X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Microbatch
pH 7.5
Temperature 293.0
Details Lithium sulfate, HEPES, dithiotreitol, pH 7.5, MICRO BATCH, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 146.89 α = 90
b = 146.89 β = 90
c = 381.68 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 2001-06-30
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 0.8452 EMBL/DESY, Hamburg BW7B

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
3.4 20 92.5 0.089 -- -- -- -- 18266 -- -3.0 88.3
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)
3.4 3.52 79.9 0.383 -- 2.51 -- 1713

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 3.4 6.0 -- 0.0 -- 15805 858 92.52 -- 0.29788 0.29675 0.31895 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 3.4 3.459 -- 42 775 0.316 0.322 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 134.533
Anisotropic B[1][1] -2.33
Anisotropic B[1][2] -1.16
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.33
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.49
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.229
r_gen_planes_refined 0.007
r_mcangle_it 5.371
r_symmetry_vdw_refined 0.298
r_xyhbond_nbd_refined 0.191
r_dihedral_angle_3_deg 20.954
r_bond_refined_d 0.025
r_gen_planes_other 0.004
r_symmetry_vdw_other 0.393
r_nbd_other 0.289
r_angle_refined_deg 1.995
r_angle_other_deg 1.052
r_xyhbond_nbd_other 0.154
r_mcbond_it 2.891
r_scangle_it 9.927
r_rigid_bond_restr 3.621
r_bond_other_d 0.003
r_chiral_restr 0.103
r_nbd_refined 0.287
r_dihedral_angle_1_deg 2.536
r_sphericity_bonded 1.859
r_scbond_it 5.781
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7187
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 0

Software

Software
Software Name Purpose
CNS refinement
REFMAC refinement version: 5.0
DENZO data reduction
CCP4 data scaling version: (TRUNCATE)
CNS phasing