X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.26
Temperature 298.0
Details MES, 16% IPP, 1% 1,4-butanediol, pH 6.26, VAPOR DIFFUSION, HANGING DROP, temperature 298 K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.59 α = 90
b = 115.33 β = 90
c = 48.52 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 225 mm CCD -- 2010-09-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.99583 SSRF BL17U

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
2.29 30 96.8 -- -- -- -- 25462 24647 0.0 0.0 34.29
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)
2.285 2.34 91.5 -- -- 2.23 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 2.285 29.547 -- 0.06 25462 23163 1172 90.57 0.1969 0.1969 0.194 0.252 random
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 2.2849 2.3889 -- 134 2273 0.2485 0.3038 -- 77.0
X Ray Diffraction 2.3889 2.5148 -- 125 2567 0.226 0.2763 -- 85.0
X Ray Diffraction 2.5148 2.6722 -- 146 2658 0.2106 0.2718 -- 90.0
X Ray Diffraction 2.6722 2.8784 -- 157 2783 0.2047 0.2812 -- 92.0
X Ray Diffraction 2.8784 3.1677 -- 156 2813 0.1967 0.2597 -- 94.0
X Ray Diffraction 3.1677 3.6254 -- 148 2925 0.187 0.2722 -- 96.0
X Ray Diffraction 3.6254 4.5649 -- 152 2952 0.1609 0.1952 -- 96.0
X Ray Diffraction 4.5649 29.5498 -- 154 3020 0.1946 0.2498 -- 94.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.9494
Anisotropic B[1][1] 9.3533
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.0753
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.278
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_angle_d 0.908
f_bond_d 0.004
f_dihedral_angle_d 17.181
f_chiral_restr 0.055
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3544
Nucleic Acid Atoms 0
Heterogen Atoms 69
Solvent Atoms 102

Software

Software
Software Name Purpose
PHENIX refinement version: 1.5_2
PDB_EXTRACT data extraction version: 3.10
MAR345dtb data collection
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing