Metabolic networks: enzyme function and metabolite structure

被引:62
作者
Hatzimanikatis, V [1 ]
Li, CH [1 ]
Ionita, JA [1 ]
Broadbelt, LJ [1 ]
机构
[1] Northwestern Univ, Dept Chem & Biol Engn, Evanston, IL 60208 USA
关键词
D O I
10.1016/j.sbi.2004.04.004
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
Metabolism is one of the most complex cellular processes. Connections between biochemical reactions via substrate and product metabolites create complex metabolic networks that may be analyzed using network theory, stoichiometric analysis, and information on protein structure/function and metabolite properties. These frameworks take into consideration different aspects of enzyme chemistry, enzyme structure and metabolite structure, and demonstrate the impact of metabolic biochemistry on the systemic properties of metabolism. The integration of these approaches and the systematic classification of enzyme function and the chemical structure of metabolites will enhance our understanding of metabolism, and could improve our ability to predict enzyme function and novel metabolic pathways.
引用
收藏
页码:300 / 306
页数:7
相关论文
共 28 条
[21]   BRENDA, the enzyme database: updates and major new developments [J].
Schomburg, I ;
Chang, A ;
Ebeling, C ;
Gremse, M ;
Heldt, C ;
Huhn, G ;
Schomburg, D .
NUCLEIC ACIDS RESEARCH, 2004, 32 :D431-D433
[22]   A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks [J].
Schuster, S ;
Fell, DA ;
Dandekar, T .
NATURE BIOTECHNOLOGY, 2000, 18 (03) :326-332
[23]   Detection of elementary flux modes in biochemical networks: a promising tool for pathway analysis and metabolic engineering [J].
Schuster, S ;
Dandekar, T ;
Fell, DA .
TRENDS IN BIOTECHNOLOGY, 1999, 17 (02) :53-60
[24]  
SCHUTZ EA, 1994, SPORTS MED ARTHROSC, V2, P165
[25]   How well is enzyme function conserved as a function of pairwise sequence identity? [J].
Tian, WD ;
Skolnick, J .
JOURNAL OF MOLECULAR BIOLOGY, 2003, 333 (04) :863-882
[26]   History of the enzyme nomenclature system [J].
Tipton, K ;
Boyce, S .
BIOINFORMATICS, 2000, 16 (01) :34-40
[27]   Evolution of function in protein superfamilies, from a structural perspective [J].
Todd, AE ;
Orengo, CA ;
Thornton, JM .
JOURNAL OF MOLECULAR BIOLOGY, 2001, 307 (04) :1113-1143
[28]   Assessing annotation transfer for genomics: Quantifying the relations between protein sequence, structure and function through traditional and probabilistic scores [J].
Wilson, CA ;
Kreychman, J ;
Gerstein, M .
JOURNAL OF MOLECULAR BIOLOGY, 2000, 297 (01) :233-249