X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 289.0
Details 0.2M Magnesium formate, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.92 α = 90
b = 41.92 β = 90
c = 68.44 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2008-09-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.0000 SLS X06DA

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
2.5 36.3 98.8 -- 0.048 -- 9.4 2460 2575 -- -- --

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 2.5 36.3 -- 0.0 -- 2574 114 98.02 -- 0.187 0.184 0.232 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 2.5 2.57 -- 9 169 0.379 0.733 -- 97.27
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 61.046
Anisotropic B[1][1] 4.49
Anisotropic B[1][2] 2.24
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.73
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.12
r_scbond_it 2.812
r_scangle_it 4.317
r_angle_refined_deg 2.247
r_mcbond_it 0.108
r_gen_planes_refined 0.01
r_bond_refined_d 0.018
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 0
Nucleic Acid Atoms 341
Heterogen Atoms 2
Solvent Atoms 47

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.3.9
PHASER phasing version: 2.1.4
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005
MAR345 data collection version: CCD