X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 295.0
Details 200 mM zinc acetate, 10% PEG8000, 100 mM MES, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 136.2 α = 90
b = 55 β = 121.2
c = 80.8 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- --
Diffraction Radiation
Monochromator Protocol
double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 1.00000 ALS 5.0.2

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
1.9 69.11 98.0 -- 0.13 -- 3.8 40203 40203 0.0 -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)
1.898 2.0 98.2 -- 0.63 2.6 3.8 --

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 1.898 40.245 -- 1.99 42101 40102 1999 98.61 -- 0.1962 0.1944 0.2311 --
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 1.8984 1.9458 -- 138 2611 0.2419 0.3046 -- 94.0
X Ray Diffraction 1.9458 1.9984 -- 139 2667 0.2134 0.2651 -- 99.0
X Ray Diffraction 1.9984 2.0572 -- 142 2717 0.2012 0.2166 -- 99.0
X Ray Diffraction 2.0572 2.1236 -- 142 2708 0.2024 0.229 -- 99.0
X Ray Diffraction 2.1236 2.1995 -- 142 2705 0.1913 0.2517 -- 99.0
X Ray Diffraction 2.1995 2.2876 -- 144 2725 0.1934 0.2445 -- 99.0
X Ray Diffraction 2.2876 2.3917 -- 142 2732 0.1961 0.214 -- 99.0
X Ray Diffraction 2.3917 2.5178 -- 143 2723 0.2009 0.2681 -- 99.0
X Ray Diffraction 2.5178 2.6755 -- 142 2707 0.2036 0.2421 -- 99.0
X Ray Diffraction 2.6755 2.882 -- 145 2750 0.2081 0.2639 -- 99.0
X Ray Diffraction 2.882 3.1719 -- 143 2734 0.1971 0.2166 -- 99.0
X Ray Diffraction 3.1719 3.6307 -- 143 2735 0.1877 0.2189 -- 99.0
X Ray Diffraction 3.6307 4.5732 -- 146 2767 0.1669 0.2064 -- 99.0
X Ray Diffraction 4.5732 40.2537 -- 148 2822 0.2003 0.2261 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -5.792
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 7.0118
Anisotropic B[2][2] 7.3507
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.5587
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.177
f_bond_d 0.007
f_chiral_restr 0.077
f_dihedral_angle_d 14.327
f_plane_restr 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3334
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 305

Software

Software
Software Name Purpose
Blu-Ice data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.7.2_869)
XDS data reduction
XSCALE data scaling