X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 291.0
Details 0.2 M diammonium hydrogen citrate, 20% PEG3350, 10% glycerol, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 150 α = 90
b = 150 β = 90
c = 54.7 γ = 120
Symmetry
Space Group P 32

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD mirrors 2010-04-16
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 0.95371 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
1.7 50 100.0 0.056 0.056 -- 11.7 -- 150872 1.0 1.0 22.4
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)
1.7 1.73 99.8 0.561 0.561 3.5 7.5 7441

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 1.7 50.0 1.0 1.0 150872 143296 7555 99.87 -- 0.15515 0.1532 0.19199 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 1.7 1.746 -- 520 10492 0.213 0.265 -- 98.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ANISOTROPIC
Mean Isotropic B 25.498
Anisotropic B[1][1] -0.18
Anisotropic B[1][2] -0.09
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.18
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.27
RMS Deviations
Key Refinement Restraint Deviation
r_sphericity_bonded 10.748
r_sphericity_free 22.448
r_rigid_bond_restr 4.697
r_gen_planes_other 0.008
r_gen_planes_refined 0.008
r_chiral_restr 0.091
r_dihedral_angle_4_deg 15.746
r_dihedral_angle_3_deg 14.678
r_dihedral_angle_2_deg 30.095
r_dihedral_angle_1_deg 6.522
r_angle_other_deg 1.947
r_angle_refined_deg 1.523
r_bond_other_d 0.011
r_bond_refined_d 0.012
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9730
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 808

Software

Computing
Computing Package Purpose
MxCube Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
EPMR Structure Solution
REFMAC 5.6.0116 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.6.0116 refinement
EPMR model building
MxCube data collection