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DETAILS OF THE STRUCTURE DETERMINATION AND ALL STRUCTURAL
STATISTICS ARE GIVEN IN THE REFERENCE CITED ON THE *JRNL*
RECORDS ABOVE (I.E. AGREEMENT WITH EXPERIMENTAL RESTRAINTS,
DEVIATIONS FROM IDEALITY FOR BOND LENGTHS, ANGLES, PLANES
AND CHIRALITY, NON-BONDED CONTACTS, ATOMIC RMS DIFFERENCES
BETWEEN THE CALCULATED STRUCTURES). THE STRUCTURES ARE
BASED ON A TOTAL OF 1740 EXPERIMENTAL NMR RESTRAINTS
COMPRISING: 1444 INTERPROTON DISTANCE RESTRAINTS DERIVED
FROM NOE MEASUREMENTS; AND 296 TORSION ANGLE RESTRAINTS.
THE NOE RESTRAINTS ARE SUBDIVIDED AS FOLLOWS: (A) WITHIN
THE PROTEIN: 242 INTERRESIDUE SEQUENTIAL (|I-J|=1); 161
INTERRESIDUE SHORT RANGE (1(LESS THAN)|I-J|(LESS THAN)=5);
182 INTERRESIDUE LONG RANGE (|I-J|(GREATER THAN)5); AND
334 INTRARESIDUE. (B) WITHIN THE DNA: 157 INTRARESIDUE;
180 SEQUENTIAL INTRASTRAND; 34 INTERSTRAND; AND 37
H-BONDS (C) BETWEEN PROTEIN AND DNA: 117. THE TORSION
ANGLE RESTRAINTS ARE SUBDIVIDED AS FOLLOWS: 144 ANGLES
FOR THE PROTEIN (58 PHI, 56 PSI, 26 CHI1 AND 4 CHI2) AND
152 FOR THE DNA. THE TORSION ANGLE RESTRAINTS FOR THE
DNA COMPRISE LOOSE RESTRAINTS ON THE BACKBONE TORSION
ANGLES ALPHA, BETA, GAMMA, EPSILON AND ZETA TO PREVENT
PROBLEMS ASSOCIATED WITH LOCAL MIRROR IMAGES.
THE METHOD USED TO DETERMINE THE STRUCTURES IS THE HYBRID
METRIC MATRIX DISTANCE GEOMETRY-DYNAMICAL SIMULATED
ANNEALING METHOD [M.NILGES, G.M.CLORE, AND A.M.GRONENBORN
FEBS LETT. 229, 317-324 (1988)].
A TOTAL OF 30 STRUCTURES WERE CALCULATED. THE ATOMIC RMS
DISTRIBUTION ABOUT THE MEAN COORDINATE POSITIONS FOR
RESIDUES 2 - 59 OF THE PROTEIN AND BASE PAIRS 6 - 13 OF THE
DNA IS 0.70 (+/-0.13) A FOR THE BACKBONE ATOMS OF THE
PROTEIN AND ALL ATOMS OF THE DNA, AND 1.13 (+/-0.08) A FOR
ALL ATOMS OF THE PROTEIN AND DNA. THE N-TERMINUS
(RESIDUE 1) AND C-TERMINUS (RESIDUES 60 - 66) ARE
DISORDERED. THE ORIENTATION OF THE FIRST 5 AND LAST 3 BASE
PAIRS OF THE 16MER DNA DUPLEX, WHICH ARE NOT IN CONTACT
WITH THE DNA, IS POORLY DEFINED WITH RESPECT TO THE CORE OF
THE COMPLEX. CONSEQUENTLY, ONLY THE COORDINATES OF THE
COMPLEX PROPER HAVE BEEN DEPOSITED: I.E. RESIDUES 1 - 60
OF THE PROTEIN AND BASE PAIRS 6 - 13 OF THE DNA.
THE COORDINATES OF THE 30 INDIVIDUAL SA STRUCTURES ARE
PRESENTED AS MODELS 1 TO 30. THE QUANTITY IN COLUMNS 61 -
OF THESE MODELS HAS NO MEANING.
THE COORDINATES OF THE RESTRAINED MINIMIZED STRUCTURE
ARE PRESENTED IN PROTEIN DATA BANK ENTRY 1GAT. THE (SA)R
RESTRAINED MINIMIZED MEAN STRUCTURE WAS DERIVED BY
AVERAGING THE COORDINATES OF THE INDIVIDUAL SA STRUCTURES
(BEST FITTED TO RESIDUES 2 - 59 OF THE PROTEIN AND BASE
PAIRS 6 - 13 OF THE DNA), AND SUBJECTING THE RESULTING
COORDINATES TO RESTRAINED MINIMIZATION. THE QUANTITY
PRESENTED IN COLUMNS 61 - 66 OF MEAN STRUCTURE, PRESENTED
IN PROTEIN DATA BANK ENTRY 1GAT, REPRESENTS THE ATOMIC RMS
DEVIATIONS OF THE 30 INDIVIDUAL SA STRUCTURES ABOUT THE
MEAN STRUCTURE. |
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