A new method to determine DNA sugar conformation from the joint use of 2D and 3D NMR data

被引:3
作者
Chaoui, M [1 ]
Mauffret, O [1 ]
Lefebvre, A [1 ]
Lescot, E [1 ]
Tevanian, G [1 ]
Fermandjian, S [1 ]
机构
[1] INST GUSTAVE ROUSSY,URA 147 CNRS,DEPT BIOL & PHARMACOL STRUCT,PR 2,F-94805 VILLEJUIF,FRANCE
关键词
B-DNA; 3D NOE-NOE; sugar conformation;
D O I
10.1023/A:1018306210123
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
The use of sugar restraints has been proven essential for assessing DNA structures through molecular modeling studies. We present a new method combining 2D (COSY and NOESY) and 3D (NOESY-NOESY) experiments, where constraints on either the phase angles or the difference between phase angles of two residues are obtained from comparison of 2D NOE H1'-H4' intensities and 3D NOE intensities containing the H1'-H4' transfer. All experiments lead to restraints that match, proving the validity of the method.
引用
收藏
页码:187 / 192
页数:6
相关论文
共 24 条
[1]   DISTANCE MEASUREMENT AND STRUCTURE REFINEMENT WITH NOE DATA [J].
BALEJA, JD ;
MOULT, J ;
SYKES, BD .
JOURNAL OF MAGNETIC RESONANCE, 1990, 87 (02) :375-384
[2]   SOLUTION CONFORMATION OF PURINE-PYRIMIDINE DNA OCTAMERS USING NUCLEAR-MAGNETIC-RESONANCE, RESTRAINED MOLECULAR-DYNAMICS AND NOE-BASED REFINEMENT [J].
BALEJA, JD ;
GERMANN, MW ;
VANDESANDE, JH ;
SYKES, BD .
JOURNAL OF MOLECULAR BIOLOGY, 1990, 215 (03) :411-428
[3]   A PRACTICAL APPROACH TO CALCULATIONS OF BIOMOLECULAR STRUCTURES FROM HOMONUCLEAR 3-DIMENSIONAL NOE-NOE SPECTRA [J].
BERNSTEIN, R ;
ROSS, A ;
CIESLAR, C ;
HOLAK, TA .
JOURNAL OF MAGNETIC RESONANCE SERIES B, 1993, 101 (02) :185-188
[4]   OBSERVATION OF SPIN DIFFUSION IN BIOMOLECULES BY 3-DIMENSIONAL NOE-NOE SPECTROSCOPY [J].
BOELENS, R ;
VUISTER, GW ;
KONING, TMG ;
KAPTEIN, R .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1989, 111 (22) :8525-8526
[5]   DIRECT STRUCTURE REFINEMENT USING 3D-NOE-NOE SPECTRA OF BIOMOLECULES [J].
BONVIN, AMJJ ;
BOELENS, R ;
KAPTEIN, R .
JOURNAL OF MAGNETIC RESONANCE, 1991, 95 (03) :626-631
[6]   BASE DEPENDENCE OF B-DNA SUGAR CONFORMATION IN SOLUTION AND IN THE SOLID-STATE [J].
CHUPRINA, VP ;
NERDAL, W ;
SLETTEN, E ;
POLTEV, VI ;
FEDOROFF, OY .
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 1993, 11 (03) :671-683
[7]   FAST AND PRECISE AUTOMATIC BASE-LINE CORRECTION OF ONE-DIMENSIONAL AND 2-DIMENSIONAL NMR-SPECTRA [J].
DIETRICH, W ;
RUDEL, CH ;
NEUMANN, M .
JOURNAL OF MAGNETIC RESONANCE, 1991, 91 (01) :1-11
[8]   EXACT VS APPROXIMATE METHODS FOR SIMULATION OF 3D NOE-NOE SPECTRA [J].
DONNE, DG ;
GOZANSKY, EK ;
GORENSTEIN, DG .
JOURNAL OF MAGNETIC RESONANCE SERIES B, 1995, 106 (02) :156-163
[9]   SOLUTION STRUCTURE STUDIES OF D(AC)4.D(GT)4 VIA RESTRAINED MOLECULAR-DYNAMICS SIMULATIONS WITH NMR CONSTRAINTS DERIVED FROM 2-DIMENSIONAL NOE AND DOUBLE-QUANTUM-FILTERED COSY EXPERIMENTS [J].
GOCHIN, M ;
JAMES, TL .
BIOCHEMISTRY, 1990, 29 (51) :11172-11180
[10]   2-DIMENSIONAL COSY AND 2-DIMENSIONAL NOE SPECTROSCOPY OF D(AC)4.D(GT)4 - EXTRACTION OF STRUCTURAL CONSTRAINTS [J].
GOCHIN, M ;
ZON, G ;
JAMES, TL .
BIOCHEMISTRY, 1990, 29 (51) :11161-11171