X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 19.5
Details PEG 5000, sodium acetate, ammonium sulfate, MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 19.5K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.6 α = 90
b = 109.23 β = 90
c = 110.3 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 mirrors 2002-08-22
IMAGE PLATE RIGAKU RAXIS IIC mirrors 2002-08-21
Diffraction Radiation
Monochromator Protocol
bent conical Si-mirror (Rh coating), bent cylindrical Ge(111) monochromator SINGLE WAVELENGTH
Osmic blue confocal mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
ROTATING ANODE RIGAKU RU200 1.5418 -- --

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
2.2 30 94.8 0.057 0.057 -- 21.1 -- 74790 0.0 0.0 35.1
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)
2.2 2.26 61.2 0.249 0.249 7.8 -- 2553

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 2.2 30.0 0.0 0.0 72563 72563 3556 93.7 0.205 0.205 0.203 0.243 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 2.2 2.28 5495 235 -- 0.304 0.309 -- 70.8
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 39.5
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.011
c_dihedral_angle_d 22.666
c_angle_deg 1.416
c_improper_angle_d 5.923
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.278
Luzzati Sigma A (Observed) 0.278
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.342
Luzzati Sigma A (R-Free Set) 0.296
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5097
Nucleic Acid Atoms 0
Heterogen Atoms 206
Solvent Atoms 373

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
SHARP phasing
CNS refinement