title: Helix Interaction Tool (HIT): a web-based tool for analysis of helix-helix interactions in proteins.
abstract: In many proteins, helix-helix interactions can be critical to establishing protein conformation (folding) and dynamics, as well as determining associations between protein units. However, the determination of a set of rules that guide helix-helix interaction has been elusive. In order to gain further insight into the helix-helix interface, we have developed a comprehensive package of tools for analyzing helix-helix packing in proteins. These tools are available at http://helix.gersteinlab.org. They include quantitative measures of the helix interaction surface area and helix crossing angle, as well as several methods for visualizing the helical interaction. These methods can be used for analysis of individual protein conformations or to gain insight into dynamic changes in helix interactions. For the latter purpose, a direct interface from entries in the Molecular Motions Database to the HIT site has been provided.
authors.affiliation: Department of Molecular Biophysics and Biochemistry, Yale University New Haven, CT 06520, USA.
authors.forename: Anne E Counterman
authors.initials: AE
authors.lastname: Burba
authors.forename: Ursula
authors.initials: U
authors.lastname: Lehnert
authors.forename: Eric Z
authors.initials: EZ
authors.lastname: Yu
authors.forename: Mark
authors.initials: M
authors.lastname: Gerstein
mesh_terms: D000465:Algorithms; D020816:Amino Acid Motifs; D000818:Animals; D019295:Computational Biology / Q000379:methods*; D003627:Data Interpretation, Statistical; D030562:Databases, Protein; D006860:Hydrogen Bonding; D020407:Internet; D008968:Molecular Conformation; D011487:Protein Conformation; D017433:Protein Structure, Secondary; D011506:Proteins / Q000737:chemistry*; D012984:Software
chemical_list: D011506:Proteins