X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 291.0
Details 0.2 M CaCl2, 0.1 M NaOAc, 20% V/V isopropanol, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.83 α = 90
b = 94.83 β = 90
c = 111.54 γ = 90
Symmetry
Space Group P 42 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2006-12-21
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID

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
2.9 50 96.0 -- 0.094 -- 21.7 11798 11326 1.34 1.34 --
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)
2.9 3.0 68.9 -- -- -- 8.8 788

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 2.9 42.878 -- 1.34 11788 11256 542 95.49 -- 0.2079 0.2057 0.2536 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 2.9 3.1956 -- 137 2253 0.2763 0.3617 -- 83.0
X Ray Diffraction 3.1956 3.6577 -- 129 2745 0.19 0.2179 -- 99.0
X Ray Diffraction 3.6577 4.6075 -- 139 2772 0.1538 0.2188 -- 100.0
X Ray Diffraction 4.6075 42.8829 -- 137 2944 0.2318 0.2643 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 93.8646
Anisotropic B[1][1] 9.0736
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 9.0736
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -18.1471
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.017
f_plane_restr 0.002
f_chiral_restr 0.05
f_angle_d 0.775
f_bond_d 0.004
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2330
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 4

Software

Computing
Computing Package Purpose
MarCCD Data Collection
HKL Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
HKL data reduction