Detection of Helix Fraying in Designed Transmembrane Alpha Helices
نویسندگان
چکیده
منابع مشابه
TOPTMH: Topology Predictor for Transmembrane alpha-Helices
Alpha-helical transmembrane proteins mediate many key biological processes and represent 20%-30% of all genes in many organisms. Due to the difficulties in experimentally determining their high-resolution 3D structure, computational methods to predict the location and orientation of transmembrane helix segments using sequence information are essential. We present TOPTMH, a new transmembrane hel...
متن کاملSimulation of the packing of transmembrane alpha-helices.
The aim of this study is to generate initial candidate models for bundles of transmembrane helices. Such models may then be further refined by eg. molecular dynamics simulations. Each helix is treated as a rigid body represented by a direction vector and the coordinates of its centre of mass. Constituent residues are mapped onto the helix axis in order to maintain the amino acid sequence depend...
متن کاملPolar residues in transmembrane helices can decrease electrophoretic mobility in polyacrylamide gels without causing helix dimerization.
There are only a few available methods to study lateral interactions and self assembly of transmembrane helices. One of the most frequently used methods is sodium dodecylsulfate polyacrylamide gel electrophoresis (SDS-PAGE) which can report on strong interactions between peptides in SDS solution. Here we offer a cautionary tale about studying the folding and assembly of membrane proteins using ...
متن کاملStructural features of transmembrane helices.
A total of 160 transmembrane helices of 15 non-homologous high-resolution X-ray protein structures have been analyzed in respect of their structural features. The dihedral angles and hydrogen bonds of the helical sections that span the hydrophobic interior of the lipid bilayer have been investigated. The Ramachandran plot of protein channels and solute transporters exhibit a significant shift D...
متن کاملA Tale of Two Helices A study of alpha helix pair conformations in three - dimensional space
This Master’s project underwent an evolution, and this thesis paper reflects that. The crux of the work involved a thorough investigation of how pairs of alpha helices are configured in three-dimensional space. The project began with a review of protein structure, and specifically the relationship between the structure of a protein and the corresponding contact map. There did not exist visualiz...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Biophysical Journal
سال: 2015
ISSN: 0006-3495
DOI: 10.1016/j.bpj.2014.11.3037