X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 278.0
Details Reservoir: Sodium-MOPSO (pH 7.0) 100mM, Ammonium Acetate 300mM, PEG8000 14%. Ratio of protein to reservoir= 1:1

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 118.82 α = 90
b = 56.63 β = 90
c = 111.49 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r mirrors 2009-12-05
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.2.1 1.0 ALS 8.2.1

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
2.1 50 94.9 0.092 -- -- 4.8 -- 42128 -- -- 32.64
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)
2.1 2.14 94.8 0.496 -- -- 4.8 --

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 2.102 40.99 -- 1.33 -- 42079 2126 94.36 -- 0.168 0.1658 0.2092 --
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 2.1022 2.1511 -- 150 2410 0.2189 0.2956 0.0 88.0
X Ray Diffraction 2.1511 2.2049 -- 166 2614 0.2132 0.2307 0.0 94.0
X Ray Diffraction 2.2049 2.2646 -- 159 2593 0.2024 0.2476 0.0 94.0
X Ray Diffraction 2.2646 2.3312 -- 138 2602 0.2004 0.2786 0.0 94.0
X Ray Diffraction 2.3312 2.4064 -- 119 2615 0.2016 0.2279 0.0 93.0
X Ray Diffraction 2.4064 2.4924 -- 115 2624 0.1875 0.2535 0.0 93.0
X Ray Diffraction 2.4924 2.5922 -- 130 2610 0.1794 0.24 0.0 93.0
X Ray Diffraction 2.5922 2.7101 -- 158 2565 0.1858 0.2523 0.0 92.0
X Ray Diffraction 2.7101 2.853 -- 134 2600 0.1894 0.2437 0.0 93.0
X Ray Diffraction 2.853 3.0317 -- 115 2623 0.1938 0.1972 0.0 93.0
X Ray Diffraction 3.0317 3.2657 -- 125 2662 0.181 0.2683 0.0 94.0
X Ray Diffraction 3.2657 3.5942 -- 138 2750 0.1673 0.1974 0.0 96.0
X Ray Diffraction 3.5942 4.1138 -- 139 2813 0.1458 0.1758 0.0 98.0
X Ray Diffraction 4.1138 5.1813 -- 166 2867 0.1231 0.1525 0.0 100.0
X Ray Diffraction 5.1813 40.9979 -- 174 3005 0.1512 0.2048 0.0 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.9287
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.027
f_dihedral_angle_d 13.054
f_bond_d 0.003
f_angle_d 0.743
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5960
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 346

Software

Software
Software Name Purpose
HKL-2000 data collection
HKL-2000 data scaling
PHASER phasing
PHENIX refinement version: 1.9-1692
PDB_EXTRACT data extraction version: 3.22
HKL data scaling
iMOSFLM data reduction