Structural role of a buried salt bridge in the 434 repressor DNA-binding domain.
The independently folding 63-residue N-terminal DNA-binding domain of the 434 repressor, 434(1-63), contains a buried Arg10-Glu35 salt bridge. A corresponding salt bridge is found in a variety of prokaryotic and eukaryotic DNA-binding proteins with helix-turn-helix motifs. Here, the NMR solution structures of 434(1-63) and the mutant protein 434[R10M](1-63) were determined to investigate the structural role of this salt bridge. Both proteins contain the same type of global fold, with five alpha-helices and a helix-turn-helix motif formed by the helices II and III. The primary structural difference caused by the Arg10 --> Met mutation is a translation of helix I along its axis relative to the helix II-turn-helix III motif. This limited conformational change is paralleled by a 9 kJ M(-1) decrease of the stability of the folded mutant protein in aqueous solution at pH 4.8. It affects the pKa value of Glu19 as well as the population of a hydrogen bond between the backbone amide proton of Asn16 and the side-chain carboxylate group of Glu19. Using the crystal structure of the 434 repressor dimer complexed with the operator DNA as a basis, model building of the DNA complex with the NMR structure of 434[R10M](1-63) shows that Asn16, which is located on the protein surface, makes direct contact with the DNA and indicates that the point mutation Arg10 --> Met should also lead to modifications of the protein-protein contacts in the complex.
Pervushin
K
K
Institut für Molekularbiologie und Biophysik, Eidgenössische Technische, Hochschule-Hönggerberg, Zürich, Switzerland.
Billeter
M
M
Siegal
G
G
Wüthrich
K
K
D001665:Binding Sites; D004247:DNA / Q000378:metabolism; D019077:Helix-Turn-Helix Motifs; D006860:Hydrogen Bonding; D009682:Magnetic Resonance Spectroscopy; D008958:Models, Molecular; D008969:Molecular Sequence Data; D015394:Molecular Structure; D017354:Point Mutation; D011487:Protein Conformation; D012097:Repressor Proteins / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D012492:Salts / Q000737:chemistry; D055672:Static Electricity; D014764:Viral Proteins
C063367:434-repressor protein, Bacteriophage 434; D012097:Repressor Proteins; D012492:Salts; D014764:Viral Proteins; D004247:DNA