X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 293.0
Details buffer: 1 M potassium/sodium tartrate, 0.1 M MES, pH 6.0, drop: 200 nL 4.6 mg/mL protein + 100 nL buffer, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 50.14 α = 90
b = 54.51 β = 90
c = 64.24 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
PIXEL PSI PILATUS 6M -- 2011-10-14
Diffraction Radiation
Monochromator Protocol
channel cut Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.9791 SOLEIL PROXIMA 1

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
2.16 45 99.7 0.09 -- -- 13.7 9880 9880 0.0 0.0 35.49
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)
2.16 2.22 99.6 0.6 -- 3.7 13.1 753

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 2.16 27.67 -- 0.0 9880 9880 694 -- 0.1958 0.1958 0.1937 0.2232 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 2.16 2.42 2734 173 2561 0.2274 0.3178 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 38.47
Anisotropic B[1][1] 6.209
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.4018
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -11.6108
RMS Deviations
Key Refinement Restraint Deviation
t_it 0.0
t_chiral_improper_torsion 0.0
t_gen_planes 0.0
t_trig_c_planes 0.0
t_ideal_dist_contact 0.0
t_dihedral_angle_d 0.0
t_omega_torsion 3.77
t_other_torsion 23.96
t_bond_d 0.009
t_angle_deg 1.18
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.272
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1353
Nucleic Acid Atoms 0
Heterogen Atoms 18
Solvent Atoms 69

Software

Software
Software Name Purpose
DNA data collection
MOLREP phasing
BUSTER refinement version: 2.9.2
XDS data reduction
XSCALE data scaling