X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Details 0.1 M TRIS-HCL, PH 7.5, 0.1 M SODIUM CITRATE, 18 %(W/V) PEG 400. PROTEIN WAS MIXED WITH 7.8 MAG AT RATIO 1:1 (W:W) TO FORM CUBIC PHASE.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 57.25 α = 90
b = 74.42 β = 101.56
c = 115.53 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
CCD MARRESEARCH -- 2008-04-22
Diffraction Radiation
Monochromator Protocol
DOUBLE CRYSTAL CRYO-COOLED SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B -- APS 23-ID-B

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
1.9 113.18 100.0 0.14 -- -- 6.4 -- 37703 -- -3.0 15.42
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)
1.9 1.97 84.9 0.35 -- 2.9 2.5 --

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 1.897 19.77 -- 0.0 -- 35580 1788 94.51 -- 0.1656 0.1633 0.2086 --
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 1.8973 1.9486 -- 98 1972 0.2185 0.3114 -- 71.0
X Ray Diffraction 1.9486 2.0059 -- 129 2306 0.1739 0.2219 -- 86.0
X Ray Diffraction 2.0059 2.0705 -- 124 2526 0.1611 0.2108 -- 91.0
X Ray Diffraction 2.0705 2.1444 -- 122 2591 0.1574 0.228 -- 94.0
X Ray Diffraction 2.1444 2.2302 -- 130 2615 0.1533 0.1961 -- 95.0
X Ray Diffraction 2.2302 2.3315 -- 137 2647 0.1582 0.2298 -- 97.0
X Ray Diffraction 2.3315 2.4543 -- 161 2674 0.1566 0.2297 -- 97.0
X Ray Diffraction 2.4543 2.6077 -- 138 2719 0.1547 0.1984 -- 98.0
X Ray Diffraction 2.6077 2.8085 -- 143 2688 0.1633 0.2182 -- 99.0
X Ray Diffraction 2.8085 3.0902 -- 141 2734 0.1646 0.1917 -- 99.0
X Ray Diffraction 3.0902 3.5352 -- 160 2736 0.1601 0.2039 -- 100.0
X Ray Diffraction 3.5352 4.4456 -- 155 2770 0.1543 0.1976 -- 100.0
X Ray Diffraction 4.4456 19.7712 -- 150 2814 0.1763 0.1942 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.505
Anisotropic B[1][1] 1.0359
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -1.7468
Anisotropic B[2][2] 2.2185
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.2544
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_angle_d 1.344
f_bond_d 0.01
f_chiral_restr 0.099
f_dihedral_angle_d 19.379
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3415
Nucleic Acid Atoms 0
Heterogen Atoms 342
Solvent Atoms 242

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
HKL-2000 data reduction
SCALEPACK data scaling
PHASER phasing