X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Small Tubes
pH 6.7
Temperature 289.0
Details 10mM Bes buffer, 3mM DDT, pH6.7, SMALL TUBES, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 128.62 α = 90
b = 128.62 β = 90
c = 116.38 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2005-10-02
Diffraction Radiation
Monochromator Protocol
crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.81 EMBL/DESY, Hamburg X11

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 30 98.5 -- 0.047 -- 4.9 65282 65282 0.0 -3.0 --
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)
2.0 2.03 98.1 -- 0.435 4.5 4.9 --

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
FOURIER SYNTHESIS 2.0 21.58 -- 0.0 -- 61937 3311 98.48 -- 0.19092 0.19015 0.20515 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 2.0 2.052 -- 257 4450 0.237 0.262 -- 97.98
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.177
Anisotropic B[1][1] 0.85
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.85
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.7
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.003
r_symmetry_hbond_refined 0.066
r_chiral_restr 0.074
r_mcbond_it 0.547
r_nbtor_refined 0.302
r_xyhbond_nbd_refined 0.101
r_symmetry_vdw_refined 0.164
r_dihedral_angle_3_deg 15.174
r_scbond_it 1.205
r_mcangle_it 0.941
r_dihedral_angle_1_deg 5.025
r_angle_refined_deg 1.023
r_dihedral_angle_4_deg 17.531
r_dihedral_angle_2_deg 33.959
r_nbd_refined 0.18
r_bond_refined_d 0.007
r_scangle_it 1.969
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6638
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 263

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0019
ADSC data collection version: Quantum
DENZO data reduction
SCALEPACK data scaling