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 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_gen_planes_other 0.006
r_gen_planes_refined 0.007
r_chiral_restr 0.085
r_dihedral_angle_4_deg 16.356
r_dihedral_angle_3_deg 12.733
r_dihedral_angle_2_deg 36.948
r_dihedral_angle_1_deg 5.942
r_angle_other_deg 0.976
r_angle_refined_deg 1.404
r_bond_other_d 0.003
r_bond_refined_d 0.012
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

Computing
Computing Package Purpose
HKL 2000 Data Reduction (intensity integration)
HKL 2000 Data Reduction (data scaling)
MOLREP Structure Solution
REFMAC 5.7.0029 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.7.0029 refinement
MOLREP model building