The interaction of the recognition helix of lac repressor with lac operator
    N Lehming
    Institut für Genetik der Universität zu Köln, FRG
    EMBO J 6:3145-53. 1987
    ..The other plasmid carries the gene coding for the repressor, in our case a semisynthetic lacI gene of which parts can be exchanged in a cassette-like manner...
  33. ncbi Lac repressor. Specific proteolytic destruction of the NH 2 -terminal region and loss of the deoxyribonucleic acid-binding activity
    T Platt
    J Biol Chem 248:110-21. 1973
  34. ncbi Mutational inversion of control of the lactose operon of Escherichia coli
    G L Myers
    J Mol Biol 58:1-28. 1971
  35. ncbi Genetic control of catabolite repression of the lac operon in Escherichia coli
    W F Loomis
    Biochem Biophys Res Commun 20:230-4. 1965
  36. ncbi Transposition of the lac region of Escherichia coli. I. Inversion of the lac operon and transduction of lac by phi80
    J R Beckwith
    J Mol Biol 19:254-65. 1966
  37. pmc Fine-tuning function: correlation of hinge domain interactions with functional distinctions between LacI and PurR
    Liskin Swint-Kruse
    Department of Biochemistry and Cell Biology, Rice University, Houston, Texas 77005, USA
    Protein Sci 11:778-94. 2002
    b>LacI and PurR are highly homologous proteins. Their functional units are homodimers, with an N-terminal DNA binding domain that comprises the helix-turn-helix (HTH), N-linker, and hinge regions from both monomers...
  38. ncbi RNA polymerase structure and function at lac operon
    Sergei Borukhov
    Department of Cell Biology, UMDNJ SOM at Stratford, Stratford, NJ 08084, USA
    C R Biol 328:576-87. 2005
    ..by transcription activators, such as cyclic AMP-receptor protein, CRP, and negatively regulated by lac-repressor, LacI. In this review, we discuss the recent progress in structural and biochemical studies of RNAP and its binary and ..
  39. ncbi What is life? The paradigm of DNA and protein cooperation at high local concentrations
    Benno Müller-Hill
    Institute of Genetics, University of Cologne, Zülpicher Str 47, D 50674 Cologne, Germany
    Mol Microbiol 60:253-5. 2006
    ..The examples of Lac and Lambda repressors of Escherichia coli are presented and discussed here as useful paradigms of mechanisms for achieving high local concentrations of interacting protein protomers...
  40. pmc Predicting stochastic gene expression dynamics in single cells
    Jerome T Mettetal
    Department of Physics, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Proc Natl Acad Sci U S A 103:7304-9. 2006
    ..Our results provide a proof of principle for the possibility of faithfully predicting dynamic population distributions from deterministic models supplemented by a stochastic component that captures the major noise sources...
  41. ncbi Mutational spectrum of the lacI gene in Escherichia coli K12 induced by low-energy ion beam
    Ming Li Tang
    Key Laboratory of Ion Beam Bioengineering, Institute of Plasma Physics, Chinese Academy of Sciences, Hefei 230031, PR China
    Mutat Res 602:163-9. 2006
    The mutational spectrum of the genomic lacI gene induced by low-energy nitrogen ion irradiation in wild type Escherichia coli strain W3110 were compared with the spontaneous and the vacuum controls...
  42. doi The diffusive influx and carrier efflux have a strong effect on the bistability of the lac operon in Escherichia coli
    Jason T Noel
    Department of Chemical Engineering, University of Florida, Gainesville, FL 32611 6005, USA
    J Theor Biol 256:14-28. 2009
    ..3) The simulations are in good agreement with the data for isopropyl thiogalactoside (IPTG), but somewhat discrepant with respect to the data for thiomethyl galactoside (TMG). We discuss the potential sources of the discrepancy...
  43. doi Radiation damage to a DNA-binding protein. Combined circular dichroism and molecular dynamics simulation analysis
    S Mazier
    Centre de Biophysique Moleculaire, CNRS, Orleans, France
    Radiat Res 170:604-12. 2008
    ..This conclusion should hold for all proteins containing radiosensitive amino acids in their DNA-binding site...
  44. pmc Facile promoter deletion in Escherichia coli in response to leaky expression of very robust and benign proteins from common expression vectors
    Martin Kawe
    Biochemisches Institut, Universitat Zurich, Winterthurerstrasse 190, CH 8057 Zurich, Switzerland
    Microb Cell Fact 8:8. 2009
    ..Because deletion is so facile, it might impact on high-throughput protein production, e.g. for structural genomics, where not every expression parameter will be monitored...
  45. doi Mimicking the evolution of a thermally stable monomeric four-helix bundle by fusion of four identical single-helix peptides
    Satoshi Akanuma
    Department of Molecular Biology, Tokyo University of Pharmacy and Life Sciences, 1432 1 Horinouchi, Hachioji, Tokyo 192 0392, Japan
    J Biochem 147:371-9. 2010
    ..Moreover, our thermally stable single-chain four-helix bundle protein may provide a robust scaffold for development of new biomaterials...
  46. doi Exploring the sequence-function relationship in transcriptional regulation by the lac O1 operator
    Tuhin S Maity
    Bioscience Division, Los Alamos National Laboratory, Los Alamos, NM 87545, USA
    FEBS J 279:2534-43. 2012
    ..We investigated the behavior of the Escherichia coli Lac repressor (LacI) protein with a large set of lac O(1) operator variants. The 114 variants examined contained a mean of 2...
  47. pmc Pseudoreversion of lactose operator-constitutive mutants
    W I Norwood
    J Bacteriol 130:100-6. 1977
    ....
  48. pmc Permease-specific mutations in Salmonella typhimurium and Escherichia coli that release the glycerol, maltose, melibiose, and lactose transport systems from regulation by the phosphoenolpyruvate:sugar phosphotransferase system
    M H Saier
    J Bacteriol 133:1358-67. 1978
    ....
  49. ncbi Analysis of the regulatory mechanisms controlling the synthesis of the hexitol transport systems in Escherichia coli K12
    J Lengeler
    Mol Gen Genet 164:163-9. 1978
    ..The influence of these regulatory mechanisms in diauxie experiments and their importance for the differentiation of the three operons during evolution from apparently one common ancestor operon will be discussed...
  50. pmc Mutant lac repressors with new specificities hint at rules for protein--DNA recognition
    N Lehming
    Institut fur Genetik, Universitat zu Koln, FRG
    EMBO J 9:615-21. 1990
    ..Rules of recognition can be derived for 16 symmetric operators. They also apply to the gal repressor and possibly to other bacterial repressors...
  51. ncbi Missense mutation in the lacI gene of Escherichia coli. Inferences on the structure of the repressor protein
    A J Gordon
    Biology Department, York University, Toronto, Ontario, Canada
    J Mol Biol 200:239-51. 1988
    ..We have been using the lacI gene-repressor protein system to study the mutational specificity of spontaneous and induced mutation...
  52. ncbi How lac repressor binds to DNA
    K Adler
    Nature 237:322-7. 1972
  53. pmc Mutations partially inactivating the lactose repressor of Escherichia coli
    B Shineberg
    J Bacteriol 119:500-7. 1974
    ..An explanation is proposed for the apparent sensitivity of this repressor function to partial inactivation as the result of amino acid substitutions...
  54. ncbi Sequential transcription and translation in the lactose operon of Escherichia coli
    A Kepes
    Biochim Biophys Acta 138:107-23. 1967
  55. pmc Relationships between the regulation of the lactose and galactose operons of Escherichia coli
    B Williams
    J Bacteriol 97:769-75. 1969
    ..For this operon, the differential rate of enzyme synthesis is set by the relative intracellular concentrations of inducer (fucose) and repressor (isopropylthiogalactoside)...
  56. ncbi Re-initiation of polypeptide synthesis and polarity in the lac operon of Escherichia coli
    A Newton
    J Mol Biol 41:329-39. 1969
  57. ncbi Synthesis, utilization and degradation of lactose operon mRNA in Escherichia coli
    L Leive
    J Mol Biol 24:247-59. 1967
  58. ncbi Lac repressor
    B Müller-Hill
    Angew Chem Int Ed Engl 10:160-72. 1971
  59. ncbi Sequential transcription of the genes of the lactose operon and its regulation by protein synthesis
    D H Alpers
    J Biol Chem 241:4434-43. 1966
  60. ncbi Regulation of the lac operon. Recent studies on the regulation of lactose metabolism in Escherichia coli support the operon model
    J R Beckwith
    Science 156:597-604. 1967
  61. ncbi Synthesis of enzymes of the lactose operon during diauxic growth of Escherichia coli
    W Epstein
    Biochem Biophys Res Commun 24:588-92. 1966
  62. pmc A mutant Ebg enzyme that converts lactose into an inducer of the lac operon
    S J Rolseth
    J Bacteriol 142:1036-9. 1980
    ..We report here the isolation of a mutant Ebg beta-galactosidase which is capable of converting lactose into an inducer of the lac operon...
  63. pmc Transgalactosylation activity of ebg beta-galactosidase synthesizes allolactose from lactose
    B G Hall
    J Bacteriol 150:132-40. 1982
    ..The evolutionary implications of this new function are discussed...
  64. ncbi Genetic studies of the lac repressor. XIV. Analysis of 4000 altered Escherichia coli lac repressors reveals essential and non-essential residues, as well as "spacers" which do not require a specific sequence
    P Markiewicz
    Department of Microbiology and Molecular Genetics, University of California, Los Angeles 90024
    J Mol Biol 240:421-33. 1994
    ..have been used to insert, in series, 12-13 amino acids at positions specified by an amber (UAG) codon in the lacI mRNA...
  65. ncbi Backbone and side chain dynamics of lac repressor headpiece (1-56) and its complex with DNA
    M Slijper
    Bijvoet Center for Biomolecular Research, Utrecht University, The Netherlands
    Biochemistry 36:249-54. 1997
    ..These results suggest that the mobility of the regions within lac HP56 important for complexation, i.e., the loop and the DNA-contacting side chains, is essential for a good fit onto the counterparts of the target DNA...
  66. pmc Hinge-helix formation and DNA bending in various lac repressor-operator complexes
    C A Spronk
    Bijvoet Center for Biomolecular Research, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands
    EMBO J 18:6472-80. 1999
    ....
  67. ncbi Structure of a variant of lac repressor with increased thermostability and decreased affinity for operator
    C E Bell
    The Johnson Foundation and Department of Biochemistry and Biophysics, University of Pennsylvania School of Medicine, 37th and Hamilton Walk, Philadelphia, PA 19102 6059, USA
    J Mol Biol 313:99-109. 2001
    ....
  68. ncbi Perturbation from a distance: mutations that alter LacI function through long-range effects
    Liskin Swint-Kruse
    W M Keck Center for Computational Biology, Rice University, 6100 South Main Street, Houston, Texas 77005, USA
    Biochemistry 42:14004-16. 2003
    Allosteric modification of ligand binding is central to LacI transcription control. Recently, the conformational change between LacI operator- and inducer-bound states was simulated with targeted molecular dynamics (TMD) [Flynn, T. C...
  69. ncbi Structural basis for cooperative DNA binding by CAP and lac repressor
    Alexander Balaeff
    Center for Biophysics and Computational Biology and Beckman Institute, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Structure 12:123-32. 2004
    ..Using the multiscale approach, we build an all-atom model of the ternary complex that suggests a series of further experimental investigations...
  70. ncbi Specificity of spontaneous mutations induced in mutA mutator cells
    Sergey Balashov
    Department of Microbiology and Molecular Genetics, International Center for Public Health, New Jersey Medical School, University of Medicine and Dentistry of New Jersey, 225 Warren Street, Newark, NJ 07101 1709, USA
    Mutat Res 548:9-18. 2004
    ..Here, we have determined the specificity of forward mutations occurring in the lacI gene in mutA cells as well as in wild type cells...
  71. ncbi Biochemistry. Completing the view of transcriptional regulation
    Peter H von Hippel
    Institute of Molecular Biology and Department of Chemistry, University of Oregon, Eugene, OR 97403, USA
    Science 305:350-2. 2004
  72. pmc Adaptive point mutation and adaptive amplification pathways in the Escherichia coli Lac system: stress responses producing genetic change
    Susan M Rosenberg
    Department of Molecular and Human Genetics, Baylor College of Medicine, One Baylor Plaza, BCM S809A Mail Stop BCM225, Houston, TX 77030 3411, USA
    J Bacteriol 186:4838-43. 2004
  73. pmc Rebuttal: adaptive point mutation (Rosenberg and Hastings)
    John R Roth
    University of California Davis, Microbiology Section, One Shields Ave, Davis, CA 95616, USA
    J Bacteriol 186:4844. 2004
  74. pmc Activity of Lac repressor anchored to the Escherichia coli inner membrane
    Boris Görke
    Institut fur Biologie III, Universität Freiburg Schänzlestrasse 1, D 79104 Freiburg, Germany
    Nucleic Acids Res 33:2504-11. 2005
    ..Other mechanisms, like induction of a conformational change or masking of binding domains are required additionally...
  75. pmc Combinatorial transcriptional control of the lactose operon of Escherichia coli
    Thomas Kuhlman
    Center for Theoretical Biological Physics, University of California at San Diego, La Jolla, CA 92093 0374, USA
    Proc Natl Acad Sci U S A 104:6043-8. 2007
    ..Specifically, our analysis indicates that the sensitivity of the inducer response results from LacR-mediated DNA looping, which is significantly enhanced by CRP...
  76. pmc Enhanced bacterial protein expression during auto-induction obtained by alteration of lac repressor dosage and medium composition
    Paul G Blommel
    Department of Biochemistry, University of Wisconsin, Madison, Wisconsin 53706, USA
    Biotechnol Prog 23:585-98. 2007
    ..coli is based on diauxic growth resulting from dynamic function of lac operon regulatory elements (lacO and LacI) in mixtures of glucose, glycerol, and lactose...
  77. pmc Probing transcription factor dynamics at the single-molecule level in a living cell
    Johan Elf
    Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA 02138, USA
    Science 316:1191-4. 2007
    ..The methods and findings can be generalized to other nucleic acid binding proteins...
  78. ncbi Integration host factor alters LacI-induced DNA looping
    Chiara Zurla
    Department of Physics, Emory University, Atlanta, GA 30322, USA
    Biophys Chem 128:245-52. 2007
    ..coli. In single molecule experiments, we show that both specific bending and non-specific compaction alter LacI-mediated looping of DNA...
  79. pmc Effects of nucleoid proteins on DNA repression loop formation in Escherichia coli
    Nicole A Becker
    Department of Biochemistry and Molecular Biology, Mayo Clinic College of Medicine, 200 First St SW, Rochester, MN 55905, USA
    Nucleic Acids Res 35:3988-4000. 2007
    ..These results suggest that host nucleoid proteins can directly facilitate or inhibit DNA looping in bacteria...
  80. ncbi Dynamic properties of a delayed protein cross talk model
    Svetoslav Nikolov
    Institute of Mechanics and Biomechanics BAS, Acad G Bonchev Str, Bl 4, 1113 Sofia, Bulgaria
    Biosystems 91:51-68. 2008
    ....
  81. ncbi Modelling gene expression control using P systems: The Lac Operon, a case study
    Francisco Jose Romero-Campero
    Research Group on Natural Computing, Department of Computer Science and Artificial Intelligence, University of Sevilla, Avda Reina Mercedes s n, 41012 Sevilla, Spain
    Biosystems 91:438-57. 2008
    ..The well known gene regulation system in the Lac Operon in Escherichia coli will be modelled as a case study to benchmark our approach...
  82. pmc Substitutions at auxiliary operator O3 enhance repression by nitrate-responsive regulator NarL at synthetic lac control regions in Escherichia coli K-12
    Valley Stewart
    Section of Microbiology, University of California, One Shields Avenue, Davis CA 95616 8665, USA
    J Bacteriol 190:428-33. 2008
    ..The results support the hypothesis that DNA-bound dimers of phospho-NarL can participate in higher-order cooperative interactions...
  83. ncbi Stochastic simulations of the repressilator circuit
    Adiel Loinger
    Racah Institute of Physics, The Hebrew University, Jerusalem 91904, Israel
    Phys Rev E Stat Nonlin Soft Matter Phys 76:051917. 2007
    ..We also find that subtle features such as cooperative binding and bound-repressor degradation strongly affect the existence and properties of the oscillations...
  84. pmc Quantitative approaches to the study of bistability in the lac operon of Escherichia coli
    Moises Santillan
    Centro de Investigacion y Estudios Avanzados del IPN, Unidad Monterrey, Parque de Investigación e Innovación Tecnológica, Apodaca, NL, Mexico
    J R Soc Interface 5:S29-39. 2008
    ..A review of the literature in which this bistable phenomenon has been studied from a mathematical modelling viewpoint is then given. We conclude with some brief remarks...
  85. pmc Allostery in the LacI/GalR family: variations on a theme
    Liskin Swint-Kruse
    Department of Biochemistry and Molecular Biology, The University of Kansas Medical Center, Kansas City, 66160, United States
    Curr Opin Microbiol 12:129-37. 2009
    The lactose repressor protein (LacI) was among the very first genetic regulatory proteins discovered, and more than 1000 members of the bacterial LacI/GalR family are now identified...
  86. pmc Flexibility in the inducer binding region is crucial for allostery in the Escherichia coli lactose repressor
    Jia Xu
    Department of Biochemistry and Cell Biology, Rice University, 6100 South Main Street, Houston, Texas 77005, USA
    Biochemistry 48:4988-98. 2009
    Lactose repressor protein (LacI) utilizes an allosteric mechanism to regulate transcription in Escherichia coli, and the transition between inducer- and operator-bound states has been simulated by targeted molecular dynamics (TMD)...
  87. doi Radiation-induced tetramer-to-dimer transition of Escherichia coli lactose repressor
    S Goffinont
    Centre de Biophysique Moleculaire, CNRS, Orleans, France
    Biochem Biophys Res Commun 386:300-4. 2009
    ..The splitting of the tetramer into dimers can result from the oxidation of the leucine residues of the tetramerization domain...
  88. doi Adaptive prediction of environmental changes by microorganisms
    Amir Mitchell
    Department of Molecular Genetics, Weizmann Institute of Science Rehovot 76100, Israel
    Nature 460:220-4. 2009
    ..Our work indicates that environmental anticipation is an adaptive trait that was repeatedly selected for during evolution and thus may be ubiquitous in biology...
  89. pmc First-principles calculation of DNA looping in tethered particle experiments
    Kevin B Towles
    Department of Physics and Astronomy, University of Pennsylvania, Philadelphia, PA 19104, USA
    Phys Biol 6:025001. 2009
    We calculate the probability of DNA loop formation mediated by regulatory proteins such as Lac repressor (LacI), using a mathematical model of DNA elasticity...
  90. doi High local concentration: a fundamental strategy of life
    Stefan Oehler
    Biomedical Sciences Research Center Alexander Fleming, 34 Fleming Street, GR 16672 Vari, Greece
    J Mol Biol 395:242-53. 2010
    ..Local increase in concentration leads to cooperative or competitive interactions between molecules. It is an important principle of life...
  91. ncbi A frameshift mutation at the junction of an IS1 insertion within lacZ restores beta-galactosidase activity via formation of an active lacZ-IS1 fusion protein
    M H Malamy
    J Mol Biol 181:551-5. 1985
    ..The IS1 element in MS319 is a new member of the iso-IS1 family, which we designate IS1T...
  92. pmc lac Up-promoter mutants with increased homology to the consensus promoter sequence
    W Mandecki
    J Bacteriol 164:1353-5. 1985
    ..All mutants exhibited higher activity than did the wild-type promoter...
  93. ncbi Effects of heterologous ribosomal binding sites on the transcription and translation of the lacZ gene of Escherichia coli
    A C Looman
    Gene 37:145-54. 1985
    ..No strict correlation could be found between the level of lac mRNA and beta-gal production. Per molecule of lac mRNA, translation appears to be most efficient when the homologous lacZ initiation signal is present...
  94. ncbi Genetic and sequencing studies of the specificity of transposition into the lac region of E. coli
    J H Miller
    Cold Spring Harb Symp Quant Biol 45:243-57. 1981
  95. ncbi Construction and analysis of in vivo activity of E. coli promoter hybrids and promoter mutants that alter the -35 to -10 spacing
    D R Russell
    Gene 20:231-43. 1982
  96. ncbi Footprinting with MPE.Fe(II). Complementary-strand analyses of distamycin- and actinomycin-binding sites on heterogeneous DNA
    M W Van Dyke
    Cold Spring Harb Symp Quant Biol 47:347-53. 1983
  97. pmc A perfectly symmetric lac operator binds the lac repressor very tightly
    J R Sadler
    Proc Natl Acad Sci U S A 80:6785-9. 1983
    ..The natural operator is apparently "flawed" by "incorrect" base pairs in the right operator half and by an "incorrect" spacing between the operator halves with respect to maximal repressor binding...
  98. ncbi Variants of a cloned synthetic lactose operator. I. A palindromic dimer lactose operator derived from one stand of the cloned 40-base pair operator
    J L Betz
    Gene 13:1-12. 1981
    ..Each of the conformations of this DNA fragment have been purified and all are active in binding lactose repressor in vitro...

Research Grants7

  1. MOLECULAR INTERACTION IN T4 DNA REPLICATION COMPLEX
    PETER VON HIPPEL; Fiscal Year: 2003
    ..abstract_text> ..
  2. Structure & Function of Prokaryotic Transcript Cleavage
    Sergei Borukhov; Fiscal Year: 2005
    ..abstract_text> ..
  3. Molecular mechanism of DNA-polymerase choice in vivo
    Susan Rosenberg; Fiscal Year: 2007
    ..coli DNA polymerases, and functions in DNA polymerase choice in vivo: a critical regulatory decision for cell survival of environmental damage, and genomic health. [unreadable] [unreadable] [unreadable]..
  4. DNA REPAIR IN DRUG RESISTANCE MUTATION
    Susan Rosenberg; Fiscal Year: 2003
    ....
  5. BIOSYNTHESIS OF VITAMIN B12 AND ANAEROBIC METABOLISM
    John Roth; Fiscal Year: 2004
    ..coli. Understanding this metabolism may contribute to understanding the natural lifestyle of Salmonellae. ..
  6. Mechanisms of Adaptive Amplification
    Philip J Hastings; Fiscal Year: 2010
    ....
  7. GENETIC CONTROL OF NITRATE RESPIRATION IN E. COLI
    Valley J Stewart; Fiscal Year: 2010
    ..Thus, results from the model species E. coli enhance understanding for a broad range of pathogens that significantly impact public health. ..