X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details 0.1 M HEPES sodium, 22% v/v PEG400, 0.15 M calcium chloride, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.98 α = 90
b = 95.97 β = 90
c = 137.35 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2011-10-30
Diffraction Radiation
Monochromator Protocol
Double crystal cryo-cooled Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.03 APS 23-ID-B

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
1.4 50 99.9 -- -- -- -- 104900 104795 -- -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)
1.4 1.45 99.9 -- -- -- -- --

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 1.401 47.986 -- 1.34 104900 104731 1997 99.84 -- 0.125 0.1245 0.1496 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 1.401 1.4359 -- 138 7207 0.1689 0.2312 -- 99.0
X Ray Diffraction 1.4359 1.4747 -- 143 7287 0.1511 0.213 -- 100.0
X Ray Diffraction 1.4747 1.5181 -- 140 7230 0.1292 0.1646 -- 100.0
X Ray Diffraction 1.5181 1.5671 -- 142 7282 0.1179 0.1724 -- 100.0
X Ray Diffraction 1.5671 1.6232 -- 142 7298 0.1088 0.174 -- 100.0
X Ray Diffraction 1.6232 1.6881 -- 142 7277 0.105 0.1516 -- 100.0
X Ray Diffraction 1.6881 1.765 -- 142 7316 0.1077 0.142 -- 100.0
X Ray Diffraction 1.765 1.858 -- 143 7320 0.0999 0.1428 -- 100.0
X Ray Diffraction 1.858 1.9744 -- 143 7326 0.1032 0.1464 -- 100.0
X Ray Diffraction 1.9744 2.1269 -- 142 7346 0.1041 0.143 -- 100.0
X Ray Diffraction 2.1269 2.3409 -- 144 7358 0.1087 0.1398 -- 100.0
X Ray Diffraction 2.3409 2.6796 -- 143 7388 0.1198 0.1378 -- 100.0
X Ray Diffraction 2.6796 3.3759 -- 145 7441 0.1343 0.1281 -- 100.0
X Ray Diffraction 3.3759 48.0137 -- 148 7658 0.1474 0.154 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 12.713
f_bond_d 0.015
f_angle_d 1.563
f_chiral_restr 0.106
f_plane_restr 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3939
Nucleic Acid Atoms 0
Heterogen Atoms 49
Solvent Atoms 585

Software

Software
Software Name Purpose
Blu-Ice data collection
PHENIX model building
PHENIX refinement version: (phenix.refine: 1.8.2_1309)
HKL-2000 data reduction
SCALEPACK data scaling
PHENIX phasing