X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Temperature 293.0
Details 12% PEG-8000, 0.2 M Ammonium Sulphate 2% PEG-400, 1% 1,2,3 heptanetriol, 1 mM Sodium Tungstate, 0.1 M Mes, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.36 α = 90
b = 105.83 β = 90
c = 208.71 γ = 90
Symmetry
Space Group P 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate -- 2003-01-31
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B -- EMBL/DESY, HAMBURG BW7B

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
3.1 20 96.0 0.048 -- -- 3.7 -- 33285 -- -- 101.02
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)
3.1 3.2 96.0 0.38 -- 2.1 3.2 --

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 3.1 14.976 -- 1.38 -- 31869 1588 96.04 -- 0.2283 0.2266 0.2592 --
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 3.1 3.1991 -- 148 2706 0.4083 0.4465 -- 96.0
X Ray Diffraction 3.1991 3.3123 -- 126 2710 0.3694 0.4041 -- 96.0
X Ray Diffraction 3.3123 3.4434 -- 140 2706 0.3284 0.3292 -- 96.0
X Ray Diffraction 3.4434 3.598 -- 148 2732 0.288 0.3504 -- 96.0
X Ray Diffraction 3.598 3.7848 -- 137 2731 0.2746 0.2937 -- 96.0
X Ray Diffraction 3.7848 4.0177 -- 166 2707 0.2366 0.2562 -- 96.0
X Ray Diffraction 4.0177 4.3209 -- 134 2762 0.2044 0.2395 -- 96.0
X Ray Diffraction 4.3209 4.7432 -- 146 2772 0.1747 0.2435 -- 96.0
X Ray Diffraction 4.7432 5.4011 -- 137 2774 0.172 0.2028 -- 96.0
X Ray Diffraction 5.4011 6.7018 -- 159 2807 0.1992 0.2415 -- 96.0
X Ray Diffraction 6.7018 14.9762 -- 147 2874 0.1964 0.2195 -- 95.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 56.3438
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -40.0922
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -16.2516
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.008
f_chiral_restr 0.112
f_dihedral_angle_d 26.624
f_angle_d 1.497
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8235
Nucleic Acid Atoms 0
Heterogen Atoms 99
Solvent Atoms 8

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine) refinement
Phaser model building
MAR345dtb data collection