| simulated annealing |
INCORPORATES RADIUS OF GYRATION RESTRAINT AND DIPOLAR COUPLINGS
A TOTAL OF 31 SIMULATED ANNEALING STRUCTURES WERE CALCULATED
THE COORDINATES OF THE RESTRAINED MINIMIZED STRUCTURE ARE LISTED
FIRST. THIS WAS OBTAINED BY AVERAGING THE COORDINATES OF THE
INDIVIDUAL STRUCTURES AND SUBJECTING THE RESULTING COORDINATES TO
RESTRAINED MINIMIZATION.
IN THE CASE OF THE RESTRAINED MINIMIZED MEAN STRUCTURE
THE QUANTITY PRESENTED IN THE B VALUE FIELD (COLUMNS 61 -
66 OF THE ATOM AND HETATM RECORDS BELOW) REPRESENTS THE
ATOMIC RMS DEVIATION OF THE INDIVIDUAL STRUCTURES ABOUT THE
MEAN COORDINATE POSITIONS. FOR THE INDIVIDUAL
SIMULATED ANNEALING STRUCTURES THE NUMBERS IN THE B-FACTOR C
NO MEANING
ALL THE INTERPROTON DISTANCE, TORSION ANGLE RESTRAINTS 3G
AND DIPOLAR COUPLING RESTRAINTS
ARE AVAILABLE FROM THE PROTEIN DATA BANK AS A SEPARATE
ENTRY. (RMR3GB1)
TERMS IN TARGET FUNCTION USED FOR SIMULATED ANNEALING:
NOE (SUM AVERAGING) AND TORSION ANGLE RESTRAINTS
3JHNALPHA COUPLING CONSTANT RESTRAINTS (GARRETT ET AL
J. MAGN. RESON. B104, 99-103 (1994).
DIPOLAR COUPLING RESTRAINTS USING TWO ALIGNMENT TENSO
(IN TMV AND IN BICELLES)
TERM FOR THE RADIUS OF GYRATION (KUSZEWSKI J, GRONENB
CLORE, GM J AM CHEM SOC 121, 2337-2338 (1999))
TORSION ANGLE DATABASE POTENTIAL (KUSZEWSKI J, GRONEN
CLORE GM. PROTEIN SCI 5, 1067-1080 (1996); J. MAGN
125, 171-177 (1997).
COVALENT GEOMETRY RESTRAINTS (BONDS, ANGLES, IMPROPER
QUARTIC VAN DER WAALS REPULSION TERM (NILGES. M,
GRONENBORN, A.M., BRUNGER, A.T., CLORE, G.M. (1988)
PROTEIN ENG. 2, 27-38).
RESTRAINTS:
NOES: 138 SEQUENTIAL, 133 MEDIUM, 279 LONG RANGE IN
185 INTRARESIDUE
TORSION ANGLES: 145
3JHNALPHA COUPLINGS: 53
DIPOLAR COUPLINGS: 152 IN TMV AND 148 IN BICELLES
(NH, N-C AND HN-C)
THE B-FACTOR COLUMN GIVES THE AVERAGE RMS OF THE 31
SIMULATED AN
STRUCTURES ABOUT THE MEAN COORDINATE POSITIONS
FILENAME=G_TMV_BICE_RGYR_AVE.MIN
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BONDS,ANGLES,IMPROPERS,CDIH,NOE,COUP
162664E-03,0.47617,0.436105,0,1.84255E-02,0.534352
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