Global motion integration may involve binding irrelevant features, such as color, in addition to the motion of the individual dots.
The purpose of our analysis is twofold: to provide examples that can be used as a reference in other studies and to shed light on the link between nucleic-acid binding abilities and protein features, such as structural disorder and aggregation, that are increasingly recognized as key factors for cellular function and homeostasis [ 7– 9].
We have investigated the organism specific recognition of protein-RNA complexes based on various sequence and structure based features such as binding propensity, preference of residues at conserved positions, binding segments, binding motifs, neighboring residues and interacting amino acid-nucleotide pairs.
Binding assays tested whether JAZ binding was influenced by structural features such as loops, bulges, and unpaired bases, which perturb the A-form RNA structure typical of hydrogen-bonded Watson Crick base pairs.
Surprisingly, in a continuous electrolyte gradient over many days typical epithelial features such as binding of lectins or expression of site-specific proteins such as Na/K ATPase α5 (Figure3a), TROMA I (Cytokeratin Endo-A; Figure3b), cingulin (Figure3c) and COX 2 (Figure3d) were found to be up-regulated.
Comparative genomics can provide a clearer picture of the full constituent parts of a species' genome and provide for the identification of sequence features such as binding motifs, regulatory regions and non-coding RNAs.
Comparative genomics of different sequences provides an expanded understanding of the full genetic constituent parts of a species and helps in the definition of conserved regions and in the identification of cryptic sequence features such as binding sites and noncoding RNAs.
These models extend the popular PWM motif models used in computational biology to represent and identify sequence features such as TF binding sites (TFBSs), splice junctions and binding domains in DNA, RNA and protein molecules, respectively (GuhaThakurta, 2006; Stormo, 2000).
We illustrate the powerfulness of our approach by investigating the links between RNA-binding ability and other protein features, such as structural disorder and aggregation, in S. cerevisiae, C. elegans, M. musculus and H. sapiens.
Nevertheless, the conserved features such as DNA-binding-α-helix and Fe2+ and Zn2+ binding domains could be identified [ 71].
