       Document 0907
 DOCN  M9650907
 TI    High resolution 2D-NMR studies indicating complete assignments and
       conformational characteristics of the NF-kappa B binding enhancer
       element of HIV-LTR.
 DT    9605
 AU    Singh MP; Fregeau NL; Pon RT; Lown JW; Department of Chemistry,
       University of Alberta, Edmonton, Canada.
 SO    J Biomol Struct Dyn. 1995 Oct;13(2):269-84. Unique Identifier : AIDSLINE
       MED/96127168
 AB    The asymmetrical DNA duplex [5'd(AAGGGACTTTCC)].[5'-d(GGAAAGTCCCTT)] has
       been studied by one- and two-dimensional NMR techniques. The sequence is
       comprised of the actual 10 base-pair long binding site for the
       transcription factor NF-kappa B in the enhancer sequence of the long
       term repeat (LTR) region of HIV and SIV types of retroviruses associated
       with the AIDS syndrome. Two additional A.T base-pairs are also included
       on one end for an added interest in the 12-bp duplex sequence with a
       pseudo dyad-symmetric disposition of the oligopurine and oligopyrimidine
       segments, as it appears in the HIV-1 genome. Phase-sensitive
       two-dimensional spectra (NOESY, ROESY, COSY and TOCSY) were obtained at
       three different temperatures (5, 15 and 25 degrees C) for a complete
       assignment of the non-exchangeable protons by tracing through sequence
       specific intra- and internucleotide connectivities. 2D-NOESY spectra
       were also acquired in aqueous (90% H2O-D2O) solutions, with two
       different methods of water signal suppression, to assign the
       exchangeable protons from specific NOE correlations. Adenine H2 protons
       were assigned by the use of NOE correlations and from T1 relaxation time
       measurements. The general spectral features and semi-quantitative
       interproton distance estimates indicate a B-DNA type conformation.
       However, some distinctly unusual features associated with the
       nucleotides at and immediately adjacent to both the 5'-and 3'-ends of
       AAA/TTT and GGG/CCC segments were noted. The complete assignments, and
       the observed characteristics, will be of significant value in studying
       the complexes of this transcriptionally active DNA domain with the
       protein and other rationally designed DNA binding agents.
 DE    Base Sequence  Chromosome Mapping  *Enhancer Elements (Genetics)
       HIV/*GENETICS  Molecular Sequence Data  Nuclear Magnetic
       Resonance/*METHODS  Nucleic Acid Conformation  NF-kappa B/*GENETICS
       Protein Binding  *Repetitive Sequences, Nucleic Acid  Support, Non-U.S.
       Gov't  JOURNAL ARTICLE

       SOURCE: National Library of Medicine.  NOTICE: This material may be
       protected by Copyright Law (Title 17, U.S.Code).

