X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.5
Temperature 290.0
Details 100 mM phosphate-citrate pH 4.5, 26% (v/v) PEG300, 5 mM CHAPS, VAPOR DIFFUSION, HANGING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.26 α = 91.91
b = 120.54 β = 95.73
c = 176.66 γ = 101.41
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 mirrors 2009-10-24
Diffraction Radiation
Monochromator Protocol
Si(311) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.973 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
3.3 40 96.4 0.077 0.077 -- 2.0 99359 99359 0.0 0.0 97.0
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)
3.3 3.48 92.6 0.737 0.737 0.9 1.9 13892

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 3.3 25.725 -- 0.0 89170 89170 1816 86.73 0.2099 0.2099 0.2088 0.2634 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 3.3 3.389 -- 53 2172 0.3233 0.3704 -- 28.0
X Ray Diffraction 3.389 3.4885 -- 94 4503 0.3045 0.3631 -- 58.0
X Ray Diffraction 3.4885 3.6008 -- 144 6480 0.2862 0.3431 -- 84.0
X Ray Diffraction 3.6008 3.7292 -- 149 7378 0.2684 0.3167 -- 95.0
X Ray Diffraction 3.7292 3.878 -- 164 7401 0.2448 0.3064 -- 96.0
X Ray Diffraction 3.878 4.0539 -- 136 7492 0.2175 0.2934 -- 96.0
X Ray Diffraction 4.0539 4.2667 -- 160 7490 0.1981 0.2596 -- 97.0
X Ray Diffraction 4.2667 4.5326 -- 147 7514 0.1796 0.2223 -- 97.0
X Ray Diffraction 4.5326 4.8804 -- 150 7510 0.1698 0.2609 -- 97.0
X Ray Diffraction 4.8804 5.3675 -- 149 7563 0.1832 0.2586 -- 97.0
X Ray Diffraction 5.3675 6.135 -- 165 7393 0.207 0.2445 -- 96.0
X Ray Diffraction 6.135 7.695 -- 153 7394 0.2108 0.2363 -- 95.0
X Ray Diffraction 7.695 25.726 -- 152 7064 0.1876 0.2192 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model TLS and isotropic
Mean Isotropic B 84.3
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.071
f_dihedral_angle_d 15.392
f_angle_d 1.06
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 32514
Nucleic Acid Atoms 0
Heterogen Atoms 136
Solvent Atoms 0

Software

Computing
Computing Package Purpose
MOSFLM Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: dev_1041) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: dev_1041) refinement
PHASER model building
MOSFLM data collection