X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 295.0
Details 2M ammonium sulfate, 20 mM sodium acetate trihydrate, 5mM B-mercaptoethanol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 36.38 α = 90
b = 36.38 β = 90
c = 112.14 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 -- 2005-10-28
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 1.072 EMBL/DESY, Hamburg X12

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 30 97.9 0.036 0.039 -- 5.48 18279 17902 0.0 0.0 --
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)
1.7 1.8 94.4 0.523 0.391 3.49 5.26 2892

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 27.47 -- 0.0 18279 16972 929 97.95 -- 0.18076 0.1796 0.20113 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 1.744 1195 64 1195 0.22 0.247 -- 92.03
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.111
Anisotropic B[1][1] 1.76
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.76
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.52
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.186
r_dihedral_angle_4_deg 15.485
r_scangle_it 1.903
r_gen_planes_refined 0.005
r_dihedral_angle_3_deg 14.874
r_chiral_restr 0.065
r_mcbond_it 0.518
r_dihedral_angle_2_deg 42.8
r_bond_refined_d 0.006
r_angle_refined_deg 1.016
r_mcangle_it 0.95
r_scbond_it 1.095
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1040
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 45

Software

Software
Software Name Purpose
XDS data scaling
PHASER phasing
REFMAC refinement version: 5.5.0109
XDS data reduction