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Journal articleSedoud A, Cox N, Sugiura M, et al., 2011,
Semiquinone-iron complex of photosystem II: EPR signals assigned to the low-field edge of the ground state doublet of QA•-Fe2+ and QB•-Fe2+.
, Biochemistry, Vol: 50, Pages: 6012-6021The quinone-iron complex of the electron acceptor complex of Photosystem II was studied by EPR spectroscopy in Thermosynechococcus elongatus. New g ∼ 2 features belonging to the EPR signal of the semiquinone forms of the primary and secondary quinone, i.e., Q(A)(•-)Fe(2+) and Q(B)(•-)Fe(2+), respectively, are reported. In previous studies, these signals were missed because they were obscured by the EPR signal arising from the stable tyrosyl radical, TyrD(•). When the TyrD(•) signal was removed, either by chemical reduction or by the use of a mutant lacking TyrD, the new signals dominated the spectrum. For Q(A)(•-)Fe(2+), the signal was formed by illumination at 77 K or by sodium dithionite reduction in the dark. For Q(B)(•-)Fe(2+), the signal showed the characteristic period-of-two variations in its intensity when generated by a series of laser flashes. The new features showed relaxation characteristics comparable to those of the well-known features of the semiquinone-iron complexes and showed a temperature dependence consistent with an assignment to the low-field edge of the ground state doublet of the spin system. Spectral simulations are consistent with this assignment and with the current model of the spin system. The signal was also present in Q(B)(•-)Fe(2+) in plant Photosystem II, but in plants, the signal was not detected in the Q(A)(•-)Fe(2+) state.
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Journal articleSaridakis E, Khurshid S, Govada L, et al., 2011,
Protein crystallization facilitated by molecularly imprinted polymers
, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 108, Pages: 11081-11086, ISSN: 0027-8424- Author Web Link
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- Citations: 106
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Journal articleMikkelsen H, Sivaneson M, Filloux A, 2011,
Key two-component regulatory systems that control biofilm formation in <i>Pseudomonas aeruginosa</i>
, ENVIRONMENTAL MICROBIOLOGY, Vol: 13, Pages: 1666-1681, ISSN: 1462-2912- Author Web Link
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- Citations: 158
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Journal articleChen S, Beeby M, Murphy GE, et al., 2011,
Structural diversity of bacterial flagellar motors
, EMBO J., Vol: 30, Pages: 2972-2981 -
Journal articleHerrero C, Quaranta A, Leibl W, et al., 2011,
Artificial photosynthetic systems. Using light and water to provide electrons and protons for the synthesis of a fuel
, ENERGY & ENVIRONMENTAL SCIENCE, Vol: 4, Pages: 2353-2365, ISSN: 1754-5692- Author Web Link
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- Citations: 93
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Journal articleSu J-H, Cox N, Ames W, et al., 2011,
The electronic structures of the <i>S</i><sub>2</sub> states of the oxygen-evolving complexes of photosystem II in plants and cyanobacteria in the presence and absence of methanol
, BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS, Vol: 1807, Pages: 829-840, ISSN: 0005-2728- Author Web Link
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- Citations: 72
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Journal articleRamachandran PL, Lovett JE, Carl PJ, et al., 2011,
The Short-Lived Signaling State of the Photoactive Yellow Protein Photoreceptor Revealed by Combined Structural Probes
, JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, Vol: 133, Pages: 9395-9404, ISSN: 0002-7863- Author Web Link
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- Citations: 73
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Journal articleHerrero C, Quaranta A, Protti S, et al., 2011,
Light-Driven Activation of the [H<sub>2</sub>O(terpy)Mn<SUP>III</SUP>-μ-(O<sub>2</sub>)-Mn<SUP>IV</SUP>(terpy)OH<sub>2</sub>] Unit in a Chromophore-Catalyst Complex
, CHEMISTRY-AN ASIAN JOURNAL, Vol: 6, Pages: 1335-1339, ISSN: 1861-4728- Author Web Link
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- Citations: 21
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Journal articleGarcia-Caballero A, Gavira JA, Pineda-Molina E, et al., 2011,
Optimization of Protein Crystallization: The OptiCryst Project
, CRYSTAL GROWTH & DESIGN, Vol: 11, Pages: 2112-2121, ISSN: 1528-7483- Author Web Link
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- Citations: 12
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Journal articleReichmann NT, Gruendling A, 2011,
Location, synthesis and function of glycolipids and polyglycerolphosphate lipoteichoic acid in Gram-positive bacteria of the phylum <i>Firmicutes</i>
, FEMS MICROBIOLOGY LETTERS, Vol: 319, Pages: 97-105, ISSN: 0378-1097- Author Web Link
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- Citations: 130
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Journal articleKafasla P, Lin H, Curry S, et al., 2011,
Activation of picornaviral IRESs by PTB shows differential dependence on each PTB RNA-binding domain
, RNA, Vol: 17, Pages: 1120-1131, ISSN: 1355-8382- Author Web Link
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- Citations: 26
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Journal articleMichoux F, Ahmad N, McCarthy J, et al., 2011,
Contained and high-level production of recombinant protein in plant chloroplasts using a temporary immersion bioreactor
, PLANT BIOTECHNOLOGY JOURNAL, Vol: 9, Pages: 575-584, ISSN: 1467-7644- Author Web Link
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- Citations: 27
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Journal articleWong ARC, Pearson JS, Bright MD, et al., 2011,
Enteropathogenic and enterohaemorrhagic <i>Escherichia coli</i>: even more subversive elements
, MOLECULAR MICROBIOLOGY, Vol: 80, Pages: 1420-1438, ISSN: 0950-382X- Author Web Link
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- Citations: 254
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Conference paperChoudhury HG, Cameron AD, Iwata S, et al., 2011,
<i>Escherichia coli</i> detoxification of chalcolgens by TehAB
, 36th FEBS Congress of the Biochemistry for Tomorrows Medicine, Publisher: WILEY-BLACKWELL, Pages: 101-101, ISSN: 1742-464X -
Journal articleRobinson KS, Clements A, Williams AC, et al., 2011,
Bax Inhibitor 1 in apoptosis and disease
, ONCOGENE, Vol: 30, Pages: 2391-2400, ISSN: 0950-9232- Author Web Link
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- Citations: 61
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Journal articleMachuca-Tzili LE, Buxton S, Thorpe A, et al., 2011,
Zebrafish deficient for Muscleblind-like 2 exhibit features of myotonic dystrophy
, DISEASE MODELS & MECHANISMS, Vol: 4, Pages: 381-392, ISSN: 1754-8403- Author Web Link
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- Citations: 25
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Journal articleBoehm M, Romero E, Reisinger V, et al., 2011,
Investigating the Early Stages of Photosystem II Assembly in Synechocystis sp PCC 6803 <i>ISOLATION OF CP47 AND CP43 COMPLEXES</i>
, JOURNAL OF BIOLOGICAL CHEMISTRY, Vol: 286, Pages: 14812-14819- Author Web Link
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- Citations: 76
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Journal articleNishi K, Ono T, Nakamura T, et al., 2011,
Structural Insights into Differences in Drug-binding Selectivity between Two Forms of Human α1-Acid Glycoprotein Genetic Variants, the A and F1*S Forms
, Journal of Biological Chemistry, Vol: 286, Pages: 14427-14434, ISSN: 1083-351XHuman α(1)-acid glycoprotein (hAGP) in serum functions as a carrier of basic drugs. In most individuals, hAGP exists as a mixture of two genetic variants, the F1*S and A variants, which bind drugs with different selectivities. We prepared a mutant of the A variant, C149R, and showed that its drug-binding properties were indistinguishable from those of the wild type. In this study, we determined the crystal structures of this mutant hAGP alone and complexed with disopyramide (DSP), amitriptyline (AMT), and the nonspecific drug chlorpromazine (CPZ). The crystal structures revealed that the drug-binding pocket on the A variant is located within an eight-stranded β-barrel, similar to that found in the F1*S variant and other lipocalin family proteins. However, the binding region of the A variant is narrower than that of the F1*S variant. In the crystal structures of complexes with DSP and AMT, the two aromatic rings of each drug interact with Phe-49 and Phe-112 at the bottom of the binding pocket. Although the structure of CPZ is similar to those of DSP and AMT, its fused aromatic ring system, which is extended in length by the addition of a chlorine atom, appears to dictate an alternative mode of binding, which explains its nonselective binding to the F1*S and A variant hAGPs. Modeling experiments based on the co-crystal structures suggest that, in complexes of DSP, AMT, or CPZ with the F1*S variant, Phe-114 sterically hinders interactions with DSP and AMT, but not CPZ.
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Journal articleMasino L, Nicastro G, De Simone A, et al., 2011,
The Josephin Domain Determines the Morphological and Mechanical Properties of Ataxin-3 Fibrils
, BIOPHYSICAL JOURNAL, Vol: 100, Pages: 2033-2042, ISSN: 0006-3495- Author Web Link
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- Citations: 39
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Journal articleRyan AJ, Chung C-W, Curry S, 2011,
Crystallographic analysis reveals the structural basis of the high-affinity binding of iophenoxic acid to human serum albumin
, BMC STRUCTURAL BIOLOGY, Vol: 11- Author Web Link
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- Citations: 30
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Journal articleSheppard C, Camara B, Shadrin A, et al., 2011,
Inhibition of <i>Escherichia coli</i> RNAp by T7 Gp2 Protein: Role of Negatively Charged Strip of Amino Acid Residues in Gp2
, JOURNAL OF MOLECULAR BIOLOGY, Vol: 407, Pages: 623-632, ISSN: 0022-2836- Author Web Link
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- Citations: 9
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Journal articleAttia M, Foerster A, Rachez C, et al., 2011,
Interaction between Nucleosome Assembly Protein 1-like Family Members
, JOURNAL OF MOLECULAR BIOLOGY, Vol: 407, Pages: 647-660, ISSN: 0022-2836- Author Web Link
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- Citations: 33
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Journal articleGrippon S, Zhao Q, Robinson T, et al., 2011,
Differential modes of DNA binding by mismatch uracil DNA glycosylase from Escherichia coli: implications for abasic lesion processing and enzyme communication in the base excision repair pathway
, Nucleic Acids Research, Vol: 39, Pages: 2593-2603, ISSN: 1362-4962Mismatch uracil DNA glycosylase (Mug) fromEscherichia coli is an initiating enzyme in thebase-excision repair pathway. As with other DNAglycosylases, the abasic product is potentiallymore harmful than the initial lesion. Since Mug isknown to bind its product tightly, inhibitingenzyme turnover, understanding how Mug bindsDNA is of significance when considering how Muginteracts with downstream enzymes in the baseexcisionrepair pathway. We have demonstrateddifferential binding modes of Mug between its substrateand abasic DNA product using both band shiftand fluorescence anisotropy assays. Mug binds itsproduct cooperatively, and a stoichiometric analysisof DNA binding, catalytic activity and saltdependenceindicates that dimer formation is offunctional significance in both catalytic activity andproduct binding. This is the first report ofcooperativity in the uracil DNA glycosylase superfamilyof enzymes, and forms the basis of productinhibition in Mug. It therefore provides a new perspectiveon abasic site protection and the findingsare discussed in the context of downstream lesionprocessing and enzyme communication in the baseexcision repair pathway.
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Journal articleChoudhury HG, Cameron AD, Iwata S, et al., 2011,
Structure and mechanism of the chalcogen-detoxifying protein TehB from <i>Escherichia coli</i>
, BIOCHEMICAL JOURNAL, Vol: 435, Pages: 85-91, ISSN: 0264-6021- Author Web Link
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- Citations: 12
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Journal articleSalgado PS, Yan R, Rowan F, et al., 2011,
Expression, crystallization and preliminary X-ray data analysis of NT-Als9-2, a fungal adhesin from <i>Candida albicans</i>
, ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS, Vol: 67, Pages: 467-470- Author Web Link
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- Citations: 3
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Journal articlePetit SJ, Wise EL, Chambers JC, et al., 2011,
The CXCL16 A181V Mutation Selectively Inhibits Monocyte Adhesion to CXCR6 but Is Not Associated With Human Coronary Heart Disease
, ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY, Vol: 31, Pages: 914-920, ISSN: 1079-5642- Author Web Link
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- Citations: 16
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Journal articlePearson JS, Riedmaier P, Marches O, et al., 2011,
A type III effector protease NleC from enteropathogenic <i>Escherichia coli</i> targets NF-κB for degradation
, MOLECULAR MICROBIOLOGY, Vol: 80, Pages: 219-230, ISSN: 0950-382X- Author Web Link
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- Citations: 102
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Journal articleCherepanov P, Maertens GN, Hare S, 2011,
Structural insights into the retroviral DNA integration apparatus
, CURRENT OPINION IN STRUCTURAL BIOLOGY, Vol: 21, Pages: 249-256, ISSN: 0959-440X- Author Web Link
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- Citations: 85
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Journal articlevan Wilderen LJG, Lincoln CN, van Thor JJ, 2011,
Modelling multi-pulse population dynamics from ultrafast spectroscopy
, PLoS One, Vol: 6, Pages: 1-14, ISSN: 1932-6203Current advanced laser, optics and electronics technology allows sensitive recording of molecular dynamics, from single resonance to multi-colour and multi-pulse experiments. Extracting the occurring (bio-) physical relevant pathways via global analysis of experimental data requires a systematic investigation of connectivity schemes. Here we present a Matlab-based toolbox for this purpose. The toolbox has a graphical user interface which facilitates the application of different reaction models to the data to generate the coupled differential equations. Any time-dependent dataset can be analysed to extract time-independent correlations of the observables by using gradient or direct search methods. Specific capabilities (i.e. chirp and instrument response function) for the analysis of ultrafast pump-probe spectroscopic data are included. The inclusion of an extra pulse that interacts with a transient phase can help to disentangle complex interdependent pathways. The modelling of pathways is therefore extended by new theory (which is included in the toolbox) that describes the finite bleach (orientation) effect of single and multiple intense polarised femtosecond pulses on an ensemble of randomly oriented particles in the presence of population decay. For instance, the generally assumed flat-top multimode beam profile is adapted to a more realistic Gaussian shape, exposing the need for several corrections for accurate anisotropy measurements. In addition, the (selective) excitation (photoselection) and anisotropy of populations that interact with single or multiple intense polarised laser pulses is demonstrated as function of power density and beam profile. Using example values of real world experiments it is calculated to what extent this effectively orients the ensemble of particles. Finally, the implementation includes the interaction with multiple pulses in addition to depth averaging in optically dense samples. In summary, we show that mathematical modelling is es
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Journal articleCox N, Rapatskiy L, Su J-H, et al., 2011,
Effect of Ca<SUP>2+</SUP>/Sr<SUP>2+</SUP> Substitution on the Electronic Structure of the Oxygen-Evolving Complex of Photosystem II: A Combined Multifrequency EPR, <SUP>55</SUP>Mn-ENDOR, and DFT Study of the S<sub>2</sub> State
, JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, Vol: 133, Pages: 3635-3648, ISSN: 0002-7863- Author Web Link
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- Citations: 188
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