Y Lu

Summary

Affiliation: University of Illinois
Country: USA

Publications

  1. ncbi request reprint Testing the potential for computational chemistry to quantify biophysical properties of the non-proteinaceous amino acids
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, Maryland 21250, USA
    Astrobiology 6:606-24. 2006
  2. ncbi request reprint Engineering metal-binding sites in proteins
    Y Lu
    Department of Chemistry, University of Illinois at Urbana Champaign 61801, USA
    Curr Opin Struct Biol 7:495-500. 1997
  3. ncbi request reprint Smart nanomaterials inspired by biology: dynamic assembly of error-free nanomaterials in response to multiple chemical and biological stimuli
    Yi Lu
    Department of Chemistry and Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Acc Chem Res 40:315-23. 2007
  4. doi request reprint Catalyst-functionalized nanomaterials
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana, Champaign, IL, USA
    Wiley Interdiscip Rev Nanomed Nanobiotechnol 1:35-46. 2009
  5. pmc Metalloprotein and metallo-DNA/RNAzyme design: current approaches, success measures, and future challenges
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Inorg Chem 45:9930-40. 2006
  6. ncbi request reprint Design and engineering of metalloproteins containing unnatural amino acids or non-native metal-containing cofactors
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Curr Opin Chem Biol 9:118-26. 2005
  7. ncbi request reprint Biosynthetic inorganic chemistry
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Angew Chem Int Ed Engl 45:5588-601. 2006
  8. ncbi request reprint New transition-metal-dependent DNAzymes as efficient endonucleases and as selective metal biosensors
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Chemistry 8:4589-96. 2002
  9. ncbi request reprint Functional DNA nanotechnology: emerging applications of DNAzymes and aptamers
    Yi Lu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Curr Opin Biotechnol 17:580-8. 2006
  10. ncbi request reprint Structural basis of electron transfer modulation in the purple CuA center
    H Robinson
    Department of Cell and Structural Biology, University of Illinois at Urbana Champaign 61801, USA
    Biochemistry 38:5677-83. 1999

Research Grants

Collaborators

Detail Information

Publications82

  1. ncbi request reprint Testing the potential for computational chemistry to quantify biophysical properties of the non-proteinaceous amino acids
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, Maryland 21250, USA
    Astrobiology 6:606-24. 2006
    ..The results serve as a starting point for future quantitative analysis of amino acid alphabet evolution...
  2. ncbi request reprint Engineering metal-binding sites in proteins
    Y Lu
    Department of Chemistry, University of Illinois at Urbana Champaign 61801, USA
    Curr Opin Struct Biol 7:495-500. 1997
    ..Currently, all three approaches are being used effectively in elucidating the structure and function of naturally occurring metalloproteins...
  3. ncbi request reprint Smart nanomaterials inspired by biology: dynamic assembly of error-free nanomaterials in response to multiple chemical and biological stimuli
    Yi Lu
    Department of Chemistry and Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Acc Chem Res 40:315-23. 2007
    ..The use of functional DNA (DNAzymes, aptamers, and aptazymes) to meet these challenges is reviewed. In addition, a biology-inspired proof-reading and error correction method is introduced to cope with errors in nanomaterials assembly...
  4. doi request reprint Catalyst-functionalized nanomaterials
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana, Champaign, IL, USA
    Wiley Interdiscip Rev Nanomed Nanobiotechnol 1:35-46. 2009
    ..Finally, some carbon nanotubes show near-IR emission properties, and thus, are potentially useful for in vivo sensing. Sensors based on either tuning the emission intensity or wavelength are discussed...
  5. pmc Metalloprotein and metallo-DNA/RNAzyme design: current approaches, success measures, and future challenges
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Inorg Chem 45:9930-40. 2006
    ..A key to meeting this challenge is to focus on the design of not only primary but also secondary coordination spheres using a combination of improved computer programs, experimental design, and high-resolution crystallography...
  6. ncbi request reprint Design and engineering of metalloproteins containing unnatural amino acids or non-native metal-containing cofactors
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Curr Opin Chem Biol 9:118-26. 2005
    ....
  7. ncbi request reprint Biosynthetic inorganic chemistry
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Angew Chem Int Ed Engl 45:5588-601. 2006
    ..The focus is mainly on synthetic "tricks" learned from biology, as well as novel structures and insights obtained. The advantages and disadvantages of this biosynthetic approach are discussed...
  8. ncbi request reprint New transition-metal-dependent DNAzymes as efficient endonucleases and as selective metal biosensors
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Chemistry 8:4589-96. 2002
    ..Finally, the use of DNAzymes as a new class of highly sensitive and selective biosensors for metal ions has been demonstrated recently...
  9. ncbi request reprint Functional DNA nanotechnology: emerging applications of DNAzymes and aptamers
    Yi Lu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Curr Opin Biotechnol 17:580-8. 2006
    ....
  10. ncbi request reprint Structural basis of electron transfer modulation in the purple CuA center
    H Robinson
    Department of Cell and Structural Biology, University of Illinois at Urbana Champaign 61801, USA
    Biochemistry 38:5677-83. 1999
    ....
  11. ncbi request reprint Accelerated color change of gold nanoparticles assembled by DNAzymes for simple and fast colorimetric Pb2+ detection
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 126:12298-305. 2004
    ..These results demonstrate that fundamental understanding of the DNAzyme biochemistry and nanoparticle science can lead to dramatically improved colorimetric sensors...
  12. pmc Design of functional metalloproteins
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Nature 460:855-62. 2009
    ....
  13. ncbi request reprint A colorimetric lead biosensor using DNAzyme-directed assembly of gold nanoparticles
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    J Am Chem Soc 125:6642-3. 2003
    ....
  14. ncbi request reprint A lead-dependent DNAzyme with a two-step mechanism
    Andrea K Brown
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Biochemistry 42:7152-61. 2003
    ....
  15. ncbi request reprint Miniaturized lead sensor based on lead-specific DNAzyme in a nanocapillary interconnected microfluidic device
    In Hyoung Chang
    Department of Chemistry and the Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Environ Sci Technol 39:3756-61. 2005
    ..This work represents the initial steps toward creation of a robust field sensor for lead in groundwater or drinking water...
  16. ncbi request reprint Adenosine-dependent assembly of aptazyme-functionalized gold nanoparticles and its application as a colorimetric biosensor
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Anal Chem 76:1627-32. 2004
    ..Thus, colorimetric biosensors for many analytes of interest can be designed using the method presented here, regardless of whether the analytes are directly involved in the cleavage reaction or not...
  17. doi request reprint Immobilization of DNAzyme catalytic beacons on PMMA for Pb2+ detection
    Tulika S Dalavoy
    U S Army Corps of Engineers, Construction Engineering Research Laboratory, 2902 Newmark Drive, Champaign, Illinois 61822, USA
    Lab Chip 8:786-93. 2008
    ....
  18. ncbi request reprint Incorporation of a DNAzyme into Au-coated nanocapillary array membranes with an internal standard for Pb(ii) sensing
    Daryl P Wernette
    Beckman Institute for Advanced Science and Technology and Department of Chemistry, University of Illinois at Urbana Champaign, 600 S Mathews Ave, Urbana, IL 61801, USA
    Analyst 131:41-7. 2006
    ..The result is a Pb(ii)-sensing structure that can be stored in a prepared state for 30 days, regenerated after reaction, and detect Pb(ii) concentrations as low as 17 nM (3.5 ppb)...
  19. ncbi request reprint Colorimetric biosensors based on DNAzyme-assembled gold nanoparticles
    Juewen Liu
    Department of Chemistry, University of Illinois Champaign, Urbana, Illinois 61801, USA
    J Fluoresc 14:343-54. 2004
    ..The application of the sensor in lead detection in leaded paint is also demonstrated. In perspective, the use of allosteric DNA/RNAzymes to expand the range of the nanoparticle-based sensor design method is described...
  20. ncbi request reprint Fast colorimetric sensing of adenosine and cocaine based on a general sensor design involving aptamers and nanoparticles
    Juewen Liu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, IL, 61801, USA
    Angew Chem Int Ed Engl 45:90-4. 2005
  21. ncbi request reprint Dissecting metal ion-dependent folding and catalysis of a single DNAzyme
    Hee Kyung Kim
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Nat Chem Biol 3:763-8. 2007
    ..These features may contribute to the unusually fast Pb2+-dependent reaction of the DNAzyme. These results suggest that DNAzymes can use all modes of activation that metalloproteins use...
  22. ncbi request reprint New highly sensitive and selective catalytic DNA biosensors for metal ions
    Yi Lu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Biosens Bioelectron 18:529-40. 2003
    ....
  23. ncbi request reprint Surface immobilization of catalytic beacons based on ratiometric fluorescent DNAzyme sensors: a systematic study
    Daryl P Wernette
    Department of Chemistry and Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Langmuir 23:9513-21. 2007
    ..These findings form a firm basis on which practical applications of catalytic beacons can be realized, including sensors for both Pb2+ and UO22+ ions...
  24. pmc Roles of glutamates and metal ions in a rationally designed nitric oxide reductase based on myoglobin
    Ying Wu Lin
    Department of Chemistry, George L Clark X Ray Facility and 3M Materials Laboratory, and Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 107:8581-6. 2010
    ..The designed protein offers an excellent model for NOR and demonstrates the power of using designed proteins as a simpler and more well-defined system to address important chemical and biological issues...
  25. doi request reprint Rationally tuning the reduction potential of a single cupredoxin beyond the natural range
    Nicholas M Marshall
    Department of Chemistry, University of Illinois, Urbana Champaign, Illinois 61801, USA
    Nature 462:113-6. 2009
    ..We also demonstrate that the effects of individual structural features are additive and that redox potential tuning of azurin is now predictable across the full range of cupredoxin potentials...
  26. pmc Catalytic reduction of NO to N2O by a designed heme copper center in myoglobin: implications for the role of metal ions
    Xuan Zhao
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, IL 61801, USA
    J Am Chem Soc 128:6766-7. 2006
    ..A redox-active metal ion is required to deliver electrons, and a higher oxidation state is preferred to weaken the heme iron-proximal histidine toward a five-coordinate key intermediate in NO reduction...
  27. pmc Label-free fluorescent functional DNA sensors using unmodified DNA: a vacant site approach
    Yu Xiang
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Anal Chem 82:4122-9. 2010
    ..The vacant site approach demonstrated here can be used to design many other label-free fluorescent sensors to detect a wide range of analytes...
  28. pmc Expressed protein ligation for metalloprotein design and engineering
    Kevin M Clark
    Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, Illinois, USA
    Methods Enzymol 462:97-115. 2009
    ..Here we describe our recent efforts using EPL to incorporate nonproteinogenic cysteine and methionine analogues into the type 1 copper site found in Pseudomonas aeruginosa azurin...
  29. doi request reprint Biochemical characterization of a uranyl ion-specific DNAzyme
    Andrea K Brown
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Chembiochem 10:486-92. 2009
    ..These findings enrich our fundamental understanding of metal-binding sites in nucleic acids and allow the design of sensors with better performance...
  30. ncbi request reprint Reduction potential tuning of the blue copper center in Pseudomonas aeruginosa azurin by the axial methionine as probed by unnatural amino acids
    Dewain K Garner
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 128:15608-17. 2006
    ....
  31. ncbi request reprint Rational design of "turn-on" allosteric DNAzyme catalytic beacons for aqueous mercury ions with ultrahigh sensitivity and selectivity
    Juewen Liu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Angew Chem Int Ed Engl 46:7587-90. 2007
  32. ncbi request reprint A DNAzyme catalytic beacon sensor for paramagnetic Cu2+ ions in aqueous solution with high sensitivity and selectivity
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    J Am Chem Soc 129:9838-9. 2007
  33. ncbi request reprint Smart "turn-on" magnetic resonance contrast agents based on aptamer-functionalized superparamagnetic iron oxide nanoparticles
    Mehmet Veysel Yigit
    Center for Biophysics and Computational Biology, University of Illinois at Urbana Champaign, 607 S Mathews Avenue, Urbana, IL 61801, USA
    Chembiochem 8:1675-8. 2007
  34. ncbi request reprint Stimuli-responsive disassembly of nanoparticle aggregates for light-up colorimetric sensing
    Juewen Liu
    Department of Chemistry and Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, Illinois, 61801, USA
    J Am Chem Soc 127:12677-83. 2005
    ..Investigation of such a controlled disassembly process allows the transformation of previously designed "light-down" colorimetric Pb2+ sensors into "light-up" sensors...
  35. pmc The role of copper and protons in heme-copper oxidases: kinetic study of an engineered heme-copper center in myoglobin
    Jeffrey A Sigman
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 100:3629-34. 2003
    ..The results showed that the Cu(B) center plays a critical role in O(2) binding and reduction, and that proton delivery during the O(2) reduction is important to avoid heme degradation and to promote the HCO reaction...
  36. ncbi request reprint Proofreading and error removal in a nanomaterial assembly
    Juewen Liu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Angew Chem Int Ed Engl 44:7290-3. 2005
  37. pmc Noncovalent modulation of pH-dependent reactivity of a Mn-salen cofactor in myoglobin with hydrogen peroxide
    Jun Long Zhang
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 S Mathews Ave, Urbana, IL 61801, USA
    Chemistry 15:7481-9. 2009
    ....
  38. pmc Activity, folding and Z-DNA formation of the 8-17 DNAzyme in the presence of monovalent ions
    Debapriya Mazumdar
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 131:5506-15. 2009
    ....
  39. pmc Highly sensitive and selective colorimetric sensors for uranyl (UO2(2+)): development and comparison of labeled and label-free DNAzyme-gold nanoparticle systems
    Jung Heon Lee
    Department of Materials Science and Engineering, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 130:14217-26. 2008
    ..The results obtained not only allow practical sensing application for uranyl but also serve as a guide for choosing different methods for designing colorimetric sensors for other targets...
  40. doi request reprint Probing metal binding in the 8-17 DNAzyme by TbIII luminescence spectroscopy
    Hee Kyung Kim
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 S Mathews Avenue, Urbana, IL 61801, USA
    Chemistry 14:8696-703. 2008
    ....
  41. ncbi request reprint Monooxygenation of an aromatic ring by F43W/H64D/V68I myoglobin mutant and hydrogen peroxide. Myoglobin mutants as a model for P450 hydroxylation chemistry
    Thomas D Pfister
    Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, Illinois, 61820, USA
    J Biol Chem 280:12858-66. 2005
    ..This establishes Mb compound I as a model for P450 type aromatic hydroxylation chemistry...
  42. ncbi request reprint A site-selective dual anchoring strategy for artificial metalloprotein design
    James R Carey
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    J Am Chem Soc 126:10812-3. 2004
    ....
  43. ncbi request reprint Immobilization of a catalytic DNA molecular beacon on Au for Pb(II) detection
    Carla B Swearingen
    Beckman Institute for Advanced Science and Technology and Department of Chemistry, University of Illinois at Urbana Champaign, 405 North Mathews Avenue, Urbana, Illinois 61801, USA
    Anal Chem 77:442-8. 2005
    ....
  44. doi request reprint Nanoparticles/Dip stick
    Yi Lu
    Department of Chemistry, University of Illinois Urbana Champaign, Urbana, IL, USA
    Methods Mol Biol 535:223-39. 2009
    ..Finally, to increase the user friendliness of the method, the sensors have been converted into simple dipstick tests using lateral flow devices...
  45. ncbi request reprint Improving metal ion specificity during in vitro selection of catalytic DNA
    Peter J Bruesehoff
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Comb Chem High Throughput Screen 5:327-35. 2002
    ....
  46. pmc Easy-to-use dipstick tests for detection of lead in paints using non-cross-linked gold nanoparticle-DNAzyme conjugates
    Debapriya Mazumdar
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 S Mathews Ave, Urbana, IL, USA
    Chem Commun (Camb) 46:1416-8. 2010
    ..Easy-to-use dipstick tests for lead have been developed by immobilizing nanoparticle-DNAzyme conjugates on lateral flow devices and their application for detecting lead in paints is demonstrated...
  47. ncbi request reprint Blue ferrocenium azurin: an organometalloprotein with tunable redox properties
    Hee Jung Hwang
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    J Am Chem Soc 127:15356-7. 2005
    ..As an example of such applications, stoichiometric oxidation of ferrocytochrome c by the blue ferrocenium azurin was demonstrated...
  48. ncbi request reprint Fluorescent DNAzyme biosensors for metal ions based on catalytic molecular beacons
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL, USA
    Methods Mol Biol 335:275-88. 2006
    ..The dual quencher method allows the sensor to perform at ambient temperatures with a high signal-to-noise ratio...
  49. ncbi request reprint Role of heme types in heme-copper oxidases: effects of replacing a heme b with a heme o mimic in an engineered heme-copper center in myoglobin
    Ningyan Wang
    Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 127:16541-7. 2005
    ..These results strongly suggest the critical role of the hydroxyl group of heme o in modulating heme-copper oxidase activity through participation in an extra hydrogen-bonding network...
  50. ncbi request reprint Metal-dependent global folding and activity of the 8-17 DNAzyme studied by fluorescence resonance energy transfer
    Hee Kyung Kim
    Department of Chemistry and Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 129:6896-902. 2007
    ..These results suggest that for Pb2+ global folding of the DNAzyme may not be a necessary step in its function, which may contribute to the DNAzyme having the highest activity in the presence of Pb2+...
  51. pmc A highly selective lead sensor based on a classic lead DNAzyme
    Tian Lan
    Department of Biochemistry, University of Illinois at Urbana Champaign, Urbana, 61801, USA
    Chem Commun (Camb) 46:3896-8. 2010
    ....
  52. ncbi request reprint Design of asymmetric DNAzymes for dynamic control of nanoparticle aggregation states in response to chemical stimuli
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Org Biomol Chem 4:3435-41. 2006
    ....
  53. ncbi request reprint Multi-fluorophore fluorescence resonance energy transfer for probing nucleic acids structure and folding
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL, USA
    Methods Mol Biol 335:257-71. 2006
    ..Instead, fluorophore-to-fluorophore distance should be used...
  54. pmc Molecular diagnostic and drug delivery agents based on aptamer-nanomaterial conjugates
    Jung Heon Lee
    Department of Materials Science and Engineering, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Adv Drug Deliv Rev 62:592-605. 2010
    ..Applications of these systems as fluorescent, colorimetric, magnetic resonance imaging, and electrochemical sensors in medical diagnostics are given, along with new applications as smart drug delivery agents...
  55. ncbi request reprint A quantitative description of the ground-state wave function of Cu(A) by X-ray absorption spectroscopy: comparison to plastocyanin and relevance to electron transfer
    S DeBeer George
    Department of Chemistry, Stanford University, Stanford, California 94305, USA
    J Am Chem Soc 123:5757-67. 2001
    ....
  56. ncbi request reprint The Alzheimer's peptide a beta adopts a collapsed coil structure in water
    S Zhang
    Department of Chemistry, Boston University, 590 Commonwealth Avenue, Boston, Massachusetts, 02215, USA
    J Struct Biol 130:130-41. 2000
    ....
  57. doi request reprint Nanoscale patterns of oligonucleotides formed by electrohydrodynamic jet printing with applications in biosensing and nanomaterials assembly
    Jang Ung Park
    Department of Materials Science and Engineering, Beckman Institute for Advanced Science and Technology, Frederick Seitz Materials Research Laboratory, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Nano Lett 8:4210-6. 2008
    ..Example applications in DNA-directed nanoparticle assembly and DNA aptamer-based biosensing illustrate two representative uses of the patterns that can be formed...
  58. pmc A modular microfluidic architecture for integrated biochemical analysis
    Kashan A Shaikh
    Department of Electrical and Computer Engineering, Micro and Nanotechnology Laboratory, and Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 102:9745-50. 2005
    ..In the second case, we used a DNAzyme-based biosensor to identify the presence of Pb(2+) (lead) at a sensitivity of 500 nM in <1 nl of solution...
  59. doi request reprint DNA-mediated control of metal nanoparticle shape: one-pot synthesis and cellular uptake of highly stable and functional gold nanoflowers
    Zidong Wang
    Department of Materials Science and Engineering, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Nano Lett 10:1886-91. 2010
    ..We have also shown that the DNA-functionalized nanoflowers can be readily uptaken by cells and visualized under dark-field microscopy...
  60. ncbi request reprint Axial methionine has much less influence on reduction potentials in a CuA center than in a blue copper center
    Hee Jung Hwang
    Department of Chemistry, University of Illinois at Urbana Champaign, Illinois 61801, USA
    J Am Chem Soc 127:7274-5. 2005
    ....
  61. ncbi request reprint Redox-dependent structural changes in an engineered heme-copper center in myoglobin: insights into chloride binding to CuB in heme copper oxidases
    Xuan Zhao
    Department of Chemistry, University of Illinois at Urbana Champaign, 600 South Mathews Avenue, Urbana, Illinois 61801, USA
    Biochemistry 44:6559-64. 2005
    ....
  62. ncbi request reprint Effects of metal ions in the CuB center on the redox properties of heme in heme-copper oxidases: spectroelectrochemical studies of an engineered heme-copper center in myoglobin
    Xuan Zhao
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Biochemistry 44:1210-4. 2005
    ..These findings provide a strong argument for a thermodynamic driving force basis for redox-regulated proton transfer in heme-copper oxidases...
  63. doi request reprint DNA and DNAzyme-mediated 2D colloidal assembly
    Margaret H S Shyr
    Beckman Institute, University of Illinois at Urbana Champaign, 405 North Mathews Avenue, Urbana, Illinois 61801, USA
    J Am Chem Soc 130:8234-40. 2008
    ..We also demonstrate that DNAzymes, catalytic DNA molecules, can be incorporated into the design, and in the presence of 10 microM Pb(2+), the hybridization-induced array assembly can be disrupted via DNAzyme activity...
  64. ncbi request reprint Determination of reduction potential of an engineered Cu(A) azurin by cyclic voltammetry and spectrochemical titrations
    Hee Jung Hwang
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    J Biol Inorg Chem 9:489-94. 2004
    ..Complete reoxidation of [Ru(NH3)5Py]2+-reduced CuA azurin is also consistent with the conclusion that this spectrochemical titration method using [Ru(NH3)5Py]2+ measures the reduction potential of native CuA azurin...
  65. ncbi request reprint Non-base pairing DNA provides a new dimension for controlling aptamer-linked nanoparticles and sensors
    Juewen Liu
    Department of Chemistry and Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 129:8634-43. 2007
    ....
  66. ncbi request reprint Resonance Raman spectroscopy of cytochrome c peroxidase variants that mimic manganese peroxidase
    Manliang Feng
    Department of Chemistry, Jackson State University, Box 17910, Jackson, MS 39217 0510, USA
    J Biol Inorg Chem 8:699-706. 2003
    ..This effect, in addition to the elimination of an H-bond to ferryl oxygen by the same mutation, accounts for the increased MnP specific activity of MnC cP(W191F, W51F)...
  67. ncbi request reprint Improving fluorescent DNAzyme biosensors by combining inter- and intramolecular quenchers
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Anal Chem 75:6666-72. 2003
    ..The design principle presented here should be applicable to other nucleic acid-based biosensors to decrease background fluorescence...
  68. doi request reprint Calcium-dependent heme structure in the reduced forms of the bacterial cytochrome c peroxidase from Paracoccus pantotrophus
    Sofia R Pauleta
    REQUIMTE CQFB, Departamento de Quimica, Faculdade de Ciencias e Tecnologia, Universidade Nova de Lisboa, 2829 516 Caparica, Portugal
    Biochemistry 47:5841-50. 2008
    ..For the fully reduced form in the presence of Ca(2+), the resonance Raman spectra show that the peroxidatic heme remains high-spin...
  69. ncbi request reprint Highly active and stable DNAzyme-carbon nanotube hybrids
    Tae Jin Yim
    Department of Chemical and Biological Engineering and Department of Biology, Rensselaer Polytechnic Institute, Troy, New York 12180, USA
    J Am Chem Soc 127:12200-1. 2005
    ..Such high activity may allow myriad applications ranging from the directed assembly of nanomaterials to nanoscale cellular therapeutics that rely on the RNA cleaving ability of DNAzymes...
  70. ncbi request reprint Direct micro-patterning of biodegradable polymers using ultraviolet and femtosecond lasers
    Carlos A Aguilar
    Department of Mechanical Engineering, University of Texas at Austin, Austin, TX 78712, USA
    Biomaterials 26:7642-9. 2005
    ....
  71. pmc Neutral thiol as a proximal ligand to ferrous heme iron: implications for heme proteins that lose cysteine thiolate ligation on reduction
    Roshan Perera
    Department of Chemistry and Biochemistry and School of Medicine, University of South Carolina, Columbia, SC 29208, USA
    Proc Natl Acad Sci U S A 100:3641-6. 2003
    ..This study establishes that neutral cysteine can serve as a ligand in ferrous heme iron proteins, and that ferric cysteinate-ligated heme proteins that fail to retain such ligation on reduction may simply be ligated by neutral cysteine...
  72. pmc On the evolution of the standard amino-acid alphabet
    Yi Lu
    Department of Biological Sciences, University of Maryland, Baltimore County, Baltimore, MD 21250, USA
    Genome Biol 7:102. 2006
    ..Fresh insights into the origin of the alphabet are now emerging from disciplines as diverse as astrobiology, biochemical engineering and bioinformatics...
  73. ncbi request reprint Quantum dot encoding of aptamer-linked nanostructures for one-pot simultaneous detection of multiple analytes
    Juewen Liu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    Anal Chem 79:4120-5. 2007
    ..Addition of target analytes disassembles the nanostructures and results in increased emission from quantum dots. Simultaneous colorimetric and fluorescent detection and quantification of both molecules in one pot is demonstrated...
  74. ncbi request reprint An asymmetric dizinc phosphodiesterase model with phenolate and carboxylate bridges
    Jingwen Chen
    State Key Laboratory of Coordination Chemistry, Coordination Chemistry Institute, Nanjing University, People s Republic of China
    Inorg Chem 44:3422-30. 2005
    ..The dizinc complex formed in situ in anhydrous DMSO exhibits a similar ability to cleave BNPP. This study provides a less common example for the phosphodiesterase model in which the metal-bound alkoxide is the nucleophile...
  75. pmc A catalytic beacon sensor for uranium with parts-per-trillion sensitivity and millionfold selectivity
    Juewen Liu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Proc Natl Acad Sci U S A 104:2056-61. 2007
    ..Such a sensor will play an important role in environmental remediation of radionuclides such as uranium...
  76. ncbi request reprint Novel cellulase profile of Trichoderma reesei strains constructed by cbh1 gene replacement with eg3 gene expression cassette
    Tian Hong Wang
    The State Key Laboratory of Microbial Technology, Shandong University, Jinan 250100, China
    Acta Biochim Biophys Sin (Shanghai) 36:667-72. 2004
    ..Such strains are of interest from the basic science perspective and also have potential in ustrial applications...
  77. ncbi request reprint RNA polymerase II large subunit is cleaved by caspases during DNA damage-induced apoptosis
    Yi Lu
    Department of Pathology, Albert Einstein College of Medicine, F512, 1300 Morris Park Ave, Bronx, NY 10461, USA
    Biochem Biophys Res Commun 296:954-61. 2002
    ..Using site-directed mutagenesis, the RNAP II-LS cleavage site was localized to an LETD sequence ending at residue 1339, which is near its C-terminal domain...
  78. ncbi request reprint FRET study of a trifluorophore-labeled DNAzyme
    Juewen Liu
    Department of Chemistry, University of Illinois at Urbana Champaign, Urbana, Illinois 61801, USA
    J Am Chem Soc 124:15208-16. 2002
    ....
  79. ncbi request reprint Kinetic and crystallographic studies of a redesigned manganese-binding site in cytochrome c peroxidase
    Thomas D Pfister
    Department of Biochemistry, University of Illinois at Urbana Champaign, 600 S Mathews Ave, Urbana, IL 61801, USA
    J Biol Inorg Chem 12:126-37. 2007
    ..These results indicate that the metal ion, the ligands, and the environment around the metal-binding site play important roles in tuning the structure and function of metalloenzymes...
  80. ncbi request reprint Genotyping of eight polymorphic genes encoding drug-metabolizing enzymes and transporters using a customized oligonucleotide array
    Yi Lu
    Department of Pediatrics, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 119074
    Anal Biochem 360:105-13. 2007
    ..The allelic frequencies reported in this study may have important therapeutic and prognostic implications in the clinical use of relevant drugs...
  81. ncbi request reprint Preparation of aptamer-linked gold nanoparticle purple aggregates for colorimetric sensing of analytes
    Juewen Liu
    Department of Chemistry, Beckman Institute for Advanced Science and Technology, University of Illinois at Urbana Champaign, Urbana, IL 61801, USA
    Nat Protoc 1:246-52. 2006
    ..The time range for the entire protocol is approximately 5 d, including synthesis and functionalization of nanoparticles, preparation of nanoparticle aggregates and sensing...
  82. ncbi request reprint Amino acid quantitative structure property relationship database: a web-based platform for quantitative investigations of amino acids
    Yi Lu
    Department of Biological Sciences, University of Maryland Baltimore County, Baltimore, MD 21250, USA
    Protein Eng Des Sel 20:347-51. 2007
    ....

Research Grants3

  1. Catalytic DNA Biosensor for Toxic Metal Ions
    Yi Lu; Fiscal Year: 2005
    ..abstract_text> ..