X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Details HANGING-DROP: 8ML PROTEIN SOLUTION PLUS 4ML PRECIPITATING SOLUTION EQUILIBRATED AGAINST PRECIPITATING SOLUTION AT 25OC. (PROTEIN SOLUTION: HSV-TK 1.0MG/ML; 40MM TRIS-CL PH 7.5; 3MM DTT; 0.2MM DT. PRECIPITATING SOLUTION: 30% SATURATED AMMONIUM SULFATE; 200MM TRIS-CL PH 6.75; 3MM DTT; 0.2 MM DT.), vapor diffusion - hanging drop

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 113.4 α = 90
b = 116.6 β = 90
c = 108.2 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC MIRRORS 1997-04
Diffraction Radiation
Monochromator Protocol
OTWINOWSKI MIRRORS --
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
-- -- -- -- --

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.14 38 100.0 -- 0.081 -- 6.7 -- 39842 -- -3.0 25.6
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.14 2.25 100.0 -- 0.376 3.0 6.5 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MIR + NCS IMPROVEMENT AND SOLVENT FLATTENING 2.14 12.0 -- 2.6 -- 38108 3901 96.3 -- 0.209 0.209 0.279 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.14 2.22 -- 418 3658 0.296 0.367 -- 93.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model INDIVIDUAL B-FACTOR REFT.
Mean Isotropic B 20.3
RMS Deviations
Key Refinement Restraint Deviation
x_mcangle_it 2.0
x_improper_angle_d 1.511
x_dihedral_angle_d 22.77
x_scbond_it 1.5
x_bond_d 0.013
x_scangle_it 2.0
x_angle_deg 1.927
x_mcbond_it 1.5
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.3
Luzzati ESD (R-Free Set) 0.35
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4627
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 262

Software

Software
Software Name Purpose
SOLOMON phasing
X-PLOR refinement version: 3.1
DENZO data reduction
SCALEPACK data scaling
CCP4 data scaling version: (TRUNCATE)