A comparison of the predicted and X-ray structures of angiogenin. Implications for further studies of model building of homologous proteins.
The three-dimensional structure of human angiogenin has been determined by X-ray crystallography and is compared here with an earlier model which predicted its structure, based on the homology of angiogenin with bovine pancreatic ribonuclease A. Comparison of the predicted model and crystal structure shows that the active-site histidine residues and the core of the angiogenin molecule, including most of the beta-strands and alpha-helices, were predicted reasonably well. However, the structure of the surface loop regions and residues near the truncated C-terminus differs significantly. The C-terminal segment includes the active-site residues Asp-116, Gln-117, and Ser-118; Gln-117 in particular has been shown to be important in affecting the ribonucleolytic activity of angiogenin. Also, the orientation of one helix in the model differed from the orientation observed experimentally by about 20 degrees, resulting in a large displacement of this chain segment. The difficulty encountered in predicting the surface loop regions has led to a new algorithm [Palmer and Scheraga (1991), J. Comput. Chem., 12, 505-526; (1992), J. Comput. Chem., 13, 329-350] for predicting the conformations of surface loops.
Allen
S C
SC
School of Biology and Biochemistry, University of Bath, Claverton Down, UK.
Acharya
K R
KR
Palmer
K A
KA
Shapiro
R
R
Vallee
B L
BL
Scheraga
H A
HA
D000595:Amino Acid Sequence; D001665:Binding Sites; D018360:Crystallography, X-Ray; D008961:Models, Structural; D008969:Molecular Sequence Data; D011506:Proteins / Q000737:chemistry*; D012259:Ribonuclease, Pancreatic
D011506:Proteins; C046366:angiogenin; D012259:Ribonuclease, Pancreatic