X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Evaporation
pH 4.9
Temperature 277.0
Details 5% PEG6000, 0.05 M potassium citrate, 2.64 uM manganese chloride, pH 4.9, EVAPORATION, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 82.75 α = 90
b = 204.73 β = 96.75
c = 86.53 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-03-21
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock high-resolution double-crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97921 APS 19-ID

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
1.95 50 97.7 -- 0.074 -- 3.7 -- 200629 -- -- --
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)
1.95 2.02 86.1 -- 0.518 1.4 2.9 --

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 1.954 38.891 -- 0.09 -- 179645 9011 87.27 -- 0.2 0.1983 0.2332 --
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 1.954 2.0237 -- 665 12313 0.2638 0.2984 -- 63.0
X Ray Diffraction 2.0237 2.1047 -- 776 14191 0.2453 0.2896 -- 73.0
X Ray Diffraction 2.1047 2.2005 -- 797 15769 0.2235 0.2706 -- 81.0
X Ray Diffraction 2.2005 2.3165 -- 907 16565 0.2083 0.2664 -- 85.0
X Ray Diffraction 2.3165 2.4616 -- 963 17353 0.2014 0.247 -- 89.0
X Ray Diffraction 2.4616 2.6516 -- 933 17980 0.1964 0.2495 -- 92.0
X Ray Diffraction 2.6516 2.9184 -- 960 18513 0.2025 0.2462 -- 95.0
X Ray Diffraction 2.9184 3.3404 -- 957 19073 0.2035 0.2411 -- 97.0
X Ray Diffraction 3.3404 4.2078 -- 1032 19280 0.1771 0.2082 -- 99.0
X Ray Diffraction 4.2078 38.899 -- 1021 19597 0.1871 0.2049 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 3.4947
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -20.7131
Anisotropic B[2][2] -8.4252
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.9305
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.069
f_dihedral_angle_d 15.382
f_angle_d 1.047
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15095
Nucleic Acid Atoms 0
Heterogen Atoms 159
Solvent Atoms 859

Software

Computing
Computing Package Purpose
HKL-3000 Data Reduction (intensity integration)
HKL-3000 Data Reduction (data scaling)
Phaser Structure Solution
PHENIX (phenix.refine: 1.6_289) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6_289) refinement