| DISTANCE GEOMETRY, SIMULATED ANNEALING AND REFINEMENT CALCULATIONS |
DURING THE REFINEMENT, THE NON-BONDED INTERACTIONS WERE MODELED ONLY BY A
QUADRATIC REPULSIVE ENERGY TERM, WHILE THE ATTRACTIVE COMPONENT OF THE LENNARD-
JONES POTENTIAL AND THE ELECTROSTATIC ENERGY WERE TURNED OFF. AT THE FINAL
STAGES OF REFINEMENT, A SQUARE-WELL POTENTIAL ENERGY FUNCTION WAS USED FOR THE
NOE AND THE DIHEDRAL ANGLE RESTRANTS WITH A FORCE OF 500 KCAL MOL-1 ANG-2 AND
200 KCAL MOL-1 RAD-2, RESPECTIVELY. OF THE 120 EMBEDDED SUBSTRUCTURES, 60
CONVERGED TO ACCEPTABLE STRUCTURES WITH NOE VIOLATION EQUAL OR LESS THAN
0.5ANG. OF THESE, 15 BEST STRUCTURES WITH NOE VIOLATIONS EQUAL OR LESS THAN
0.35 ANG AND DIHEDRAL VIOLATION < 5 DEG WERE SELECTED. MODEL 1 (STRUCTURE 1)
OF THE 15 STRUCTURES OF THE KSI-19NTHS COMPLEX IS THE LOWEST ENERGY STRUCTURE. |
1 |
