X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Details PROTEIN WAS CRYSTALLIZED FROM 0.1M TRIS PH8.5, 0.3M SODIUM ACETATE, 15% PEG 4K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 87 α = 90
b = 87 β = 90
c = 270 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD TOROIDAL MIRRORS 2008-12-12
Diffraction Radiation
Monochromator Protocol
DIAMOND (111), GE(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-2 -- ESRF ID14-2

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 50 96.6 0.07 -- -- 8.1 -- 42925 -- -3.0 --
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)
2.0 2.07 94.1 0.29 -- 5.82 6.0 --

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 2.0 43.93 -- -- -- 38506 2063 96.67 -- 0.14893 0.14729 0.17988 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 2.0 2.052 -- 135 2698 0.162 0.225 -- 93.81
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.877
Anisotropic B[1][1] -0.42
Anisotropic B[1][2] -0.42
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.42
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.37
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.085
r_angle_other_deg 0.976
r_bond_refined_d 0.012
r_angle_refined_deg 1.404
r_gen_planes_other 0.006
r_dihedral_angle_1_deg 5.942
r_dihedral_angle_2_deg 36.948
r_dihedral_angle_3_deg 12.733
r_dihedral_angle_4_deg 16.356
r_gen_planes_refined 0.007
r_bond_other_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4682
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 365

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0029
HKL-2000 data reduction
HKL-2000 data scaling
MOLREP phasing