X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 296.0
Details 100 mM Tris-Cl, pH 8.5, 200 mM ammonium sulfate, and 20% PEG3350 (v/v), VAPOR DIFFUSION, HANGING DROP, temperature 296.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.98 α = 90
b = 60.19 β = 102.19
c = 83.68 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 270 -- 2013-04-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.97934 PAL/PLS 7A (6B, 6C1)

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
2.99 50 98.6 -- -- -- 4.4 15343 15130 -- 2.59 59.2
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)
2.9908 3.05 95.9 -- -- -- -- --

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 2.9908 38.615 -- 1.41 -- 15094 758 98.15 -- 0.2628 0.2625 0.2691 --
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 2.9908 3.2216 -- 133 2736 0.3848 0.3698 -- 94.0
X Ray Diffraction 3.2216 3.5456 -- 147 2854 0.3083 0.3407 -- 99.0
X Ray Diffraction 3.5456 4.0582 -- 163 2891 0.2601 0.2694 -- 99.0
X Ray Diffraction 4.0582 5.111 -- 160 2901 0.2246 0.2271 -- 100.0
X Ray Diffraction 5.111 38.6177 -- 155 2954 0.2283 0.2403 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 74.937
Anisotropic B[1][1] 12.41
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.02
Anisotropic B[2][2] -3.79
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -8.29
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.016
f_chiral_restr 0.044
f_plane_restr 0.003
f_dihedral_angle_d 15.045
f_angle_d 0.846
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4238
Nucleic Acid Atoms 0
Heterogen Atoms 47
Solvent Atoms 2

Software

Software
Software Name Purpose
PHENIX refinement version: 1.8.4_1496
PHENIX model building
REFMAC refinement version: 5.7.0029
HKL-2000 data reduction
HKL-2000 data scaling
PHENIX phasing
HKL-2000 data collection