X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Ligang Replacement
Details ligang replacement

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.66 α = 90
b = 94.66 β = 90
c = 187.27 γ = 90
Symmetry
Space Group I 4 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M-F -- 2012-04-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.00001 SLS X06DA

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 93.63 90.5 0.088 -- -- 5.0 -- 8897 -- 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)
3.0 3.24 91.9 0.443 -- 1.7 5.1 --

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
OTHER 3.0 46.81 -- 0.0 -- 7925 528 89.07 -- 0.2133 0.2101 0.2592 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 3.002 3.08 -- 42 527 0.329 0.39 -- 90.03
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 81.704
Anisotropic B[1][1] 2.39
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.78
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.476
r_scbond_it 2.155
r_mcangle_it 1.617
r_mcbond_other 0.117
r_bond_refined_d 0.008
r_bond_other_d 0.001
r_angle_refined_deg 1.028
r_angle_other_deg 0.971
r_dihedral_angle_1_deg 5.415
r_dihedral_angle_2_deg 34.083
r_dihedral_angle_3_deg 14.363
r_dihedral_angle_4_deg 12.521
r_chiral_restr 0.059
r_gen_planes_refined 0.003
r_gen_planes_other 0.001
r_mcbond_it 0.856
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2153
Nucleic Acid Atoms 0
Heterogen Atoms 33
Solvent Atoms 6

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
REFMAC 5.5.0109 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
REFMAC5 version: 5.5.0109 refinement