X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 5.6
Details SEE THOMA ET AL. (1999) FEBS LETTERS 454, 1-6., pH 5.60

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.78 α = 90
b = 73.16 β = 97.42
c = 62.7 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH RHODIUM COATED PRE-MIRROR FOCUSSING MIRROR 1998-06-15
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL SI(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7A 0.97893, 0.97929, 0.98089 EMBL/DESY, HAMBURG BW7A

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
1.85 39.84 97.4 -- 0.041 -- 3.51 -- 34932 -- 0.0 27.24
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)
1.85 1.88 91.9 -- 0.269 2.53 1.95 --

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 1.85 8.0 -- 0.0 -- 34472 1707 97.4 -- 0.188 0.188 0.246 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 1.85 1.87 -- 58 855 0.306 0.365 -- 78.64
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.81
Anisotropic B[1][1] -2.878
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -3.646
Anisotropic B[2][2] 5.037
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.159
RMS Deviations
Key Refinement Restraint Deviation
c_mcangle_it 1.293
c_scbond_it 1.282
c_angle_deg 1.28
c_scangle_it 1.987
c_dihedral_angle_d 23.31
c_mcbond_it 0.788
c_improper_angle_d 0.649
c_bond_d 0.0047
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.17
Luzzati Resolution Cutoff (Low) 8.0
Luzzati ESD (R-Free Set) 0.28
Luzzati Sigma A (R-Free Set) 0.21
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3798
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 547

Software

Software
Software Name Purpose
CNS refinement version: 0.9
DENZO data reduction
SCALEPACK data scaling
CNS phasing version: 0.9
SHARP phasing
SOLVE phasing