Conformational study of cyclolinopeptide A. A distance geometry and molecular dynamics approach.
The conformation of cyclolinopeptide A, c(Pro-Pro-Phe-Phe-Leu-Ile-Ile-Leu-Val), a naturally occurring peptide with remarkable cytoprotective activity, has been investigated by means of distance geometry calculations and molecular dynamics simulations. The starting points for all the calculations were an X-ray structure and other structures obtained from distance geometry calculations based on NMR data. Restrained and unrestrained molecular dynamics simulations are reported in vacuo and in CCl4. Structural and dynamic properties are investigated and compared with those experimentally determined. The conformation obtained from the MD simulations which best reproduces the NMR parameters is at the same time one of the most stable ones and is also fairly similar to the crystal structure. An explanation for the occurrence of multiple conformations in solution at room temperature is given.
Castiglione Morelli
M A
MA
EMBL, Heidelberg, Federal Republic of Germany.
Pastore
A
A
Pedone
C
C
Temussi
P A
PA
Zanotti
G
G
Tancredi
T
T
D000595:Amino Acid Sequence; D002251:Carbon Tetrachloride; D055598:Chemical Phenomena; D002627:Chemistry, Physical; D003460:Crystallization; D006860:Hydrogen Bonding; D009682:Magnetic Resonance Spectroscopy; D008969:Molecular Sequence Data; D015394:Molecular Structure; D010456:Peptides, Cyclic / Q000737:chemistry*; D011487:Protein Conformation; D012997:Solvents
D010456:Peptides, Cyclic; D012997:Solvents; C055018:cyclolinopeptide A; D002251:Carbon Tetrachloride