Suyama M, Ogiwara A, Nishioka T, Oda J
Institute for Chemical Research, Kyoto University, Japan.
Comput Appl Biosci. 1993 Feb;9(1):9-15. doi: 10.1093/bioinformatics/9.1.9.
Recently we have constructed a database--the Enzyme-Reaction Database--which links a chemical structure to amino acid sequences of enzymes that recognize the chemical structure as their ligand. The total number of enzymes registered in the database is 1103 with 6668 NBRF-PIR entry codes and 1756 chemical compounds. The chemical structures and chemical names for 842 compounds are registered in the Chemical-Structure Database on the MACCS system. For each enzyme, the sequences were divided into clusters, and multiply aligned in each cluster to extract a conserved sequence. A total of 158,781 five-residue-long fragments were constructed from 433 conserved sequences and compared among different clusters of different enzymes. One of these motifs shared by different enzymes was S-G-G-L-D. The motif was conserved in both argininosuccinate synthase (EC 6.3.4.5) and asparagine synthase (glutamine-hydrolysing) (EC 6.3.5.4). This result showed that the database was useful for the analysis of the relationship between chemical structures and amino acid sequence motifs.
最近我们构建了一个数据库——酶反应数据库，该数据库将化学结构与能识别该化学结构作为其配体的酶的氨基酸序列联系起来。数据库中注册的酶总数为1103种，有6668个NBRF - PIR条目编码和1756种化合物。842种化合物的化学结构和化学名称已注册在MACCS系统的化学结构数据库中。对于每种酶，其序列被分成簇，并在每个簇中进行多重比对以提取保守序列。从433个保守序列中总共构建了158,781个五残基长的片段，并在不同酶的不同簇之间进行比较。不同酶共有的这些基序之一是S - G - G - L - D。该基序在精氨琥珀酸合酶（EC 6.3.4.5）和天冬酰胺合酶（谷氨酰胺水解）（EC 6.3.5.4）中均保守。这一结果表明该数据库对于分析化学结构与氨基酸序列基序之间的关系是有用的。
