Protein-RNA interactions: a structural analysis

@article{citeulike:936708, abstract = {A detailed computational analysis of 32 protein-RNA complexes is presented. A number of physical and chemical properties of the intermolecular interfaces are calculated and compared with those observed in protein-double-stranded DNA and protein-single-stranded DNA complexes. The interface properties of the protein-RNA complexes reveal the diverse nature of the binding sites. van der Waals contacts played a more prevalent role than hydrogen bond contacts, and preferential binding to guanine and uracil was observed. The positively charged residue, arginine, and the single aromatic residues, phenylalanine and tyrosine, all played key roles in the RNA binding sites. A comparison between protein-RNA and protein-DNA complexes showed that whilst base and backbone contacts (both hydrogen bonding and van der Waals) were observed with equal frequency in the protein-RNA complexes, backbone contacts were more dominant in the protein-DNA complexes. Although similar modes of secondary structure interactions have been observed in RNA and DNA binding proteins, the current analysis emphasises the differences that exist between the two types of nucleic acid binding protein at the atomic contact level. 10.1093/nar/29.4.943}, author = {Jones, Susan and Daley, David T. and Luscombe, Nicholas M. and Berman, Helen M. and Thornton, Janet M. }, citeulike-article-id = {936708}, doi = {http://dx.doi.org/10.1093/nar/29.4.943}, journal = {Nucl. Acids Res.}, keywords = {protein, rna, structure}, month = {February}, number = {4}, pages = {943--954}, posted-at = {2008-04-21 09:55:21}, priority = {2}, title = {Protein-RNA interactions: a structural analysis}, url = {http://dx.doi.org/10.1093/nar/29.4.943}, volume = {29}, year = {2001} }

TY - JOUR ID - citeulike:936708 L3 - citeulike-article-id:936708 N2 - A detailed computational analysis of 32 protein-RNA complexes is presented. A number of physical and chemical properties of the intermolecular interfaces are calculated and compared with those observed in protein-double-stranded DNA and protein-single-stranded DNA complexes. The interface properties of the protein-RNA complexes reveal the diverse nature of the binding sites. van der Waals contacts played a more prevalent role than hydrogen bond contacts, and preferential binding to guanine and uracil was observed. The positively charged residue, arginine, and the single aromatic residues, phenylalanine and tyrosine, all played key roles in the RNA binding sites. A comparison between protein-RNA and protein-DNA complexes showed that whilst base and backbone contacts (both hydrogen bonding and van der Waals) were observed with equal frequency in the protein-RNA complexes, backbone contacts were more dominant in the protein-DNA complexes. Although similar modes of secondary structure interactions have been observed in RNA and DNA binding proteins, the current analysis emphasises the differences that exist between the two types of nucleic acid binding protein at the atomic contact level. 10.1093/nar/29.4.943 IS - 4 JF - Nucl. Acids Res. EP - 954 TI - Protein-RNA interactions: a structural analysis VL - 29 SP - 943 KW - protein KW - rna KW - structure AU - Jones, Susan AU - Daley, David AU - Luscombe, Nicholas AU - Berman, Helen AU - Thornton, Janet PY - 2001/02/15/ UR - http://dx.doi.org/10.1093/nar/29.4.943 ER -