X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details pH 6.5

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 34.36 α = 90
b = 35.32 β = 90
c = 43.99 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 295
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL (PILATUS 6M) DECTRIS -- 2011-03-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 -- ESRF ID29

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 35.32 96.7 0.04 -- -- 3.3 -- 28427 -- 2.0 11.15
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)
1.0 1.05 98.0 0.47 -- 2.1 3.1 --

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
ISOMORPHOUS REPLACEMENT 1.0 27.54 -- 1.36 -- 28386 1439 95.92 -- 0.1099 0.1095 0.1189 --
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 1.0 1.0357 -- 154 2689 0.2001 0.2243 -- 98.0
X Ray Diffraction 1.0357 1.0772 -- 142 2629 0.1596 0.1519 -- 95.0
X Ray Diffraction 1.0772 1.1262 -- 143 2736 0.1131 0.1135 -- 99.0
X Ray Diffraction 1.1262 1.1856 -- 160 2766 0.0963 0.1103 -- 99.0
X Ray Diffraction 1.1856 1.2599 -- 149 2710 0.0926 0.1086 -- 98.0
X Ray Diffraction 1.2599 1.3572 -- 137 2651 0.0892 0.1006 -- 95.0
X Ray Diffraction 1.3572 1.4938 -- 131 2727 0.0821 0.098 -- 96.0
X Ray Diffraction 1.4938 1.7099 -- 142 2707 0.079 0.1009 -- 96.0
X Ray Diffraction 1.7099 2.1541 -- 142 2661 0.0912 0.1122 -- 93.0
X Ray Diffraction 2.1541 27.5504 -- 139 2671 0.1296 0.127 -- 89.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 0.2004
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.1398
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.0606
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_chiral_restr 0.079
f_dihedral_angle_d 11.701
f_angle_d 1.229
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 421
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 135

Software

Computing
Computing Package Purpose
XDS Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHENIX Structure Solution
PHENIX (PHENIX.REFINE) Structure Refinement
Software
Software Name Purpose
PHENIX version: (PHENIX.REFINE) refinement
PHENIX model building