X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.5
Details PROTEIN WAS CRYSTALLIZED FROM 0.1 M MES PH6.5, 2.0 M POTASSIUM ACETATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.62 α = 90
b = 51.62 β = 90
c = 111.47 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 103
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- 2009-06-29
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON NSLS BEAMLINE X29A -- NSLS X29A

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 50 100.0 0.06 -- -- 11.9 -- 10569 -- 0.0 41.98
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 2.18 100.0 0.42 -- 4.2 10.2 --

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 2.103 44.706 -- 0.65 -- 10026 987 95.2 -- 0.2271 0.2246 0.2497 --
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 2.1031 2.2139 -- 129 1147 0.2513 0.3049 -- 88.0
X Ray Diffraction 2.2139 2.3526 -- 136 1228 0.2351 0.3124 -- 91.0
X Ray Diffraction 2.3526 2.5343 -- 133 1229 0.2357 0.3081 -- 94.0
X Ray Diffraction 2.5343 2.7893 -- 140 1300 0.2585 0.2775 -- 97.0
X Ray Diffraction 2.7893 3.1928 -- 148 1335 0.2613 0.3268 -- 98.0
X Ray Diffraction 3.1928 4.0222 -- 148 1356 0.2096 0.2479 -- 100.0
X Ray Diffraction 4.0222 44.716 -- 153 1444 0.2091 0.1968 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.4
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_bond_d 0.007
f_chiral_restr 0.059
f_dihedral_angle_d 13.029
f_angle_d 1.071
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 870
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 24

Software

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