X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 9.5
Temperature 293.0
Details 1 M Trisodium citrate, 100 mM CHES, pH 9.5, vapor diffusion, sitting drop, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.57 α = 90
b = 117.5 β = 90
c = 79.06 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2011-05-13
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X4C 0.979 NSLS X4C

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
1.97 50 98.5 0.058 -- -- 4.8 22613 22274 0.0 -3.0 --
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)
1.97 2.0 84.1 0.454 -- -- 3.4 945

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 1.97 17.548 -- 0.0 23347 22206 1141 98.58 0.1866 0.1866 0.1847 0.2246 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 1.97 2.0621 -- 131 2446 0.2164 0.2595 -- 93.0
X Ray Diffraction 2.0621 2.1706 -- 153 2626 0.1956 0.2836 -- 99.0
X Ray Diffraction 2.1706 2.3063 -- 136 2605 0.1949 0.2258 -- 99.0
X Ray Diffraction 2.3063 2.4839 -- 135 2656 0.2096 0.2676 -- 100.0
X Ray Diffraction 2.4839 2.7331 -- 168 2612 0.2013 0.2177 -- 100.0
X Ray Diffraction 2.7331 3.1266 -- 130 2670 0.1835 0.2162 -- 100.0
X Ray Diffraction 3.1266 3.9319 -- 143 2693 0.1691 0.2137 -- 100.0
X Ray Diffraction 3.9319 17.5484 -- 145 2757 0.1766 0.2106 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.0807
Anisotropic B[1][1] -4.1175
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.6095
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.508
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_bond_d 0.008
f_chiral_restr 0.073
f_angle_d 1.063
f_dihedral_angle_d 12.373
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1645
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 182

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing
PHENIX refinement version: 1.6.4_486
PDB_EXTRACT data extraction version: 3.10
HKL-2000 data collection