IBBR Publications

Found 185 results
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2014
Hickman AB, Ewis HE, Li X, Knapp JA, Laver T, Doss A-L, Tolun G, Steven AC, Grishaev A, Bax A, et al. Structural basis of hAT transposon end recognition by Hermes, an octameric DNA transposase from Musca domestica. Cell. 2014 ;158(2):353-67.
2013
Jain V, Hilton B, Lin B, Jain A, Mackerell AD, Zou Y, Cho BP. Structural and thermodynamic insight into Escherichia coli UvrABC-mediated incision of cluster diacetylaminofluorene adducts on the NarI sequence. Chem Res Toxicol. 2013 ;26(8):1251-62.
Jain V, Hilton B, Lin B, Patnaik S, Liang F, Darian E, Zou Y, Mackerell AD, Cho BP. Unusual sequence effects on nucleotide excision repair of arylamine lesions: DNA bending/distortion as a primary recognition factor. Nucleic Acids Res. 2013 ;41(2):869-80.
2012
Wang X, Culver JN. DNA binding specificity of ATAF2, a NAC domain transcription factor targeted for degradation by Tobacco mosaic virus. BMC Plant Biol. 2012 ;12:157.
Chu SW, Noyes MB, Christensen RG, Pierce BG, Zhu LJ, Weng Z, Stormo GD, Wolfe SA. Exploring the DNA-recognition potential of homeodomains. Genome Res. 2012 ;22(10):1889-98.
O'Brochta DA, Pilitt KL, Harrell RA, Aluvihare C, Alford RT. Gal4-based enhancer-trapping in the malaria mosquito Anopheles stephensi. G3 (Bethesda). 2012 ;2(11):1305-15.
2011
Kim YJung, Hice RH, O'Brochta DA, Atkinson PW. DNA sequence requirements for hobo transposable element transposition in Drosophila melanogaster. Genetica. 2011 ;139(8):985-97.
Graham JE, Clark ME, Nadler DC, Huffer S, Chokhawala HA, Rowland SE, Blanch HW, Clark DS, Robb FT. Identification and characterization of a multidomain hyperthermophilic cellulase from an archaeal enrichment. Nat Commun. 2011 ;2:375.
Arensburger P, Hice RH, Zhou L, Smith RC, Tom AC, Wright JA, Knapp J, O'Brochta DA, Craig NL, Atkinson PW. Phylogenetic and functional characterization of the hAT transposon superfamily. Genetics. 2011 ;188(1):45-57.
2010
Techtmann SM, Robb FT. Archaeal-like chaperonins in bacteria. Proc Natl Acad Sci U S A. 2010 ;107(47):20269-74.
West AL, St John F, Lopes PEM, Mackerell AD, Pozharski E, Michel SLJ. Holo-Ni(II)HpNikR is an asymmetric tetramer containing two different nickel-binding sites. J Am Chem Soc. 2010 ;132(41):14447-56.
Semenyuk A, Darian E, Liu J, Majumdar A, Cuenoud B, Miller PS, Mackerell AD, Seidman MM. Targeting of an interrupted polypurine:polypyrimidine sequence in mammalian cells by a triplex-forming oligonucleotide containing a novel base analogue. Biochemistry. 2010 ;49(36):7867-78.
2009
Haugland GTeien, Rollor CR, Birkeland N-K, Kelman Z. Biochemical characterization of the minichromosome maintenance protein from the archaeon Thermoplasma acidophilum. Extremophiles. 2009 ;13(1):81-8.
Banavali NK, Mackerell AD. Characterizing structural transitions using localized free energy landscape analysis. PLoS One. 2009 ;4(5):e5525.
Lee H-W, Briggs KT, Marino JP. Dissecting structural transitions in the HIV-1 dimerization initiation site RNA using 2-aminopurine fluorescence. Methods. 2009 ;49(2):118-27.
Luo H, Laksanalamai P, Robb FT. An exceptionally stable Group II chaperonin from the hyperthermophile Pyrococcus furiosus. Arch Biochem Biophys. 2009 ;486(1):12-8.
Tasumi S, Velikovsky CA, Xu G, S Gai A, K Wittrup D, Flajnik MF, Mariuzza RA, Pancer Z. High-affinity lamprey VLRA and VLRB monoclonal antibodies. Proc Natl Acad Sci U S A. 2009 ;106(31):12891-6.
Yang X, Shi X-W, Liu Y, Bentley WE, Payne GF. Orthogonal enzymatic reactions for the assembly of proteins at electrode addresses. Langmuir. 2009 ;25(1):338-44.
Brinson RG, Turner KB, Yi-Brunozzi HYoung, Le Grice SFJ, Fabris D, Marino JP. Probing anomalous structural features in polypurine tract-containing RNA-DNA hybrids with neomycin B. Biochemistry. 2009 ;48(29):6988-97.
Turner KB, Yi-Brunozzi HYoung, Brinson RG, Marino JP, Fabris D, Le Grice SFJ. SHAMS: combining chemical modification of RNA with mass spectrometry to examine polypurine tract-containing RNA/DNA hybrids. RNA. 2009 ;15(8):1605-13.
O'Brochta DA, Stosic CD, Pilitt K, Subramanian RA, Hice RH, Atkinson PW. Transpositionally active episomal hAT elements. BMC Mol Biol. 2009 ;10:108.
2008
Pal S, Wu J, Wu LP. Microarray analyses reveal distinct roles for Rel proteins in the Drosophila immune response. Dev Comp Immunol. 2008 ;32(1):50-60.
Padmanabhan MS, Kramer SR, Wang X, Culver JN. Tobacco mosaic virus replicase-auxin/indole acetic acid protein interactions: reprogramming the auxin response pathway to enhance virus infection. J Virol. 2008 ;82(5):2477-85.
Subramanian RA, Akala OO, Adejinmi JO, O'Brochta DA. Topi, an IS630/Tc1/mariner-type transposable element in the African malaria mosquito, Anopheles gambiae. Gene. 2008 ;423(1):63-71.
2007
Macias AT, Banavali NK, Mackerell AD. DNA bending induced by carbocyclic sugar analogs constrained to the north conformation. Biopolymers. 2007 ;85(5-6):438-49.