Common Pattern of Coarse-Grained Charge Distribution of Structurally Analogous Proteins

Chem-Bio Informatics Journal

Kenichiro Imai¹  Shigeki Mitaku¹ 

[1] Nagoya University, Graduate School of Engineering, Department of Applied Physics

关键词: analogue;    アナログ;    remote homologue;    リモートホモログ;    charge distribution;    電荷分布;    structuralbiology;    構�?�ゲノム学;    bioinformatics;    バイオインフォマティクス;   

DOI  :  10.1273/cbij.3.194

学科分类：生物化学/生物物理

来源: Chem-Bio Informatics Society

【 摘 要 】

References(7)Cited-By(2)Structurally analogous protein pairs with low sequence identity, such as analogues and remote homologues, comprise a large part of structurally similar pairs thus complicating the relationship between sequence and structure. To obtain clues for clarifying such intricate relationships, we developed a method to analyze the coarse-grained charge distribution in an amino acid sequence and analyzed the pattern of charge distribution for the pairs of structurally similar proteins with sequence identities lower than 20%. We found two types of pairs, those with similar patterns of charge distribution and those with inverted charge distribution. This finding suggested that the charge distribution in a sequence might be a good parameter for clustering the structures as analogs and remote homologs. The possibility of automatic fold recognition is discussed by a quantitative comparison of charge distribution patterns.

【 授权许可】

Unknown