IDPM: an online database for ion distribution in protein molecules.

ABSTRACT:

Background

Interactions between ions and proteins have been extensively studied, yet most of the studies focus on the ion binding site. The binding mechanism for many ion binding sites can be clearly described from high resolution structures. Although knowledge accumulated on a case-by-case basis is valuable, it is also important to study the ion-protein interaction statistically. From experimentally determined structures, it is possible to examine the ion distribution around each amino acid. Such distributions can reveal relation between ions and amino acids, so it is desirable to carry out a systematic survey of 'ion-amino acid' pairing interaction and share the information with a publicly available database.

Results

The survey in the Protein Data Bank (PDB) revealed that

SUBMITTER: Xiang X 

PROVIDER: S-EPMC5857119 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature