Quantitative analysis of molecular surfaces: areas, volumes, electrostatic potentials and average local ionization energies

被引:1048
作者
Bulat, Felipe A. [1 ]
Toro-Labbe, Alejandro [2 ]
Brinck, Tore [3 ]
Murray, Jane S. [4 ,5 ]
Politzer, Peter [4 ,5 ]
机构
[1] Fable Theory & Computat LLC, Washington, DC 20009 USA
[2] Pontificia Univ Catolica Chile, Fac Quim, Lab Quim Teor Computac QTC, Santiago 4860, Chile
[3] Royal Inst Technol KTH, Sch Chem Sci & Engn, SE-10044 Stockholm, Sweden
[4] Univ New Orleans, Dept Chem, New Orleans, LA 70148 USA
[5] CleveTheoComp, Cleveland, OH 44113 USA
关键词
Generation and analysis of molecular surfaces; Electrostatic potential; Average local ionization energy; Volume; Surface area; IMPACT SENSITIVITIES; HARTREE-FOCK; DENSITY; ATOMS; PREDICTIONS;
D O I
10.1007/s00894-010-0692-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
We describe a procedure for performing quantitative analyses of fields f(r) on molecular surfaces, including statistical quantities and locating and evaluating their local extrema. Our approach avoids the need for explicit mathematical representation of the surface and can be implemented easily in existing graphical software, as it is based on the very popular representation of a surface as collection of polygons. We discuss applications involving the volumes, surface areas and molecular surface electrostatic potentials, and local ionization energies of a group of 11 molecules.
引用
收藏
页码:1679 / 1691
页数:13
相关论文
共 57 条
[1]  
[Anonymous], CHEM REACTIVITY
[2]  
[Anonymous], ENCY COMPUTATIONAL C
[3]  
[Anonymous], ENCY COMPUTATIONAL C
[4]   SHAPE GROUP STUDIES OF MOLECULAR SIMILARITY - RELATIVE SHAPES OF VANDERWAALS AND ELECTROSTATIC POTENTIAL SURFACES OF NICOTINIC AGONISTS [J].
ARTECA, GA ;
JAMMAL, VB ;
MEZEY, PG ;
YADAV, JS ;
HERMSMEIER, MA ;
GUND, TM .
JOURNAL OF MOLECULAR GRAPHICS, 1988, 6 (01) :45-53
[5]   Halogen bonds in biological molecules [J].
Auffinger, P ;
Hays, FA ;
Westhof, E ;
Ho, PS .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2004, 101 (48) :16789-16794
[6]   PROPERTIES OF ATOMS IN MOLECULES - ATOMIC VOLUMES [J].
BADER, RFW ;
CARROLL, MT ;
CHEESEMAN, JR ;
CHANG, C .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1987, 109 (26) :7968-7979
[7]   MOLECULAR CHARGE DISTRIBUTIONS AND CHEMICAL BINDING [J].
BADER, RFW ;
HENNEKER, WH ;
CADE, PE .
JOURNAL OF CHEMICAL PHYSICS, 1967, 46 (09) :3341-&
[8]   VAN DER WAALS VOLUMES + RADII [J].
BONDI, A .
JOURNAL OF PHYSICAL CHEMISTRY, 1964, 68 (03) :441-+
[9]  
BRICKMANN J, 1998, ENCY COMPUTATIONAL C, V3, P1678
[10]   QUANTITATIVE-DETERMINATION OF THE TOTAL LOCAL POLARITY (CHARGE SEPARATION) IN MOLECULES [J].
BRINCK, T ;
MURRAY, JS ;
POLITZER, P .
MOLECULAR PHYSICS, 1992, 76 (03) :609-617