Computational structural analysis: multiple proteins bound to DNA.

ABSTRACT:

Background

With increasing numbers of crystal structures of proteinratioDNA and proteinratioproteinratioDNA complexes publically available, it is now possible to extract sufficient structural, physical-chemical and thermodynamic parameters to make general observations and predictions about their interactions. In particular, the properties of macromolecular assemblies of multiple proteins bound to DNA have not previously been investigated in detail.

Methodology/principal findings

We have performed computational structural analyses on macromolecular assemblies of multiple proteins bound to DNA using a variety of different computational tools: PISA; PROMOTIF; X3DNA; ReadOut; DDNA and DCOMPLEX. Additionally, we have developed and employed an algorithm for approximate collision d

SUBMITTER: Tomovic A 

PROVIDER: S-EPMC2532747 | biostudies-literature | 2008 Sep

REPOSITORIES: biostudies-literature