Experts and Doctors on nucleic acid conformation in Stockholm, Sweden

Summary

Locale: Stockholm, Sweden
Topic: nucleic acid conformation

Top Publications

  1. Roos K, Siegbahn P. Oxygen cleavage with manganese and iron in ribonucleotide reductase from Chlamydia trachomatis. J Biol Inorg Chem. 2011;16:553-65 pubmed publisher
    ..A tentative energy profile of the thermodynamics of the radical transfer from R2 to subunit I is constructed to illustrate how the stability of the active states can be understood from a thermodynamical point of view. ..
  2. Ronaghi M, Nygren M, Lundeberg J, Nyren P. Analyses of secondary structures in DNA by pyrosequencing. Anal Biochem. 1999;267:65-71 pubmed
    ..The obtained sequence data revealed four related palindromic sequences. The ability of different DNA polymerases to read through such secondary structures is also described. ..
  3. Sandström K, Warmlander S, Gräslund A, Leijon M. A-tract DNA disfavours triplex formation. J Mol Biol. 2002;315:737-48 pubmed
    ..These results may be valuable for understanding DNA triplex formation in vivo as well as for the design of efficient triplex-forming oligonucleotides and in choosing suitable target sequences in the anti-gene strategy. ..
  4. Kegel A, Betts Lindroos H, Kanno T, Jeppsson K, Ström L, Katou Y, et al. Chromosome length influences replication-induced topological stress. Nature. 2011;471:392-6 pubmed publisher
  5. Laurencikiene J, Källman A, Fong N, Bentley D, Ohman M. RNA editing and alternative splicing: the importance of co-transcriptional coordination. EMBO Rep. 2006;7:303-7 pubmed
    ..However, the CTD is required for efficient co-transcriptional auto-editing of ADAR2 intron 4. Our results implicate the CTD in site-selective RNA editing by ADAR2 and in coordination of editing with alternative splicing. ..
  6. Wahlstedt H, Ohman M. Site-selective versus promiscuous A-to-I editing. Wiley Interdiscip Rev RNA. 2011;2:761-71 pubmed publisher
    ..We discuss how these two editing events have evolved and the structural differences between a site selective and hyper-edited substrate. ..
  7. Sunnerhagen M, Nilges M, Otting G, Carey J. Solution structure of the DNA-binding domain and model for the complex of multifunctional hexameric arginine repressor with DNA. Nat Struct Biol. 1997;4:819-26 pubmed
    ..The structural independence of the wHTH fold may be important for multimeric DNA-binding proteins that contact extended DNA regions with imperfect match to consensus sequences, a feature of many wHTH-domain proteins. ..
  8. Daniel C, Venø M, Ekdahl Y, Kjems J, Ohman M. A distant cis acting intronic element induces site-selective RNA editing. Nucleic Acids Res. 2012;40:9876-86 pubmed publisher
    ..In human, thousands of genes are edited in duplexes formed by inverted repeats in non-coding regions. It is likely that numerous such duplexes can induce editing of coding regions throughout the transcriptome. ..
  9. Bakalkin G, Selivanova G, Yakovleva T, Kiseleva E, Kashuba E, Magnusson K, et al. p53 binds single-stranded DNA ends through the C-terminal domain and internal DNA segments via the middle domain. Nucleic Acids Res. 1995;23:362-9 pubmed
    ..Our results suggest that the interaction of the C-terminal tail of p53 with ss DNA ends generated by DNA damage in vivo may lead to activation of non-specific ss DNA binding by the central domain of p53. ..

More Information

Publications15

  1. Melefors O. Translational regulation in vivo of the Drosophila melanogaster mRNA encoding succinate dehydrogenase iron protein via iron responsive elements. Biochem Biophys Res Commun. 1996;221:437-41 pubmed
    ..Addition of hemin to the drosophila cells lead to fragmentation of the SDH-IP, which might suggest additional mode to specifically down-regulate the expression of this protein and Krebs cycle function. ..
  2. Arner E, Sarioglu H, Lottspeich F, Holmgren A, Bock A. High-level expression in Escherichia coli of selenocysteine-containing rat thioredoxin reductase utilizing gene fusions with engineered bacterial-type SECIS elements and co-expression with the selA, selB and selC genes. J Mol Biol. 1999;292:1003-16 pubmed
    ..These results show that with the strategy utilized here, the capacity of selenoprotein synthesis in E. coli is more than sufficient for making possible the use of the bacteria for production of recombinant selenoproteins. ..
  3. van Dam L, Levitt M. BII nucleotides in the B and C forms of natural-sequence polymeric DNA: A new model for the C form of DNA. J Mol Biol. 2000;304:541-61 pubmed
    ..This work shows that the B to C transition in fibers corresponds to BI to BII conformational changes of the individual nucleotides...
  4. Carter S, Sjögren C. The SMC complexes, DNA and chromosome topology: right or knot?. Crit Rev Biochem Mol Biol. 2012;47:1-16 pubmed publisher
    ..This review focuses on the details of the relationship between the SMC complexes and topology. It also discusses the possibility that the SMC complexes are united by a capability to sense the geometrical chirality of DNA crossings. ..
  5. Segerstolpe Ã, Granneman S, Björk P, de Lima Alves F, Rappsilber J, Andersson C, et al. Multiple RNA interactions position Mrd1 at the site of the small subunit pseudoknot within the 90S pre-ribosome. Nucleic Acids Res. 2013;41:1178-90 pubmed publisher
    ..We speculate that the modular structure of Mrd1 coordinates pseudoknot formation with pre-rRNA processing and subunit assembly. ..
  6. Yang L, Orenstein Y, Jolma A, Yin Y, Taipale J, Shamir R, et al. Transcription factor family-specific DNA shape readout revealed by quantitative specificity models. Mol Syst Biol. 2017;13:910 pubmed publisher
    ..Overall, this work suggests a way of obtaining mechanistic insights into TF-DNA binding without relying on experimentally solved all-atom structures. ..