A general solution for the optimal superimposition of protein structures

被引:0
作者
Li, Qishen [1 ]
Shu, Jian [1 ]
Shi, Zhaojun [1 ]
Zhang, Dandan [1 ]
机构
[1] Nanchang Inst Aeronaut Technol, Fac Comp, Nanchang 330063, Jiangxi, Peoples R China
来源
COMPUTATIONAL INTELLIGENCE AND BIOINFORMATICS, PT 3, PROCEEDINGS | 2006年 / 4115卷
关键词
D O I
暂无
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
The theorem presented in this paper is a general solution for the optimal superimposition between two protein structures, which is actually the problem of the weighted optimal rigid superimposition between two vector sets with the same size. The theorem gives not only the rotational and translational parameters, but also the minimal value of the mean squared deviation of the optimal superimposition.
引用
收藏
页码:352 / 361
页数:10
相关论文
共 16 条
[1]   The Protein Data Bank [J].
Berman, HM ;
Westbrook, J ;
Feng, Z ;
Gilliland, G ;
Bhat, TN ;
Weissig, H ;
Shindyalov, IN ;
Bourne, PE .
NUCLEIC ACIDS RESEARCH, 2000, 28 (01) :235-242
[2]   A NOTE ON THE ROTATIONAL SUPERPOSITION PROBLEM [J].
DIAMOND, R .
ACTA CRYSTALLOGRAPHICA SECTION A, 1988, 44 :211-216
[3]   COMPARISON OF CONFORMATIONS USING LINEAR AND QUADRATIC TRANSFORMATIONS [J].
DIAMOND, R .
ACTA CRYSTALLOGRAPHICA SECTION A, 1976, 32 (JAN1) :1-10
[4]   DIFFERENT BEST RIGID-BODY MOLECULAR FIT ROUTINE [J].
FERRO, DR ;
HERMANS, J .
ACTA CRYSTALLOGRAPHICA SECTION A, 1977, 33 (MAR1) :345-347
[5]   Surprising similarities in structure comparison [J].
Gibrat, JF ;
Madej, T ;
Bryant, SH .
CURRENT OPINION IN STRUCTURAL BIOLOGY, 1996, 6 (03) :377-385
[6]   SEARCHING PROTEIN-STRUCTURE DATABASES HAS COME OF AGE [J].
HOLM, L ;
SANDER, C .
PROTEINS-STRUCTURE FUNCTION AND GENETICS, 1994, 19 (03) :165-173
[7]   SOLUTION FOR BEST ROTATION TO RELATE 2 SETS OF VECTORS [J].
KABSCH, W .
ACTA CRYSTALLOGRAPHICA SECTION A, 1976, 32 (SEP1) :922-923
[8]   DISCUSSION OF SOLUTION FOR BEST ROTATION TO RELATE 2 SETS OF VECTORS [J].
KABSCH, W .
ACTA CRYSTALLOGRAPHICA SECTION A, 1978, 34 (SEP) :827-828
[9]   Metric properties of the root-mean-square deviation of vector sets [J].
Kaindl, K ;
Steipe, B .
ACTA CRYSTALLOGRAPHICA SECTION A, 1997, 53 :809-809
[10]   Comprehensive evaluation of protein structure alignment methods: Scoring by geometric measures [J].
Kolodny, R ;
Koehl, P ;
Levitt, M .
JOURNAL OF MOLECULAR BIOLOGY, 2005, 346 (04) :1173-1188