X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 277.0
Details 2.4 M ammonium sulfate, 0.1M MES pH 6.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 36.64 α = 90
b = 49.99 β = 90
c = 55.13 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 ADSC QUANTUM 315 KOHZU: Double Crystal Si(111) 2011-09-09
Diffraction Radiation
Monochromator Protocol
Double Crystal Si(111) MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.2 0.9537,0.9796,0.9794 ALS 8.2.2

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
1.23 29.55 99.8 -- 0.08 -- 3.4 30048 30048 -- -- --
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)
1.23 1.26 100.0 0.612 0.612 1.3 3.4 2198

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
MAD 1.23 29.553 -- 0.0 -- 29999 1520 99.66 -- 0.1355 0.1341 0.1601 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 1.23 1.262 -- 110 2082 0.221 0.235 -- 99.91
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 16.2176
Anisotropic B[1][1] -0.61
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.41
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.02
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.009
r_rigid_bond_restr 2.331
r_dihedral_angle_3_deg 11.921
r_dihedral_angle_4_deg 13.134
r_gen_planes_other 0.002
r_mcangle_it 3.855
r_bond_other_d 0.003
r_sphericity_bonded 5.649
r_mcbond_other 1.504
r_scangle_it 7.405
r_dihedral_angle_1_deg 5.155
r_scbond_it 5.408
r_angle_other_deg 0.926
r_sphericity_free 11.822
r_dihedral_angle_2_deg 35.323
r_chiral_restr 0.108
r_bond_refined_d 0.024
r_angle_refined_deg 1.506
r_mcbond_it 2.751
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 932
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 189

Software

Software
Software Name Purpose
MolProbity model building version: 3beta29
PDB_EXTRACT data extraction version: 3.10
SOLVE phasing
SCALA data scaling version: 3.3.20
REFMAC refinement version: 5.5.0110
MOSFLM data reduction