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• Journal article
  Hare S, Shun M-C, Gupta SS, Valkov E, Engelman A, Cherepanov Pet al., 2009,

  A Novel Co-Crystal Structure Affords the Design of Gain-of-Function Lentiviral Integrase Mutants in the Presence of Modified PSIP1/LEDGF/p75

  , PLOS PATHOGENS, Vol: 5, ISSN: 1553-7366
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  • Citations: 124
• Journal article
  McGeehan J, Ravelli RBG, Murray JW, Owen RL, Cipriani F, McSweeney S, Weik M, Garman EFet al., 2009,

  Colouring cryo-cooled crystals: online microspectrophotometry

  , Journal of Synchrotron Radiation, Vol: 16, Pages: 163-172

  X-rays can produce a high concentration of radicals within cryo-cooled macromolecular crystals. Some radicals have large extinction coefficients in the visible (VIS) range of the electromagnetic spectrum, and can be observed optically and spectrally. An online microspectrophotometer with high temporal resolution has been constructed that is capable of measuring UV/VIS absorption spectra (200-1100 nm) during X-ray data collection. The typical X-ray-induced blue colour that is characteristic of a wide range of cryo-conditions has been identified as trapped solvated electrons. Disulphide-containing proteins are shown to form disulphide radicals at millimolar concentrations, with absorption maxima around 400 nm. The solvated electrons and the disulphide radicals seem to have a lifetime in the range of seconds up to minutes at 100 K. The temperature dependence of the kinetics of X-ray-induced radical formation is different for the solvated electrons compared with the disulphide radicals. The online microspectrophotometer provides a technique complementary to X-ray diffraction for analysing and characterizing intermediates and redox states of proteins and enzymes.

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• Journal article
  Hare S, Cherepanov P, 2009,

  The Interaction Between Lentiviral Integrase and LEDGF: Structural and Functional Insights

  , Viruses, Vol: 1, Pages: 780-801
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• Journal article
  Mackiewicz N, Delaire JA, Rutherford AW, Doris E, Mioskowski Cet al., 2009,

  Carbon Nanotube-Acridine Nanohybrids: Spectroscopic Characterization of Photoinduced Electron Transfer

  , CHEMISTRY-A EUROPEAN JOURNAL, Vol: 15, Pages: 3882-3888, ISSN: 0947-6539
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  • Citations: 11
• Journal article
  Robinson T, Schaerli Y, Wootton R, Hollfelder F, Dunsby C, Baldwin G, Neil M, French P, deMello Aet al., 2009,

  Removal of background signals from fluorescence thermometry measurements in PDMS microchannels using fluorescence lifetime imaging

  , LAB ON A CHIP, Vol: 9, Pages: 3437-3441, ISSN: 1473-0197
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  • Citations: 29
• Journal article
  van Thor JJ, 2009,

  Photoreactions and dynamics of the green fluorescent protein

  , Chem Soc Rev, Vol: 38, Pages: 2935-2950

  The wild type green fluorescent protein (GFP) from Aequorea victoria has been extensively investigated with a strong focus on the photochemistry and structural dynamics that are linked with its diverse activities. GFP combines a number of remarkable, and some unique, features that are still intensely researched both experimentally and theoretically. The protein environment effectively inhibits deactivation pathways that are dominant in the isolated chromophore and is therefore responsible for the bright fluorescence. Its p-hydroxybenzylidene-imidazolidinone chromophore acts as a photoacid, and optical excitation triggers ultrafast proton transfer reactions in the active site. The microscopic details of the proton transfer mechanism through a hydrogen bonding network are discussed in this critical review. This property of the wild type GFP has provided the opportunity to characterise the role of the specific protein environment in the proton transfer reactions in comparison to photoacid reactions in the condensed phase. In addition, GFP displays a photochromic side reaction that is uniquely caused by electron transfer from a buried anionic glutamic acid to the optically excited chromophore. This phototransformation property has also been exploited in high resolution fluorescence microscopy techniques. The discussion in this review is extended to include vibrational spectroscopy and structural dynamics (106 references).

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• Journal article
  Komatsu T, Nakagawa A, Curry S, Tsuchida E, Murata K, Nakamura N, Ohno Het al., 2009,

  The role of an amino acid triad at the entrance of the heme pocket in human serum albumin for O₂ and CO binding to iron protoporphyrin IX

  , ORGANIC & BIOMOLECULAR CHEMISTRY, Vol: 7, Pages: 3836-3841, ISSN: 1477-0520
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  • Citations: 12
• Journal article
  Wilderen LJGWV, Clark IP, Towrie M, Thor JJV, van Thor JJet al., 2009,

  Mid-infrared picosecond pump-dump-probe and pump-repump-probe experiments to resolve a ground-state intermediate in cyanobacterial phytochrome Cph1

  , J Phys Chem B, Vol: 113, Pages: 16354-16364

  Multipulse picosecond mid-infrared spectroscopy has been used to study photochemical reactions of the cyanobacterial phytochrome photoreceptor Cph1. Different photophysical schemes have been discussed in the literature to describe the pathways after photoexcitation, particularly, to identify reaction phases that are linked to photoisomerisation and electronic decay in the 1566-1772 cm(-1) region that probes C=C and C=O stretching modes of the tetrapyrrole chromophore. Here, multipulse spectroscopy is employed, where, compared to conventional visible pump-mid-infrared probe spectroscopy, an additional visible pulse is incorporated that interacts with populations that are evolving on the excited- and ground-state potential energy surfaces. The time delays between the pump and the dump pulse are chosen such that the dump pulse interacts with different phases in the reaction process. The pump and dump pulses are at the same wavelength, 640 nm, and are resonant with the Pr ground state as well as with the excited state and intermediates. Because the dump pulse additionally pumps the remaining, partially recovered, and partially oriented ground-state population, theory is developed for estimating the fraction of excited-state molecules. The calculations take into account the model-dependent ground-state recovery fraction, the angular dependence of the population transfer resulting from the finite bleach that occurs with linearly polarized intense femtosecond optical excitation, and the partially oriented population for the dump field. Distinct differences between the results from the experiments that use a 1 or a 14 ps dump time favor a branching evolution from S1 to an excited state or reconfigured chromophore and to a newly identified ground-state intermediate (GSI). Optical dumping at 1 ps shows the instantaneous induced absorption of a delocalized C=C stretching mode at 1608 cm(-1), where the increased cross section is associated with the electronic ground-state struc

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• Journal article
  Lou H, Beis K, Naismith JH, 2009,

  Bacterial Membrane Proteins: The New Soluble Proteins?

  , MEMBRANE PROTEIN CRYSTALLIZATION, Vol: 63, Pages: 269-297, ISSN: 1063-5823
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  • Citations: 1
• Journal article
  Curry S, 2009,

  Lessons from the Crystallographic Analysis of Small Molecule Binding to Human Serum Albumin

  , DRUG METABOLISM AND PHARMACOKINETICS, Vol: 24, Pages: 342-357, ISSN: 1347-4367
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  • Citations: 229
• Journal article
  Luther PK, Bennett PM, Knupp C, Craig R, Padron R, Harris SP, Patel J, Moss RLet al., 2008,

  Understanding the Organisation and Role of Myosin Binding Protein C in Normal Striated Muscle by Comparison with MyBP-C Knockout Cardiac Muscle

  , JOURNAL OF MOLECULAR BIOLOGY, Vol: 384, Pages: 60-72, ISSN: 0022-2836
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  • Citations: 93
• Journal article
  Hohenester E, Sasaki T, Giudici C, Farndale RW, Baechinger HPet al., 2008,

  Structural basis of sequence-specific collagen recognition by SPARC

  , PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 105, Pages: 18273-18277, ISSN: 0027-8424
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  • Citations: 106
• Journal article
  Bose D, Pape T, Burrows PC, Rappas M, Wigneshweraraj SR, Buck M, Zhang Xet al., 2008,

  Organization of an Activator-Bound RNA Polymerase Holoenzyme

  , MOLECULAR CELL, Vol: 32, Pages: 337-346, ISSN: 1097-2765
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  • Citations: 59
• Journal article
  Schenderlein M, Cetin M, Barber J, Telfer A, Schlodder Eet al., 2008,

  Spectroscopic studies of the chlorophyll <i>d</i> containing photosystem I from the cyanobacterium, <i>Acaryochloris marina</i>

  , BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS, Vol: 1777, Pages: 1400-1408, ISSN: 0005-2728
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  • Citations: 19
• Journal article
  Marles-Wright J, Grant T, Delumeau O, van Duinen G, Firbank SJ, Lewis PJ, Murray JW, Newman JA, Quin MB, Race PR, Rohou A, Tichelaar W, van Heel M, Lewis RJet al., 2008,

  Molecular architecture of the "stressosome," a signal integration and transduction hub

  , SCIENCE, Vol: 322, Pages: 92-96, ISSN: 0036-8075
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  • Citations: 125
• Journal article
  Cser K, Deak Z, Telfer A, Barber J, Vass Iet al., 2008,

  Energetics of Photosystem II charge recombination in <i>Acaryochloris marina</i> studied by thermoluminescence and flash-induced chlorophyll fluorescence measurements

  , PHOTOSYNTHESIS RESEARCH, Vol: 98, Pages: 131-140, ISSN: 0166-8595
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  • Citations: 20
• Journal article
  Carpenter EP, Beis K, Cameron AD, Iwata Set al., 2008,

  Overcoming the challenges of membrane protein crystallography

  , CURRENT OPINION IN STRUCTURAL BIOLOGY, Vol: 18, Pages: 581-586, ISSN: 0959-440X
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  • Citations: 307
• Journal article
  Murray JW, Maghlaoui K, Kargul J, Sugiura M, Barber Jet al., 2008,

  Analysis of xenon binding to photosystem II by X-ray crystallography

  , PHOTOSYNTHESIS RESEARCH, Vol: 98, Pages: 523-527, ISSN: 0166-8595
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  • Citations: 24
• Journal article
  Bailleul B, Johnson X, Finazzi G, Barber J, Rappaport F, Telfer Aet al., 2008,

  The thermodynamics and kinetics of electron transfer between cytochrome <i>b</i>₆<i>f</i> and photosystem I in the chlorophyll <i>d</i>-dominated cyanobacterium, <i>Acaryochloris marina</i>

  , JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 283, Pages: 25218-25226
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  • Citations: 16
• Journal article
  Yla-Maihaniemi PP, Heng JYY, Thielmann F, Williams DRet al., 2008,

  Inverse gas chromatographic method for measuring the dispersive surface energy distribution for particulates

  , LANGMUIR, Vol: 24, Pages: 9551-9557, ISSN: 0743-7463
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  • Citations: 87
• Journal article
  Lossi NS, Rolhion N, Magee AI, Boyle C, Holden DWet al., 2008,

  The <i>Salmonella</i> SPI-2 effector SseJ exhibits eukaryotic activator-dependent phospholipase A and glycerophospholipid:: cholesterol acyltransferase activity

  , MICROBIOLOGY-SGM, Vol: 154, Pages: 2680-2688, ISSN: 1350-0872
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  • Citations: 62
• Journal article
  Zunszain PA, Ghuman J, McDonagh AF, Curry Set al., 2008,

  Crystallographic analysis of human serum albumin complexed with 4<i>Z</i>,15<i>E</i>-bilirubin-IXα

  , JOURNAL OF MOLECULAR BIOLOGY, Vol: 381, Pages: 394-406, ISSN: 0022-2836
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  • Citations: 221
• Journal article
  Robinson T, Valluri P, Manning HB, Owen DM, Munro I, Talbot CB, Dunsby C, Eccleston JF, Baldwin GS, Neil MAA, de Mello AJ, French PMWet al., 2008,

  Three-dimensional molecular mapping in a microfluidic mixing device using fluorescence lifetime imaging

  , OPTICS LETTERS, Vol: 33, Pages: 1887-1889, ISSN: 0146-9592
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  • Citations: 19
• Journal article
  Bodvarsson B, Klim S, Morkebjerg M, Mortensen S, Yoon CH, Chen J, Maclaren JR, Luther PK, Squire JM, Bones PJ, Millane RPet al., 2008,

  A morphological image processing method for locating myosin filaments in muscle electron micrographs

  , IMAGE AND VISION COMPUTING, Vol: 26, Pages: 1073-1080, ISSN: 0262-8856
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  • Citations: 5
• Journal article
  Burrows PC, Wigneshweraraj S, Bose D, Joly N, Schumacher J, Rappas M, Pape T, Stockley PG, Zhang X, Buck Met al., 2008,

  Visualizing the organization and reorganization of transcription complexes for gene expression

  , BIOCHEMICAL SOCIETY TRANSACTIONS, Vol: 36, Pages: 776-779, ISSN: 0300-5127
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  • Citations: 4
• Journal article
  Fukuhara N, Howitt JA, Hussain S-A, Hohenester Eet al., 2008,

  Structural and functional analysis of Slit and heparin binding to immunoglobulin-like domains 1 and 2 of <i>Drosophila</i> Robo

  , JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 283, Pages: 16226-16234, ISSN: 0021-9258
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  • Citations: 62
• Journal article
  Filloux A, Hachani A, Bleves S, 2008,

  The bacterial type VI secretion machine: yet another player for protein transport across membranes

  , Microbiology, Vol: 154, Pages: 1570-1583, ISSN: 1350-0872
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• Journal article
  Pommet M, Juntaro J, Heng JYY, Mantalaris A, Lee AF, Wilson K, Kalinka G, Shaffer MSP, Bismarck Aet al., 2008,

  Surface modification of natural fibers using bacteria: Depositing bacterial cellulose onto natural fibers to create hierarchical fiber reinforced nanocomposites

  , BIOMACROMOLECULES, Vol: 9, Pages: 1643-1651, ISSN: 1525-7797
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  • Citations: 186
• Journal article
  Briggs LC, Baldwin GS, Miyata N, Kondo H, Zhang X, Freemont PSet al., 2008,

  Analysis of nucleotide binding to p97 reveals the properties of a tandem AAA hexameric ATPase

  , JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 283, Pages: 13745-13752
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  • Citations: 64
• Journal article
  Ishida N, Sugiura M, Rappaport F, Lai TL, Rutherford AW, Boussac Aet al., 2008,

  Biosynthetic exchange of bromide for chloride and strontium for calcium in the photosystem II oxygen-evolving enzymes.

  , J Biol Chem, Vol: 283, Pages: 13330-13340, ISSN: 0021-9258

  The active site for water oxidation in photosystem II goes through five sequential oxidation states (S(0) to S(4)) before O(2) is evolved. It consists of a Mn(4)Ca cluster close to a redox-active tyrosine residue (Tyr(Z)). Cl(-) is also required for enzyme activity. To study the role of Ca(2+) and Cl(-) in PSII, these ions were biosynthetically substituted by Sr(2+) and Br(-), respectively, in the thermophilic cyanobacterium Thermosynechococcus elongatus. Irrespective of the combination of the non-native ions used (Ca/Br, Sr/Cl, Sr/Br), the enzyme could be isolated in a state that was fully intact but kinetically limited. The electron transfer steps affected by the exchanges were identified and then investigated by using time-resolved UV-visible absorption spectroscopy, time-resolved O(2) polarography, and thermoluminescence spectroscopy. The effect of the Ca(2+)/Sr(2+) and Cl(-)/Br(-) exchanges was additive, and the magnitude of the effect varied in the following order: Ca/Cl < Ca/Br < Sr/Cl < Sr/Br. In all cases, the rate of O(2) release was similar to that of the S(3)Tyr(Z)(.) to S(0)Tyr(Z) transition, with the slowest kinetics (i.e. the Sr/Br enzyme) being approximately 6-7 slower than in the native Ca/Cl enzyme. This slowdown in the kinetics was reflected in a decrease in the free energy level of the S(3) state as manifest by thermoluminescence. These observations indicate that Cl(-) is involved in the water oxidation mechanism. The possibility that Cl(-) is close to the active site is discussed in terms of recent structural models.

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