SOLUTION NMR Experimental Data


Experimental Details
Sample Conditions
Sample Contents2 MM RAT DNA POLYMERASE BETA N-TERMINAL DOMAIN (2-87) U-15N; 5MM TRIS-D11; 100MM NACL
Solventn/a
Ionic Strength100 MM NACL
pH6.8
PressureAMBIENT
Temperature (K)298
Experiment(s):3D_15N-SEPARATED_NOESY
Sample Contents4 MM RAT DNA POLYMERASE BETA N-TERMINAL DOMAIN (2-87) U-15N; 5MM TRIS-D11; 400MM NACL
Solventn/a
Ionic Strength400 MM NACL
pH6.7
PressureAMBIENT
Temperature (K)300
Experiment(s):HMQC-J
Sample Contents2.8 MM RAT DNA POLYMERASE BETA N-TERMINAL DOMAIN (2-87) U-15N,13C; 5MM TRIS- D11; 400MM NACL
Solventn/a
Ionic Strength400 MM NACL
pH6.7
PressureAMBIENT
Temperature (K)300
Experiment(s):3D_13C-SEPARATED_NOESY
Sample Contents1.4 MM RAT DNA POLYMERASE BETA N-TERMINAL DOMAIN (2-87); 5MM TRIS-D11; 400MM NACL
Solventn/a
Ionic Strength400 MM NACL
pH6.7
PressureAMBIENT
Temperature (K)300
Experiment(s):2D NOESY
Spectrometer Information
Manufacturer Model Field Strength
Varian UNITYplus 600.0
GE GN500 500.0
NMR Refinement
Method TORSION ANGLE DYNAMICS AND SIMULATED ANNEALING
Details THE NMR RESTRAINTS INCLUDED 921 USEFUL NOE DETERMINED UPPER DISTANCE RESTRAINTS, 41 HYDROGEN BONDS, AND 135 PHI AND CHI TORSION ANGLE RESTRAINTS. STRUCTURES WERE CALCULATED IN THE PROGRAM DYANA USING TORSION ANGLE DYNAMICS. THE CALCULATION STARTED WITH 100 RANDOMIZED STRUCTURES. THE 50 STRUCTURES WITH THE LOWEST TARGET FUNCTION WERE THEN REFINED WITHIN XPLOR USING SIMULATED ANNEALING. THE 25 LOWEST ENERGY STRUCTURAL CONFORMERS WERE SELECTED TO REPRESENT THE ENSEMBLE.THE 25 REFINED STRUCTURAL CONFORMERS DISPLAYED NO NOE VIOLATIONS >0.3 ANGSTROMS AND NO DIHEDRAL ANGLE VIOLATIONS >3 DEGREES. THE MINIMIZED AVERAGE STRUCTURE WAS CALCULATED FROM THE MEAN POSITION OF THE COORDINATES FOR THE 25 STRUCTURAL CONFORMERS AND WAS REFINED BY POWELL ENERGY MINIMIZATION IN XPLOR USING FULL NMR RESTRAINTS.
NMR Ensemble Information
Conformer Selection Criteria THE SELECTION UTILIZED THE LOWEST ENERGY STRUCTURES WITH NO NOE VIOLATIONS EXCEEDING 0.3 ANGSTROMS AND NO DIHEDRAL VIOLATIONS EXCEEDING 0.3 DEGREES.
Conformers Calculated Total Number 100
Conformers Submitted Total Number 25
Representative Model Choice Rationale
1 lowest energy
Additional NMR Experimental Information
1 PROTEOLYTIC PROCESSING REMOVES THE N-TERMINAL MET IN A BACTERIAL EXPRESSION SYSTEM (SEE KUMAR ET AL., (1990) J. BIOL. CHEM. 265, 2124-2131).
Computation: NMR Software
# Classification Software Name Author
1 refinement X-PLOR 4.0 BRUNGER
2 structure solution DYANA 1.5 GUENTERT
3 data analysis XEASY 1.3.13 BARTELS
4 processing FELIX 95 HARE, BIOSYM
5 collection VNMR 4.3 VARIAN