X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 277.0
Details 10% PEG3350, 20% glycerol, 0.12 M sodium acetate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.67 α = 90
b = 113.21 β = 97.11
c = 73.46 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
CCD ADSC QUANTUM 315 -- 2011-04-15
Diffraction Radiation
Monochromator Protocol
cryo-cooled double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.97918 APS 24-ID-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
2.15 100 94.3 0.042 0.042 -- 3.2 57756 57756 0.0 0.0 30.23
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)
2.15 2.19 58.9 0.393 -- -- 2.1 1777

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
MOLECULAR REPLACEMENT 2.15 21.67 0.0 0.0 52813 52813 2709 86.04 0.2048 0.2048 0.2029 0.2398 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 2.15 2.21 972 58 914 0.2352 0.2557 -- 86.04
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.0369
Anisotropic B[1][1] -0.9532
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.3872
Anisotropic B[2][2] -0.4967
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.4498
RMS Deviations
Key Refinement Restraint Deviation
t_it 1.45
t_dihedral_angle_d 22.5
t_torsion_other 22.5
t_gen_planes 0.0159
t_angle_deg 1.11
t_trig_c_planes 0.008
t_bond_d 0.01
t_omega_torsion 3.05
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.298
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6485
Nucleic Acid Atoms 0
Heterogen Atoms 159
Solvent Atoms 504

Software

Software
Software Name Purpose
SCALEPACK data scaling
BUSTER-TNT refinement
PDB_EXTRACT data extraction version: 3.11
HKL-2000 data collection
DENZO data reduction
PHASER phasing
BUSTER refinement