X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.6
Temperature 283.15
Details Ammonium Sulfate, pH 8.6, VAPOR DIFFUSION, SITTING DROP, temperature 283.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.13 α = 111.02
b = 80.08 β = 89.97
c = 87.24 γ = 92.97
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD NOIR-1 -- 2011-05-13
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock Si (111) sagitally focused monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 4.2.2 1.00004 ALS 4.2.2

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 48.94 96.74 0.11 -- -- 1.8 -- 37001 0.06 -- --
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 2.96 89.5 -- -- -- -- --

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 2.9 48.945 -- 0.08 -- 35593 1749 93.4 -- 0.2351 0.2317 0.2975 --
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 2.9853 -- 125 2429 0.2624 0.349 -- 80.0
X Ray Diffraction 2.9853 3.0817 -- 141 2699 0.2635 0.3275 -- 89.0
X Ray Diffraction 3.0817 3.1918 -- 132 2723 0.2646 0.369 -- 92.0
X Ray Diffraction 3.1918 3.3196 -- 156 2848 0.2594 0.3724 -- 94.0
X Ray Diffraction 3.3196 3.4706 -- 148 2878 0.2481 0.3501 -- 95.0
X Ray Diffraction 3.4706 3.6535 -- 143 2850 0.2335 0.3225 -- 95.0
X Ray Diffraction 3.6535 3.8824 -- 148 2821 0.2307 0.2918 -- 94.0
X Ray Diffraction 3.8824 4.182 -- 145 2891 0.2265 0.2968 -- 95.0
X Ray Diffraction 4.182 4.6025 -- 151 2949 0.2096 0.284 -- 97.0
X Ray Diffraction 4.6025 5.2679 -- 146 2924 0.214 0.2712 -- 97.0
X Ray Diffraction 5.2679 6.6343 -- 158 2926 0.2372 0.3021 -- 98.0
X Ray Diffraction 6.6343 48.9522 -- 156 2906 0.2231 0.2436 -- 96.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 8.8532
Anisotropic B[1][2] -3.1327
Anisotropic B[1][3] 1.9249
Anisotropic B[2][2] 5.6776
Anisotropic B[2][3] 7.1585
Anisotropic B[3][3] -14.5308
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.113
f_dihedral_angle_d 17.504
f_angle_d 1.543
f_bond_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11513
Nucleic Acid Atoms 0
Heterogen Atoms 410
Solvent Atoms 23

Software

Computing
Computing Package Purpose
EPICS Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
HKL data reduction