One-into-many model: An approach on DFT based reactivity descriptor to predict the regioselectivity of large systems

被引:29
作者
Saha, Soumen [1 ]
Roy, Ram Kinkar [1 ]
机构
[1] Birla Inst Technol & Sci, Dept Chem, Pilani 330331, Rajasthan, India
关键词
D O I
10.1021/jp070417s
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
The present work consists of the development of a new model (named "one-into-many") to predict the regioselectivity of large chemical and biological systems. Large chemical and biological systems with multiple reactive sites are proposed to be broken into small fragments having at least one reactive site in each fragment. The environment around each reactive site is mimicked by incorporating a buffer zone. Local reactivity descriptor (i.e., local hardness), originally proposed by Berkowitz et al. (J. Am. Chem. Soc. 1985, 107, 6811) and later implemented by Langenaeker et al. (J. Phys. Chem. 1995, 99, 6424), is evaluated for each reactive site adopting a new modified approach (i.e., without neglecting kinetic energy and exchange energy parts). When the model is applied to predict the regioselectivity (toward an electrophilic attack) of the base pairs in DNA (PDB ID: 1BNA) (Proc. Natl. Acad. Sci. U.S.A. 1981, 78, 2179) the generated results are found to be satisfactory in most cases.
引用
收藏
页码:9664 / 9674
页数:11
相关论文
共 61 条
[1]   Ab initio quality one-electron properties of large molecules: Development and testing of molecular tailoring approach [J].
Babu, K ;
Gadre, SR .
JOURNAL OF COMPUTATIONAL CHEMISTRY, 2003, 24 (04) :484-495
[2]   ON THE CONCEPT OF LOCAL HARDNESS IN CHEMISTRY [J].
BERKOWITZ, M ;
GHOSH, SK ;
PARR, RG .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1985, 107 (24) :6811-6814
[3]   The potassium ion channel: Comparison of linear scaling semiempirical and molecular mechanics representations of the electrostatic potential [J].
Bliznyuk, AA ;
Rendell, AP ;
Allen, TW ;
Chung, SH .
JOURNAL OF PHYSICAL CHEMISTRY B, 2001, 105 (50) :12674-12679
[4]   A simplified density matrix minimization for linear scaling self-consistent field theory [J].
Challacombe, M .
JOURNAL OF CHEMICAL PHYSICS, 1999, 110 (05) :2332-2342
[5]   Hydrogen-bond acid/base catalysis: A density functional theory study of protonated guanine-(substituted) cytosine base pairs as models for nucleophilic attack on mitomycin in DNA [J].
Dannenberg, JJ ;
Tomasz, M .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 2000, 122 (09) :2062-2068
[6]   Reactivity of guanine at m5CpG steps in DNA:: evidence for electronic effects transmitted through the base pairs [J].
Das, A ;
Tang, KS ;
Gopalakrishnan, S ;
Waring, MJ ;
Tomasz, M .
CHEMISTRY & BIOLOGY, 1999, 6 (07) :461-471
[7]   MODEL FOR ENERGETICS OF SOLIDS BASED ON THE DENSITY-MATRIX [J].
DAW, MS .
PHYSICAL REVIEW B, 1993, 47 (16) :10895-10898
[8]   REACTION OF 7-BROMOMETHYLBENZ[A]ANTHRACENE WITH NUCLEIC ACIDS, POLYNUCLEOTIDES, AND NUCLEOSIDES [J].
DIPPLE, A ;
BROOKES, P ;
MACKINTOSH, DS ;
RAYMAN, MP .
BIOCHEMISTRY, 1971, 10 (23) :4323-+
[9]   DNA-ADDUCTS OF CHEMICAL CARCINOGENS [J].
DIPPLE, A .
CARCINOGENESIS, 1995, 16 (03) :437-441
[10]  
Dirac PAM, 1930, P CAMB PHILOS SOC, V26, P376