Structure of the GDP domain of EF-Tu and location of the amino acids homologous to ras oncogene proteins.
A 2.7 angstrom resolution x-ray diffraction analysis of a trypsin-modified form of the Escherichia coli elongation factor Tu reveals that the GDP-binding domain has a structure similar to that of other nucleotide-binding proteins. The GDP ligand is located at the COOH-terminal end of the beta sheet and is linked to the protein via a Mg2+ ion salt bridge. The location of the guanine ring is unusual; the purine ring is located on the outer edge of the domain, not deep within a hydrophobic pocket. The amino acids from Pro10 to Arg44 and from Gly59 to Glu190 have been assigned to the electron density with computer graphic techniques, and the resulting model is consistent with all known biochemical data. An analysis of the structure reveals that four regions of the amino acid sequence that are homologous with the family of ras oncogene proteins, termed p21, are located in the vicinity of the GDP-binding site, and most of the invariant amino acids shared by the proteins interact directly with the GDP ligand.
D000595:Amino Acid Sequence; D000596:Amino Acids / Q000032:analysis*; D001665:Binding Sites; D055598:Chemical Phenomena; D002627:Chemistry, Physical; D003201:Computers; D004926:Escherichia coli; D005583:Fourier Analysis; D006150:Guanine Nucleotides / Q000032:analysis*; D006153:Guanosine Diphosphate / Q000032:analysis*; D008274:Magnesium / Q000378:metabolism; D009857:Oncogenes; D010444:Peptide Elongation Factor Tu; D010445:Peptide Elongation Factors / Q000032:analysis*; D011487:Protein Conformation; D014357:Trypsin / Q000378:metabolism; D014961:X-Ray Diffraction
D000596:Amino Acids; D006150:Guanine Nucleotides; D010445:Peptide Elongation Factors; D006153:Guanosine Diphosphate; D014357:Trypsin; D010444:Peptide Elongation Factor Tu; D008274:Magnesium