X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.8
Temperature 293.0
Details PEG4000, sodium chloride, HEPES, glycerol, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.87 α = 90
b = 85.16 β = 90
c = 248.64 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-05-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C 1.000 APS 14-BM-C

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
2.49 42.94 97.9 0.069 -- -- 6.0 52366 52366 0.0 -2.0 32.0
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)
2.5 2.59 85.0 0.267 -- 4.7 4.0 4487

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+MAD 2.5 42.94 -- 0.0 53069 52134 2767 98.2 0.215 0.215 0.208 0.239 random 5%
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 2.5 2.61 5844 177 5667 0.279 0.28 0.021 89.5
X Ray Diffraction 2.61 2.75 6437 258 6179 0.225 0.226 0.014 97.8
X Ray Diffraction 2.75 2.92 6448 302 6146 0.225 0.226 0.013 98.4
X Ray Diffraction 2.92 3.15 6531 394 6137 0.217 0.217 0.011 99.7
X Ray Diffraction 3.15 3.47 6587 417 6170 0.206 0.205 0.01 99.9
X Ray Diffraction 3.47 3.97 6646 421 6225 0.202 0.199 0.01 99.9
X Ray Diffraction 3.97 5.0 6690 392 6298 0.16 0.159 0.008 100.0
X Ray Diffraction 5.0 42.94 6951 406 6545 0.217 0.221 0.011 99.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.68
Anisotropic B[1][1] 0.93
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.29
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.22
RMS Deviations
Key Refinement Restraint Deviation
x_dihedral_angle_d 21.9
x_improper_angle_d 0.98
x_bond_d 0.009
x_angle_deg 1.4
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.27
Luzzati Sigma A (Observed) 0.3
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.33
Luzzati Sigma A (R-Free Set) 0.34
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9934
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 540

Software

Software
Software Name Purpose
CNS refinement version: 1.0
DENZO data reduction
SCALEPACK data scaling
MLPHARE phasing