X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 294.0
Details 0.1M Tris HCl, 22% PEG 400, 0.3M tri-sodium citrate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 124.82 α = 90
b = 124.82 β = 90
c = 137.58 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2006-04-10
CCD MARMOSAIC 225 mm CCD -- 2006-02-18
Diffraction Radiation
Monochromator Protocol
-- MAD
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 0.90499 ESRF BM14
SYNCHROTRON ESRF BEAMLINE BM14 0.97800 ESRF BM14

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
2.8 30 99.7 0.238 -- -- 10.7 -- 19515 -- -1.0 48.9
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)
2.8 2.9 97.3 0.923 -- 2.2 8.5 1929

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
MAD 2.8 26.31 -- -- -- 18502 1004 99.39 -- 0.23236 0.2298 0.27968 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 2.8 2.875 -- 76 1239 0.377 0.426 -- 91.96
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 42.253
Anisotropic B[1][1] 2.61
Anisotropic B[1][2] 1.3
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.61
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.91
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.174
r_mcbond_it 4.749
r_dihedral_angle_1_deg 5.842
r_chiral_restr 0.071
r_bond_refined_d 0.009
r_dihedral_angle_2_deg 30.8
r_mcangle_it 7.55
r_gen_planes_refined 0.007
r_scbond_it 9.405
r_dihedral_angle_4_deg 20.632
r_scangle_it 14.634
r_dihedral_angle_3_deg 19.547
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4062
Nucleic Acid Atoms 0
Heterogen Atoms 71
Solvent Atoms 27

Software

Software
Software Name Purpose
SOLVE phasing
REFMAC refinement version: 5.5.0109
HKL-2000 data reduction
HKL-2000 data scaling