X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 291.0
Details PEG 4000 Hepes Glycerol Isopropanol, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 87.07 α = 90
b = 55.86 β = 90.39
c = 112.61 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 mirrors 2000-11-09
CCD ADSC QUANTUM 4 mirrors 2000-11-09
Diffraction Radiation
Monochromator Protocol
double flat crystal MAD
double flat crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X9B 0.97884, 0.97925, 0.96364 NSLS X9B
SYNCHROTRON NSLS BEAMLINE X9B 1.00188 NSLS X9B

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
1.92 36.02 99.5 0.061 -- -- 3.2 79949 79549 -- -2.0 27.7
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)
1.92 1.96 58.4 0.585 -- 1.8 1.6 2850

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
MAD 2.0 19.98 -- 2.0 73535 55951 2877 76.1 0.28 0.259 0.219 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 2.0 2.09 4134 204 3930 0.277 0.277 0.019 45.3
X Ray Diffraction 2.09 2.2 4991 290 4701 0.264 0.263 0.015 54.6
X Ray Diffraction 2.2 2.34 5894 308 5586 0.237 0.236 0.013 64.3
X Ray Diffraction 2.34 2.52 6673 364 6309 0.228 0.229 0.012 73.0
X Ray Diffraction 2.52 2.77 7513 372 7141 0.199 0.199 0.01 82.0
X Ray Diffraction 2.77 3.17 8399 424 7975 0.202 0.202 0.01 91.4
X Ray Diffraction 3.17 3.99 9025 451 8574 0.196 0.194 0.009 97.5
X Ray Diffraction 3.99 19.98 9322 464 8858 0.197 0.198 0.009 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 45.34
Anisotropic B[1][1] -5.62
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.29
Anisotropic B[2][2] 17.45
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -11.83
RMS Deviations
Key Refinement Restraint Deviation
x_bond_d 0.012
x_improper_angle_d 1.13
x_angle_deg 1.7
x_dihedral_angle_d 25.2
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.23
Luzzati Sigma A (Observed) 0.34
Luzzati Resolution Cutoff (Low) 20.0
Luzzati ESD (R-Free Set) 0.23
Luzzati Sigma A (R-Free Set) 0.28
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7620
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 866

Software

Software
Software Name Purpose
CNS refinement version: 1.0
HKL-2000 data reduction
SCALEPACK data scaling
SOLVE phasing