X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 291.0
Details pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.19 α = 90
b = 121.65 β = 90
c = 138.42 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-04-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-E 0.979 APS 24-ID-E

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
2.6 50 97.3 0.059 -- -- 3.4 -- 34280 -- 3.0 --
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)
2.6 2.69 95.0 0.533 -- -- 3.3 --

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 2.599 36.141 -- 0.0 34135 34135 1742 97.06 -- 0.1964 0.194 0.2398 --
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 2.5991 2.6756 -- 124 2509 0.2639 0.324 -- 92.0
X Ray Diffraction 2.6756 2.7619 -- 154 2691 0.263 0.3312 -- 98.0
X Ray Diffraction 2.7619 2.8606 -- 154 2674 0.2619 0.3394 -- 99.0
X Ray Diffraction 2.8606 2.9751 -- 142 2712 0.2611 0.3329 -- 98.0
X Ray Diffraction 2.9751 3.1104 -- 144 2700 0.2549 0.303 -- 98.0
X Ray Diffraction 3.1104 3.2743 -- 144 2714 0.2335 0.2816 -- 98.0
X Ray Diffraction 3.2743 3.4793 -- 139 2748 0.2098 0.2544 -- 98.0
X Ray Diffraction 3.4793 3.7477 -- 140 2696 0.1911 0.2427 -- 98.0
X Ray Diffraction 3.7477 4.1243 -- 142 2720 0.1789 0.2447 -- 98.0
X Ray Diffraction 4.1243 4.72 -- 150 2707 0.1455 0.1797 -- 97.0
X Ray Diffraction 4.72 5.9424 -- 166 2717 0.1541 0.1946 -- 96.0
X Ray Diffraction 5.9424 36.1448 -- 143 2805 0.1855 0.2139 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 63.9118
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.079
f_dihedral_angle_d 15.957
f_angle_d 1.188
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6044
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 124

Software

Computing
Computing Package Purpose
HKL Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
Phaser molecular replacement
HKL data reduction