X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 277.0
Details 0.06M magnesium chloride, 0.08M MES, 1.3M sodium citrate, 2% benzamidine hydrochloride, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 221.51 α = 90
b = 127.55 β = 89.96
c = 70.28 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2010-10-10
Diffraction Radiation
Monochromator Protocol
Si111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06SA 1.0000 SLS X06SA

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 43.5 99.1 -- -- -- -- 39231 38868 -3.0 -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)
3.0 3.08 99.5 -- -- -- -- --

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 3.0 43.5 -- 1.99 39231 38854 1944 99.07 -- 0.2165 0.2149 0.2461 --
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 3.0 3.075 -- 139 2636 0.3406 0.3954 -- 99.0
X Ray Diffraction 3.075 3.1582 -- 140 2661 0.3162 0.3751 -- 99.0
X Ray Diffraction 3.1582 3.2511 -- 139 2632 0.2965 0.3426 -- 100.0
X Ray Diffraction 3.2511 3.356 -- 139 2649 0.2948 0.3515 -- 99.0
X Ray Diffraction 3.356 3.4759 -- 137 2605 0.2888 0.3333 -- 100.0
X Ray Diffraction 3.4759 3.615 -- 137 2603 0.2932 0.3323 -- 100.0
X Ray Diffraction 3.615 3.7794 -- 138 2618 0.2555 0.3087 -- 98.0
X Ray Diffraction 3.7794 3.9785 -- 140 2664 0.2305 0.2516 -- 100.0
X Ray Diffraction 3.9785 4.2276 -- 138 2617 0.1931 0.2059 -- 99.0
X Ray Diffraction 4.2276 4.5537 -- 140 2650 0.1773 0.2287 -- 99.0
X Ray Diffraction 4.5537 5.0114 -- 138 2631 0.1884 0.2512 -- 98.0
X Ray Diffraction 5.0114 5.7351 -- 138 2620 0.2158 0.2436 -- 99.0
X Ray Diffraction 5.7351 7.2203 -- 139 2639 0.2092 0.2432 -- 99.0
X Ray Diffraction 7.2203 43.5174 -- 142 2685 0.167 0.167 -- 98.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 12.9981
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.2875
Anisotropic B[2][2] 8.3536
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -13.8873
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.078
f_dihedral_angle_d 16.257
f_bond_d 0.005
f_angle_d 0.918
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 12420
Nucleic Acid Atoms 0
Heterogen Atoms 189
Solvent Atoms 0

Software

Software
Software Name Purpose
RemDAq data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.7.3_928)
XDS data reduction
XSCALE data scaling