X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 0.10 M Magnesium formate, 0.1M Tris 8.0, 14% w/v PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.48 α = 90
b = 65.85 β = 90
c = 107.36 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX300HS -- 2015-02-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.000 APS 22-ID

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
2.3 50 98.4 0.146 -- 13.212 5.1 -- 19568 -- -- --
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)
2.3 2.38 90.2 0.48 -- -- 2.5 1750

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
-- 2.3 50.0 -- 0.0 -- 18577 948 98.29 -- 0.2033 0.2005 0.2551 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 2.292 2.351 -- 50 1182 0.297 0.353 -- 86.82
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 34.062
Anisotropic B[1][1] 6.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.46
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.74
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.442
r_gen_planes_refined 0.004
r_mcangle_it 2.454
r_angle_other_deg 0.772
r_chiral_restr 0.066
r_mcbond_other 1.442
r_dihedral_angle_4_deg 15.938
r_angle_refined_deg 1.211
r_dihedral_angle_1_deg 5.781
r_dihedral_angle_3_deg 14.376
r_gen_planes_other 0.001
r_bond_refined_d 0.006
r_bond_other_d 0.001
r_dihedral_angle_2_deg 34.538
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3384
Nucleic Acid Atoms 0
Heterogen Atoms 69
Solvent Atoms 123

Software

Software
Software Name Purpose
HKL-2000 data reduction
SCALEPACK data scaling
REFMAC refinement version: 5.8.0073
PDB_EXTRACT data extraction version: 3.15