SOLUTION NMR Experimental Data


Experimental Details
Sample Conditions
Spectrometer Information
Manufacturer Model Field Strength
BRUKER DRX 800.0
BRUKER DRX 750.0
BRUKER DMX 600.0
NMR Refinement
Method SIMULATED ANNEALING
Details THE STRUCTURES WERE CALCULATED BY SIMULATED ANNEALING IN TORSION ANGLE SPACE (SCHWIETERS AND CLORE (2001) J MAGN RESON 152, 288-302) AGAINST A TARGET FUNCTION COMPRISING THE EXPERIMENTAL NMR RESTRAINTS (NOE-DERIVED INTERPROTON DISTANCE, TORSION ANGLE, 13CALPHA/13CBETA SHIFTS AND DIPOLAR COUPLINGS). THE NON-BONDED CONTACTS IN THE TARGET FUNCTION ARE REPRESENTED BY A QUARTIC VAN DER WAALS REPULSION TERM, SUPPLEMENTED BY TORSION ANGLE (KUSZEWSKI ET AL. J. MAGN. RESON 125, 171-177 (1997)) AND BASE-BASE POSITIONAL (KUSZEWSKI ET AL. J AM CHEM SOC 123, 3903-3918 (2001)) DATABASE POTENTIALS OF MEAN FORCE. IN THIS ENTRY THE LAST NUMERICAL COLUMN IS THE RMS OF THE 125 INDIVIDUAL SIMULATED ANNEALING STRUCTURES ABOUT THE MEAN COORDINATE POSITIONS: RESIDUES 1-9 and 86-89 OF THE PROTEIN ARE DISORDERED IN THE COMPLEX. ALTHOUGH THE SINGLE-STRANDED DNA IS B-LIKE, THE COORDINATES OF THOSE PORTIONS OF THE SS-DNA NOT IN CONTACT WITH THE PROTEIN COULD NOT BE ACCURATELY DETERMINED (BASES 101-104 and 110). THEREFORE ONLY THE COORDINATES OF RESIDUES 10-85 AND NUCLEOTIDES 105-109 ARE PRESENTED. SOLVED BY MULTI HETERONUCLEAR NMR AND IS BASED ON 1986 EXPERIMENTAL NMR RESTRAINTS DISTANCES 1289 TORSION ANGLES 266 13CA/CB SHIFTS 144 1DNH DIPOLARS IN PEG/HEXANOL 63 1DNC' DIPOLARS IN PEG/HEXANOL 44 2DHNC' DIPOLARS IN PEG/HEXANOL 40 1DNH DIPOLARS IN PHAGE PF1 56 1DNC' DIPOLARS IN PHAGE PF1 42 2DHNC' DIPOLARS IN PHAGE PF1 42 BREAKDOWN OF INTRAMOLECULAR PROTEIN DISTANCE RESTRAINTS INTRARESIDUE 315 SEQUENTIAL 282 MEDIUM RANGE 197 LONG RANGE 300 BACKBONE H-BONDS 54 RESTRAINTS FOR 27 H-BONDS INTRA-DNA DISTANCES 68 INTERMOLECULAR DISTANCES 73
NMR Ensemble Information
Conformer Selection Criteria REGULARIZED MEAN STRUCTURE
Conformers Calculated Total Number 125
Conformers Submitted Total Number 1
Computation: NMR Software
# Classification Software Name Author
1 structure solution XPLOR_NIH n/a
2 refinement X-PLOR_NIH (HTTP://NMR.CIT.NIH.GOV/XPLOR_NIH) CLORE, KUSZEWSKI, SCHWIETERS, TJANDRA