To demonstrate feasibility, we have (i) generated 1536 peptide sequences based on the parallel dimeric coiled-coil motif and varied residues known to be important for stability and specificity, (ii) screened the 1,180,416 member interactome for predicted Tm values and (iii) used predicted Tm cutoff points to isolate eight peptides that form four heterospecific PPIs when combined.
For every orthologous group, in the selected subset of coiled-coil proteins, the CC (coiled-coil specific) model was assigned to the alignment region based on the coiled-coil prediction for the human protein, the LG model was used for the remaining part.
IF proteins form elongated dimers based on the coiled-coil structure within their central 'rod' domain.
Here, we report a new type of ZFN system based on the coiled-coil interaction used as a noncovalent assembler.
We have designed two synthetic 29-residue α-helical peptides, based on the coiled-coil structural motif, that spontaneously self-assemble into helical nanotubes in vitro.
Here we specifically designed 15-aa peptides based on the coiled-coil structure of components of the TTSS of EPEC and EHEC bacteria.
A custom script that assigns a substitution model to the corresponding sequence region based on the coiled-coil prediction and produces an input file for RAxML (Stamatakis 2006) is available at http://www.evocell.org/cgl/resources.org/cgl/resources
Based on the hydraulic characteristics of the coiled tube, the used reactor appears to have an effective design for inactivation.
The other approach, discussed in detail, was to construct an epitope display model system based on a coiled coil stem loop peptide self-assembled on a solid substrate.
This pattern of hydrophobic and polar residues interferes with sequence comparison algorithms, which often lead to false predictions of homology between long coiled-coil proteins based on the low complexity and repeat nature of the underlying sequence motif.
By using templates based on coiled coils as models we investigated the effect of misalignments.
