AN UNBOUNDED SYSTEMATIC SEARCH OF CONFORMATIONAL SPACE

被引:248
作者
GOODMAN, JM [1 ]
STILL, WC [1 ]
机构
[1] COLUMBIA UNIV,DEPT CHEM,NEW YORK,NY 10027
关键词
D O I
10.1002/jcc.540120908
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
A new method for searching internal coordinate conformational space systematically via a continuous-process procedure is described. Unlike previous systematic search methods, the new scheme generates torsionally remote conformers early in the search. It is also unbounded in that the extent of the search need not be specified at the outset. The search begins at low resolution (120-degrees in torsion angle space) and then goes to higher and higher resolution as all points in space at a given resolution have been searched. The search may run without end or be terminated when new conformers cease to be found or when all space at some maximum allowable resolution has been explored. Conformational searches on several medium- and large-ring molecules using the new method are described and the results are compared with those from certain previously described search methods. It is found that the new method is significantly more efficient than previous procedures at finding all low energy conformers of organic molecules.
引用
收藏
页码:1110 / 1117
页数:8
相关论文
共 12 条
[1]   PREDICTION OF THE FOLDING OF SHORT POLYPEPTIDE SEGMENTS BY UNIFORM CONFORMATIONAL SAMPLING [J].
BRUCCOLERI, RE ;
KARPLUS, M .
BIOPOLYMERS, 1987, 26 (01) :137-168
[2]   CONFORMATIONAL-ANALYSIS OF A CYCLIC PENTAPEPTIDE BY ONE-DIMENSIONAL AND 2-DIMENSIONAL NUCLEAR OVERHAUSER EFFECT SPECTROSCOPY [J].
BRUCH, MD ;
NOGGLE, JH ;
GIERASCH, LM .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1985, 107 (05) :1400-1407
[3]   AN INTERNAL COORDINATE MONTE-CARLO METHOD FOR SEARCHING CONFORMATIONAL SPACE [J].
CHANG, G ;
GUIDA, WC ;
STILL, WC .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1989, 111 (12) :4379-4386
[4]   A NEW APPROACH TO PROBING CONFORMATIONAL SPACE WITH MOLECULAR MECHANICS - RANDOM INCREMENTAL PULSE SEARCH [J].
FERGUSON, DM ;
RABER, DJ .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1989, 111 (12) :4371-4378
[5]   AN ANALYSIS OF CURRENT METHODOLOGIES FOR CONFORMATIONAL SEARCHING OF COMPLEX-MOLECULES [J].
HOWARD, AE ;
KOLLMAN, PA .
JOURNAL OF MEDICINAL CHEMISTRY, 1988, 31 (09) :1669-1675
[6]   BIOSYNTHESIS OF MACROLIDE ANTIBIOTICS .4. STEREOCHEMISTRY OF HYDROGEN LABELING OF BREFELDIN-A BY [2-H-2(3)]ACETATE [J].
HUTCHINSON, CR ;
KUROBANE, I ;
CANE, DE ;
HASLER, H ;
MCINNES, AG .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1981, 103 (09) :2477-2480
[7]   THE OPLS POTENTIAL FUNCTIONS FOR PROTEINS - ENERGY MINIMIZATIONS FOR CRYSTALS OF CYCLIC-PEPTIDES AND CRAMBIN [J].
JORGENSEN, WL ;
TIRADORIVES, J .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1988, 110 (06) :1657-1666
[8]   THE MULTIPLE MINIMUM PROBLEM IN MOLECULAR MODELING - TREE SEARCHING INTERNAL COORDINATE CONFORMATIONAL SPACE [J].
LIPTON, M ;
STILL, WC .
JOURNAL OF COMPUTATIONAL CHEMISTRY, 1988, 9 (04) :343-355
[10]   CONFORMATIONS OF CYCLOHEPTADECANE - A COMPARISON OF METHODS FOR CONFORMATIONAL SEARCHING [J].
SAUNDERS, M ;
HOUK, KN ;
WU, YD ;
STILL, WC ;
LIPTON, M ;
CHANG, G ;
GUIDA, WC .
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 1990, 112 (04) :1419-1427