X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 296.0
Details 25% PEG 2000, 0.1 M MES, 0.45 M MAGNESIUM CHLORIDE, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 273.52 α = 90
b = 273.52 β = 90
c = 273.52 γ = 90
Symmetry
Space Group F 41 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD DCM WITH CRYO-COOLED. 1ST CRYSTAL SAGITTALLY BENT. 2ND CRYSTAL FOLLOWED BY VERTICALLY FOCUSING MIRROR. 2010-07-28
Diffraction Radiation
Monochromator Protocol
A DOUBLE CRYSTAL MONOCHROMATOR SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CLSI BEAMLINE 08ID-1 0.9795 CLSI 08ID-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
2.3 55.8 100.0 0.105 -- -- 8.7 39388 39388 0.0 0.0 36.3
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)
2.3 2.4 100.0 0.249 -- 6.5 8.1 5637

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 2.3 55.8 -- 0.0 39388 39388 1978 100.0 -- 0.17394 0.17269 0.19685 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 2.3 2.4 5637 123 2474 0.21 0.246 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.166
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_3_deg 15.736
r_gen_planes_refined 0.017
r_bond_refined_d 0.012
r_dihedral_angle_2_deg 38.973
r_dihedral_angle_4_deg 15.075
r_dihedral_angle_1_deg 7.018
r_chiral_restr 0.121
r_angle_refined_deg 1.428
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3026
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 320

Software

Software
Software Name Purpose
MXDC data collection
PHASER phasing
REFMAC refinement version: 5.6.0117
MOSFLM data reduction
SCALA data scaling