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Showing 1 to 20 of 23 for “"coiled coils"”.
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Heterotrimeric coiled-coils as viral fusion protein mimics
The a-helical coiled-coil, formed by the association and supercoiling of two or more a-helices, is a ubiquitous protein structure that mediates a wide range of biological activity. It is characterized by a heptad repeat of amino acids that serve to form both the hydrophobic core and electrostatic …
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Computational design of orthogonal antiparallel homodimeric coiled coils
… in synthetic biology or bionanotechnology. The coiled coil, a rope-like structure made of helices, is a PPI ubiquitously found in biological systems and is an attractive fold for engineering orthogonal PPIs. Though the coiled coil is well studied, destabilization of undesired interactions still …
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Modular design of coiled coils to target bZIP transcription factors
… tight and specific binders of the leucine-zipper coiled-coil domain. Both methods tested take advantage of the structure and biophysical properties of a coiled coil. In the coiled-coil dimer, two helices wrap around each other into a super helix. At the sequence level, coiled coils have a …
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Structural specificity in coiled coils : a and d position polar residues
… at the a and the d positions of a reference coiled coil, GCN4-pVL. The reference coiled coil is very stable in solution and exists as a mixture of dimers and trimers. The placement of single polar residues in the otherwise hydrophobic core of GCN4-pVL has dramatic effects on both stability …
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Statistical prediction schemes for the coiled-coil motif
… and distinguishing trimeric and dimeric coiled coils. Practical issues in the implementation of the two-stranded coiled coil prediction algorithm PairCoil suggested by Berger are discussed. This algorithm is naturally extended to the domain of three-stranded coiled coils in the …
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Investigation of coiled-coil interactions between proteins of the spindle pole body
… proteins are predicted to contain one or more coiled coils. The coiled coil is a common protein-protein interaction domain, consisting of two or more supercoiled [alpha]-helices. The high frequency of coiled coils predicted in SPB proteins suggests that this structure may be important for …
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Rational design of synthetic metalloproteins
… focuses on the design of metal-binding a-helical coiled coils. They provide a simple yet unique model to study both metal-protein and protein-protein interactions and serve as means to gain knowledge that is required for preparation of synthetic materials with biotechnological and pharmaceutical …
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Computational prediction of coiled-coil interaction structure specificity
The alpha-helical coiled coil is a protein sequence and structural motif that consists of two or more helices in a parallel or antiparallel orientation supercoiling around a central axis. Coiled coils have been observed in a wide range of protein families, and many studies have focused on their …
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Modeling the flexibility of alpha helices in protein interfaces : structure based design and prediction of helix-mediated protein-protein interactions
… are presented: Crick parameterization for coiled coils and normal-mode analysis for all helices. These are shown to capture most of the variation seen in the PDB. In addition, these methods are applied to problems in protein structure prediction and design. Normal-mode analysis is used to …
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MULTIPLE STRATEGIES IN COMPUTATIONAL PROTEIN DESIGN: STRUCTURAL INTUITION, PROBABILISTIC INVERSE FOLDING, AND GENERATIVE APPROACHES
… of supramolecular assemblies of one-dimensional coiled coils, revealing the molecular basis of their exceptional rigidity. Building on these insights, rational modifications—such as electrostatic patterning and hydrophobic tuning—were introduced to create assemblies that form liquid crystals at …
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Redesigning specificity in miniproteins
… stabilized to near-native stability. Next, the coiled-coil region within the Bcr (breakpoint cluster region) oligomerization domain was used to probe antiparallel versus parallel helix-orientation specificity in coiled coils.
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Identification and characterization of GRP50 : a novel Golgi-associated ankyrin repeat protein
… a leucine-rich region that may form c-helical coiled coils. Each of these domains has been shown in other proteins to function as a protein-protein interaction module. We have used immunolocalization techniques to show that GRP50 is peripherally associated with the cytoplasmic face of Golgi and …
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The essentiality of DivIVAEf oligomerization for proper cell division in enterococcus faecalis and interaction with a novel cell division protein
… homologues is the ability to oligomerize through coiled-coil interaction into complexes comprising 10-12 monomers. To date, the importance of DivIVA oligomerization and the N-terminal coiled-coil for its proper function in bacterial cell division has not been reported. This study examined the …
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Funktionelle Charakterisierung von Mitgliedern der p24-Proteinfamilie
… für den Strukturvorhersagen die Ausbildung von coiled coils annehmen. Die Expression eines p23 Konstruktes mit mutierter zytoplasmatischer Domäne (p23tail*) in HeLa Zellen wirkte toxisch. Dies deutet auf eine essentielle Funktion von p23 in Säugerzellen hin. Darüber hinaus verursachte die …
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Structural and Biochemical Characterisation of the HR1 domains of the Protein Kinase C-related kinase family
… HR1b and HR1c. These are predicted antiparallel coiled coils which interact with the Rho proteins. While HR1a and HR1b domains have been studied in vitro, very little is known about the HR1c domain. This project aims to provide much-needed biochemical, biophysical and structural understanding of …
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Towards structural characterisation of ciliary rootlets, ciliary caps and intraflagellar transport
… connected by striated fibrils composed of the coiled-coil protein rootletin along with CEP68, CCDC102B and potentially other proteins. Upon ciliogenesis, the centriole-pairs template the ciliary cytoskeleton and the fibrils merge into a striated fibre called the ciliary rootlet. The rootlet is …
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DNA double-strand break repair studied by atomic force microscopy
… and the DNA double-helix using the Rad50 coiled-coils in a novel mode of DNA binding. The complex appears to use the Rad50 zinc hook region to bind to and track along dsDNA for broken DNA-terminals. Furthermore, the present study shows that this archaeal complex can drive extensive …
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The Rational Design of Coiled-Coil Peptides towards Understanding Protein-Crystal Interactions and Amorphous-to-Crystalline Transitions
… research and rational peptide design using the coiled-coil peptide motif and calcium hydrogen phosphate dihydrate (CaHPO4 x 2H2O), commonly known as brushite. Coiled-coils were designed to alter the complete growth pathway of brushite beginning with an amorphous precursor and resulting in a …
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Computational Studies on the Mechanical Properties of Muscle and Blood Clot Elasticity
… protein. Upon mechanical tension, fibrinogen's coiled-coils unfold according to helical density, rupturing in the order of double helix, triple helix, and finally quadruple helix. All together, these studies on titin and fibrinogen shed light on the how different protein architectures behave as …
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Determining protein interaction specificity of native and designed bZIP family transcription factors
… of a large set of synthetic bZIP-like coiled coils. Using the solution-based FRET assay, I quantified the bZIP interaction networks of five metazoan species and observed conservation as well as rewiring of interactions throughout evolution. Together, these studies have identified new …
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