X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 20% PEG 3350, 0.2M Mg-Formate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 74.18 α = 90
b = 74.18 β = 90
c = 139.72 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD mirrors 2008-08-21
Diffraction Radiation
Monochromator Protocol
double crystal MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.1 0.97981, 0.97969, 0.97201 BESSY 14.1

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 98.6 0.097 -- -- 10.3 -- 26706 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)
2.0 2.06 99.8 0.484 -- 3.8 10.3 3912

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
SAD 2.0 19.74 -- 0.0 25554 25554 1345 100.0 0.19805 0.19805 0.1957 0.24195 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 2.051 -- 97 1841 0.239 0.263 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.282
Anisotropic B[1][1] 0.53
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.06
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.774
r_scbond_it 2.42
r_mcangle_it 1.59
r_mcbond_other 0.18
r_mcbond_it 0.835
r_gen_planes_other 0.001
r_gen_planes_refined 0.005
r_chiral_restr 0.084
r_dihedral_angle_4_deg 17.948
r_dihedral_angle_3_deg 14.616
r_dihedral_angle_2_deg 36.972
r_dihedral_angle_1_deg 5.357
r_angle_other_deg 0.857
r_angle_refined_deg 1.312
r_bond_other_d 0.002
r_bond_refined_d 0.013
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2410
Nucleic Acid Atoms 0
Heterogen Atoms 27
Solvent Atoms 192

Software

Computing
Computing Package Purpose
mxcube Data Collection
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
SHELXS Structure Solution
REFMAC 5.5.0035 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0035 refinement
SHELXS model building
mxcube data collection