Report No xxxx - Instytut Fizyki JÄdrowej PAN

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STRUCTURAL ANALYSIS OF RNA DUPLEXES CONTAINING ADENOSINE BULGES BY NMR SPECTROSCOPY Łukasz Popenda 1 , Zofia Gdaniec 1 , Grażyna Dominiak 1 , Jan Milecki 2 , Ryszard W. Adamiak 1 1 Institute of Bioorganic Chemistry, Polish Academy of Sciences, Z. <strong>No</strong>skowskiego 12/14, 61 704 Poznań, Poland; 2 Department of Chemistry, Adam Mickiewicz University Grunwaldzka 6, 60-780 Poznań, Poland Double stranded regions of RNA molecules contain structural motifs, in which one or more residues in one strand does not have the pairing residue in the opposite strand. Bulges are the simplest as well as the most abundant structural motifs that play a crucial structural and functional role in many RNAs [1]. At present, bulges are known to participate in the process of RNA folding, RNA-RNA and RNA-protein interactions [2]. Previous thermodynamic studies on the influence of bulges on RNA duplexes stability [3] has resulted in the following observations: (i) all the bulges destabilise the duplexes, (ii) bulges containing the same number of A and U residues destabilise RNA duplexes to the same extent, (iii) long bulges not necessarily destabilise the duplex more than the shorter ones. Up to now, no systematic structural studies on the preferable conformation of these RNA motifs have been done. This is important to emphasize that very often bulged structures that are obtained from X-ray analysis differ from those determined in solution by NMR spectroscopy. This fact is an additional reason for doing the structural studies in solution. The subject of our research are bulged RNA duplexes containing unpaired adenine residues. Analysis of homo- and heteronuclear NMR spectra (2D NOESY, DQF-COSY, 1 H- 13 C HSQC, 1 H- 31 P HSQC) let us to conclude about the structure and dynamics of RNA duplexes with single- and trinucleotide bulges. Our data show that the bulged residues within RNA duplexes containing single bulged adenosine, tend to stack into the helix. The experimental data reveal that the accommodation of bulged adenine residue between the neighbouring base pairs, does not disturbe the regular A-RNA structure. Analysis of NMR spectra and the thermodynamic data obtained for the duplex with three bulged adenine residues show that the presence of additional residues within the bulged region causes a considerable destabilisation of the duplex structure. Literature: [1] M. E. Burkard, D. H.Turner, I. Tinoco Jr. in: RNA World II, R. Gesteland, T. Cech, and J. Atkins (ed), Cold Spring Harbor Press, 1999, str. 233 [2] T. Hermann, D. J. Patel, Structure, 8 (2000), 47 [3] C. E. Longfellow, R. Kierzek, D. H. Turner, Biochemistry, 29 (1990) 278 76
NMR STUDY OF LAYERED ANGANITE La 1.4 Sr 1.6 Mn 2 O 7 Damian Rybicki a , Czesław Kapusta a,b , Peter Charles Riedi b , Colin John Oates a , Dariusz Zając a , Marcin Sikora a , Clara Marquina c , Ricardo Ibarra c a Department of Solid State Physics, Faculty of Physics & Nuclear Techniques, AGH University of Science and Technology, Kraków, Poland; b Department of Physics & Astronomy, University of St. Andrews, St. Andrews, KY16 9SS Scotland, United Kingdom; c Instituto de Ciencias de Materiales de Aragon, Universidad de Zaragoza CSIC, 50009 Zaragoza, Spain A 55 Mn nuclear magnetic resonance study of a layered perovskite La 1.4 Sr 1.6 Mn 2 O 7 is reported. Between 4.2K and the magnetic ordering temperature, 100K, zero field spin echo spectra consist of signals corresponding to the double-exchange (DE) states and charge localised (CL) Mn 3+ , Mn 4+ states. This indicates occurrence of electronic and magnetic phase segregation into ferromagnetic metallic and ferromagnetic insulating regions. Above 100K a DE line is observed, revealing the presence of long lived metallic clusters. The relation of results to magnetoresistive properties of the compound is discussed. 77
Page 1 and 2:
The Henryk Niewodniczański INSTITU
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Contents R. Banyś, A. Słowik, M.
Page 5 and 6:
J. Kolmas, M. Uniczko, E. Kalinowsk
Page 7 and 8:
Ł. Popenda, Z. Gdaniec, G. Dominia
Page 9 and 10:
USEFULNESS OF PROTON MAGNETIC RESON
Page 11 and 12:
INFLUENCE OF PARAMAGNETIC IONS ON F
Page 13 and 14:
NMR RELAXATION OF PAPER SAMPLES Bar
Page 15 and 16:
SPIN-LATTICE RELAXATION OF D 2 QUAN
Page 17 and 18:
INVESTIGATION OF NEUROPROTECTING EF
Page 19 and 20:
OPTICAL PUMPING OF 3 He Katarzyna C
Page 21 and 22:
NMR STUDY OF GELATION PROCESS OF LO
Page 23 and 24:
MRI INVESTIGATIONS OF HYDROGEL FORM
Page 25 and 26: CHEMICAL SHIFT TITRATION AT THE INT
Page 27 and 28: LOCAL DYNAMICS AND ORGANIZATION OF
Page 29 and 30: 1 H NMR DETECTION OF σ-ADDUCTS IN
Page 31 and 32: HYDRATION OF WHEAT PHOTOSYNTHETIC M
Page 33 and 34: References: 1. H. Harańczyk On wat
Page 35 and 36: (EDV) and end-systolic (ESV) volume
Page 37 and 38: THE MOST STABLE POLYMORPHIC FORM OF
Page 39 and 40: A DETERMINATION OF ABSOLUTE SHIELDI
Page 41 and 42: DIAGNOTIC VALUE OF MRI IN CONVERSIO
Page 43 and 44: NMR AND FTIR STUDY OF MOLECULAR DYN
Page 45 and 46: EFFECTS OF INTERMOLECULAR INTERACTI
Page 47 and 48: 600000 Integral of 1D MRI profils [
Page 49 and 50: simultaneous analyse of the tempera
Page 51 and 52: 1 H NMR STUDIES OF PLATINUM(II) CHL
Page 53 and 54: 35 Cl-NQR STUDY OF ELECTRONIC STRUC
Page 55 and 56: 35 Cl- NQR AND 1 H-NMR STUDY OF MOL
Page 57 and 58: THE SYNTHESIS AND NMR ANALYSIS OF T
Page 59 and 60: STUDY OF MOTIONAL PROCESSES OF DRAW
Page 61 and 62: intensity (arb. units) 0,20 0,15 0,
Page 63 and 64: data for Cβ-nonplanar model 3 are
Page 65 and 66: T 1 DISPERSION AND SELF-DIFFUSION N
Page 67 and 68: A LOW FIELD MRI SYSTEM FOR HYPERPOL
Page 69 and 70: 1 H MAS NMR OF FLAVONOIDS Katarzyna
Page 71 and 72: EFFECT OF TEMPERATURE ON LIPOSOME S
Page 73 and 74: 1 H, 13 C NMR AND GIAO/DFT CALCULAT
Page 75: NMR STUDY OF THE HUMIC ACIDS EXTRAC
Page 79 and 80: MAGNETIC SUSCEPTIBILITY EVALUATION
Page 81 and 82: A NOVEL SOURCE OF MAGNETIC FIELD FO
Page 83 and 84: DETERMINATION OF AMINO ACIDS IN BOD
Page 85 and 86: MOLECULAR DYNAMICS OF TERT-BUTYL CH
Page 87 and 88: MR MICROSCOPY IN COMPARISON OF YOUN
Page 89 and 90: NH CH CH 2 NH CH CO COONa n CH 2 m
Page 91 and 92: 35 Cl-NQR STUDY OF MOLECULAR DYNAMI
Page 93 and 94: 35 Cl-NQR STUDY OF THE SUBSTITUENT
Page 95 and 96: 13 C AND 1 H NUCLEAR MAGNETIC SHIEL
Page 97 and 98: 13 C CPMAS NMR OF ANTHOCYANINS AND
Page 99 and 100: INVESTIGATION OF TRANSESTERIFICATIO
Page 101 and 102: T 2 RELAXATION MAP OF ARTICULAR CAR
Page 103 and 104: MICROTOMOGRAPHY STUDIES OF TABLETS
Page 105 and 106: MAPPING OF THE BI-EXPONENTIAL DIFFU
Page 107 and 108: DEUTERIUM NMR IN RMn 2 D 2 (R = Y,
Page 109 and 110: The neutron scattering (IINS, QNS,
Page 111 and 112: STRUCTURE OF 4-QUINOLINONES ANALYSE
Page 113: NMR MULTIPOLE RELAXATION IN THE ROT
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