X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 293.0
Details 0.2M AmSO4, 0.1M Tris-HCl (pH 8.5), 25% w/v PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.27 α = 90
b = 84.01 β = 90
c = 88.39 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE -- 2011-07-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.9 SPRING-8 BL44XU

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 99.1 -- -- -- -- 27731 27673 1.35 31.07 --
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 2.34 97.7 -- -- -- -- --

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 2.305 39.114 -- 1.35 27731 27673 1396 98.74 -- 0.2356 0.2324 0.2948 --
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 2.3046 2.3869 -- 130 2474 0.244 0.3369 -- 94.0
X Ray Diffraction 2.3869 2.4825 -- 138 2576 0.228 0.272 -- 99.0
X Ray Diffraction 2.4825 2.5954 -- 140 2629 0.2165 0.3389 -- 100.0
X Ray Diffraction 2.5954 2.7322 -- 138 2588 0.2303 0.2888 -- 99.0
X Ray Diffraction 2.7322 2.9034 -- 139 2654 0.2396 0.3098 -- 100.0
X Ray Diffraction 2.9034 3.1274 -- 127 2646 0.2454 0.3301 -- 100.0
X Ray Diffraction 3.1274 3.442 -- 131 2648 0.2417 0.2739 -- 100.0
X Ray Diffraction 3.442 3.9397 -- 168 2651 0.2144 0.2744 -- 100.0
X Ray Diffraction 3.9397 4.962 -- 134 2705 0.2029 0.268 -- 100.0
X Ray Diffraction 4.962 39.1196 -- 151 2706 0.2725 0.3254 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -6.6009
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.1526
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 6.7535
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.069
f_dihedral_angle_d 18.938
f_angle_d 1.026
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4369
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 160

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
MOLREP & PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
MOLREP version: & PHASER model building
HKL-2000 data collection