X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Evaporation
pH 7
Temperature 289.0
Details malic acid

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 111.08 α = 90
b = 111.08 β = 90
c = 139.03 γ = 90
Symmetry
Space Group P 42 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2015-01-02
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U1 0.9792 SSRF BL17U1

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
2.35 60 97.1 0.088 -- -- 6.1 -- 35913 -- -- 41.02
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)
2.35 2.43 98.5 0.516 -- -- 6.1 --

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 2.35 49.678 -- 1.34 -- 35884 1793 97.21 -- 0.1983 0.1955 0.2498 --
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 2.3502 2.4137 -- 122 2648 0.2565 0.3036 0.0 99.0
X Ray Diffraction 2.4137 2.4847 -- 141 2581 0.2507 0.2867 0.0 98.0
X Ray Diffraction 2.4847 2.5649 -- 120 2623 0.2438 0.3535 0.0 98.0
X Ray Diffraction 2.5649 2.6566 -- 134 2616 0.2361 0.2824 0.0 98.0
X Ray Diffraction 2.6566 2.763 -- 143 2598 0.2356 0.3153 0.0 98.0
X Ray Diffraction 2.763 2.8887 -- 136 2597 0.2293 0.3209 0.0 98.0
X Ray Diffraction 2.8887 3.041 -- 156 2585 0.2271 0.2926 0.0 98.0
X Ray Diffraction 3.041 3.2315 -- 151 2612 0.2271 0.2832 0.0 97.0
X Ray Diffraction 3.2315 3.4809 -- 141 2609 0.2031 0.2767 0.0 97.0
X Ray Diffraction 3.4809 3.8311 -- 144 2607 0.1779 0.2281 0.0 97.0
X Ray Diffraction 3.8311 4.3852 -- 140 2622 0.1572 0.2099 0.0 96.0
X Ray Diffraction 4.3852 5.5237 -- 134 2640 0.153 0.1983 0.0 96.0
X Ray Diffraction 5.5237 49.6894 -- 131 2753 0.1896 0.2154 0.0 94.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 53.1752
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_angle_d 1.01
f_dihedral_angle_d 20.065
f_chiral_restr 0.065
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5326
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 226

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10_2155: ???)
HKL-2000 data collection
PDB_EXTRACT data extraction version: 3.20
HKL-2000 data reduction
HKL-2000 data scaling
PHASER phasing