ENIGMA:: maximum-entropy method program package for huge systems

被引:114
作者
Tanaka, H [1 ]
Takata, M
Nishibori, E
Kato, K
Iishi, T
Sakata, M
机构
[1] Shimane Univ, Dept Mat Sci, Matsue, Shimane 6908504, Japan
[2] Nagoya Univ, Dept Appl Phys, Nagoya, Aichi 4648603, Japan
[3] JASRI, Makazuki, Hyogo 6795198, Japan
关键词
D O I
10.1107/S002188980200050X
中图分类号
O6 [化学];
学科分类号
0703 ;
摘要
ENIGMA (Electron and Nuclear Image Generator by Max-ent Analysis) is a program package to evaluate three-dimensional electron and nuclear density from X-ray and neutron diffraction data by using the maximum-entropy method (MEM). Compared with the previous program package MEED, ENIGMA saves computing time and frees memory space at the same time by employing parallel data processing. The fast Fourier transformation (FFT) technique is also implemented. As a consequence of these improvements, the MEM analysis by ENIGMA becomes applicable to huge systems, such as proteins and polymers, when the phased structure factors are provided. The package is transferable to a wide variety of parallel computers, because it is written in Fortran 90 and a standard message-passing interface (MPI).
引用
收藏
页码:282 / 286
页数:5
相关论文
共 33 条
[1]   DIRECT PHASE DETERMINATION BY ENTROPY MAXIMIZATION AND LIKELIHOOD RANKING - STATUS-REPORT AND PERSPECTIVES [J].
BRICOGNE, G .
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY, 1993, 49 :37-60
[2]   A MULTISOLUTION METHOD OF PHASE DETERMINATION BY COMBINED MAXIMIZATION OF ENTROPY AND LIKELIHOOD .1. THEORY, ALGORITHMS AND STRATEGY [J].
BRICOGNE, G ;
GILMORE, CJ .
ACTA CRYSTALLOGRAPHICA SECTION A, 1990, 46 :284-297
[3]   ELECTRON-DENSITY IMAGES FROM IMPERFECT DATA BY ITERATIVE ENTROPY MAXIMIZATION [J].
COLLINS, DM .
NATURE, 1982, 298 (5869) :49-51
[4]   Peculiar covalent bonds in α-rhombohedral boron [J].
Fujimori, M ;
Nakata, T ;
Nakayama, T ;
Nishibori, E ;
Kimura, K ;
Takata, M ;
Sakata, M .
PHYSICAL REVIEW LETTERS, 1999, 82 (22) :4452-4455
[5]   A multisolution method of phase determination by combined maximization of entropy and likelihood. VI. The use of error-correcting codes as a source of phase permutation and their application to the phase problem in powder, electron and macromolecular crystallography [J].
Gilmore, C ;
Dong, W ;
Bricogne, G .
ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES, 1999, 55 :70-83
[6]   Direct methods in protein electron crystallography: The ab initio structure determination of two membrane protein structures in projection using maximum entropy and likelihood [J].
Gilmore, CJ ;
Nicholson, WV ;
Dorset, DL .
ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES, 1996, 52 :937-946
[7]   Maximum entropy and Bayesian statistics in crystallography: A review of practical applications [J].
Gilmore, CJ .
ACTA CRYSTALLOGRAPHICA A-FOUNDATION AND ADVANCES, 1996, 52 :561-589
[8]   A MULTISOLUTION METHOD OF PHASE DETERMINATION BY COMBINED MAXIMIZATION OF ENTROPY AND LIKELIHOOD .5. THE USE OF LIKELIHOOD AS A DISCRIMINATOR OF PHASE SETS PRODUCED BY THE SAYTAN PROGRAM FOR A SMALL PROTEIN [J].
GILMORE, CJ ;
HENDERSON, AN ;
BRICOGNE, G .
ACTA CRYSTALLOGRAPHICA SECTION A, 1991, 47 :842-846
[9]   A synchrotron powder diffraction study of Na-LTA [J].
Hasegawa, K ;
Nishibori, E ;
Takata, M ;
Safata, M ;
Togashi, N ;
Yu, JH ;
Terasaki, O .
JAPANESE JOURNAL OF APPLIED PHYSICS PART 1-REGULAR PAPERS SHORT NOTES & REVIEW PAPERS, 1999, 38 :65-68
[10]   EXPERIMENTAL-EVIDENCE FOR THE EXISTENCE OF NONNUCLEAR MAXIMA IN THE ELECTRON-DENSITY DISTRIBUTION OF METALLIC BERYLLIUM - A COMPARATIVE-STUDY OF THE MAXIMUM-ENTROPY METHOD AND THE MULTIPOLE REFINEMENT METHOD [J].
IVERSEN, BB ;
LARSEN, FK ;
SOUHASSOU, M ;
TAKATA, M .
ACTA CRYSTALLOGRAPHICA SECTION B-STRUCTURAL SCIENCE, 1995, 51 :580-591