SEQUENCE-DEPENDENT BENDING PROPENSITY OF DNA AS REVEALED BY DNASE-I - PARAMETERS FOR TRINUCLEOTIDES

被引：257
作者：
BRUKNER, I
SANCHEZ, R
SUCK, D
PONGOR, S
机构：
[1] INT CTR GENET ENGN & BIOTECHNOL,I-34012 TRIESTE,ITALY
[2] EUROPEAN MOLEC BIOL LAB,DIV BIOL STRUCT & BIOCOMP,D-69012 HEIDELBERG,GERMANY
来源：
EMBO JOURNAL | 1995年 / 14卷 / 08期
关键词：
DNA CURVATURE; DNA FLEXIBILITY; DNA-PROTEIN INTERACTION; DNASE I; TRINUCLEOTIDES;
D O I：
10.1002/j.1460-2075.1995.tb07169.x
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：
Structural parameters characterizing the bending propensity of trinucleotides were deduced from DNase I digestion data using simple probabilistic models. In contrast to dinucleotide-based models of DNA bending and/or bendability, the trinucleotide parameters are in good agreement with X-ray crystallographic data on bent DNA. This improvement may be due to the fact that the trinucleotide model incorporates more sequence context information than do dinucleotide-based descriptions.
引用
收藏
页码：1812 / 1818
页数：7
相关论文
共 38 条
[1]   CAP BINDING-SITES REVEAL PYRIMIDINE-PURINE PATTERN CHARACTERISTIC OF DNA BENDING [J].
BARBER, AM ;
ZHURKIN, VB .
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 1990, 8 (02) :213-232
[2]   CURVED DNA WITHOUT A-A - EXPERIMENTAL ESTIMATION OF ALL 16 DNA WEDGE ANGLES [J].
BOLSHOY, A ;
MCNAMARA, P ;
HARRINGTON, RE ;
TRIFONOV, EN .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1991, 88 (06) :2312-2316
[3]   PROTEIN DNA CONFORMATIONAL-CHANGES IN THE CRYSTAL-STRUCTURE OF A LAMBDA-CRO-OPERATOR COMPLEX [J].
BRENNAN, RG ;
RODERICK, SL ;
TAKEDA, Y ;
MATTHEWS, BW .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1990, 87 (20) :8165-8169
[4]   PHYSIOLOGICAL CONCENTRATION OF MAGNESIUM-IONS INDUCES A STRONG MACROSCOPIC CURVATURE IN GGGCCC-CONTAINING DNA [J].
BRUKNER, I ;
SUSIC, S ;
DLAKIC, M ;
SAVIC, A ;
PONGOR, S .
JOURNAL OF MOLECULAR BIOLOGY, 1994, 236 (01) :26-32
[5]   SEQUENCE-DEPENDENT STRUCTURAL VARIATIONS OF DNA REVEALED BY DNASE-I [J].
BRUKNER, I ;
JURUKOVSKI, V ;
SAVIC, A .
NUCLEIC ACIDS RESEARCH, 1990, 18 (04) :891-894
[6]   EVIDENCE FOR OPPOSITE GROOVE-DIRECTED CURVATURE OF GGGCCC AND AAAAA SEQUENCE ELEMENTS [J].
BRUKNER, I ;
DLAKIC, M ;
SAVIC, A ;
SUSIC, S ;
PONGOR, S ;
SUCK, D .
NUCLEIC ACIDS RESEARCH, 1993, 21 (04) :1025-1029
[7]   THE INTRINSIC CURVATURE OF DNA IN SOLUTION [J].
CALLADINE, CR ;
DREW, HR ;
MCCALL, MJ .
JOURNAL OF MOLECULAR BIOLOGY, 1988, 201 (01) :127-137
[8]   PRINCIPLES OF SEQUENCE-DEPENDENT FLEXURE OF DNA [J].
CALLADINE, CR ;
DREW, HR .
JOURNAL OF MOLECULAR BIOLOGY, 1986, 192 (04) :907-918
[9]   VALIDITY OF THE NEAREST-NEIGHBOR APPROXIMATION IN THE EVALUATION OF THE ELECTROPHORETIC MANIFESTATIONS OF DNA CURVATURE [J].
DESANTIS, P ;
PALLESCHI, A ;
SAVINO, M ;
SCIPIONI, A .
BIOCHEMISTRY, 1990, 29 (39) :9269-9273
[10]   TEMPERATURE AND SALT DEPENDENCE OF THE GEL MIGRATION ANOMALY OF CURVED DNA FRAGMENTS [J].
DIEKMANN, S .
NUCLEIC ACIDS RESEARCH, 1987, 15 (01) :247-265
1234