X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.1
Temperature 291.0
Details 24% (w/v) PEG 3350, 200mM Ammonium sulfate, 100mM HEPES, pH 8.1, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 104.38 α = 90
b = 104.38 β = 90
c = 104.38 γ = 90
Symmetry
Space Group P 43 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2006-02-17
Diffraction Radiation
Monochromator Protocol
SAGITALLY FOCUSED Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 0.976 SLS X06SA

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
1.76 50 99.9 -- 0.09 -- 40.4 19881 19881 0.0 0.0 --
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)
1.76 1.9 100.0 -- 0.828 7.8 -- --

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 1.76 50.0 -- -- 18797 18797 1015 99.84 0.23398 0.23398 0.23133 0.28467 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 1.761 1.807 -- 75 1371 0.265 0.315 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.301
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.123
r_dihedral_angle_3_deg 14.42
r_gen_planes_refined 0.007
r_mcbond_it 1.318
r_dihedral_angle_1_deg 6.566
r_bond_refined_d 0.016
r_symmetry_vdw_refined 0.256
r_xyhbond_nbd_refined 0.153
r_mcangle_it 2.275
r_nbtor_refined 0.313
r_symmetry_hbond_refined 0.189
r_angle_refined_deg 1.639
r_dihedral_angle_4_deg 16.595
r_scangle_it 4.29
r_scbond_it 2.981
r_dihedral_angle_2_deg 32.481
r_nbd_refined 0.21
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1308
Nucleic Acid Atoms 0
Heterogen Atoms 2
Solvent Atoms 160

Software

Software
Software Name Purpose
HKL-2000 data collection
AMoRE phasing
REFMAC refinement version: 5.2.0019
DENZO data reduction
SCALEPACK data scaling