X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 285.0
Details 8-10% MPD (2-methyl-2,4-pentanediol), 0-20% glycerol (w/v), 300-400 mM Tris-Hcl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 285K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 214.95 α = 90
b = 214.95 β = 90
c = 128.66 γ = 120
Symmetry
Space Group P 63 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2009-02-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 1.033 SOLEIL PROXIMA 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 20 99.4 -- -- -- 5.4 77508 73248 2.0 2.0 --
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)
2.3 2.4 99.9 -- -- 2.45 -- 9151

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 20.0 -- -- 77508 73248 3848 99.47 0.228 0.22837 0.22671 0.25992 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 2.359 -- 259 5329 0.341 0.379 -- 99.82
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 52.981
Anisotropic B[1][1] 1.92
Anisotropic B[1][2] 0.96
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.92
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.88
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.01
r_mcbond_it 1.784
r_scangle_it 5.046
r_mcangle_it 2.645
r_dihedral_angle_1_deg 6.252
r_dihedral_angle_2_deg 36.004
r_dihedral_angle_4_deg 21.073
r_bond_refined_d 0.025
r_angle_refined_deg 2.105
r_dihedral_angle_3_deg 19.268
r_scbond_it 3.148
r_chiral_restr 0.131
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4540
Nucleic Acid Atoms 0
Heterogen Atoms 56
Solvent Atoms 215

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
PHASER phasing
REFMAC refinement version: 5.5.0072
XDS data reduction
XSCALE data scaling