X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8.5
Temperature 293.0
Details 0.1M Tris, 8.25% PEG 8000, 0.02 M CdCl2, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.51 α = 90
b = 67.62 β = 90
c = 221.09 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 MARMOSAIC 300 mm CCD -- 2011-11-18
Diffraction Radiation
Monochromator Protocol
APS 22ID SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 22-ID -- APS 22-ID

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
2.25 50 98.6 0.116 -- -- 5.5 -- 47596 -- 2.0 39.25
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)
2.25 2.29 87.9 0.522 -- -- 4.4 --

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 2.25 49.38 -- 1.35 48269 47511 2409 98.4 -- 0.194 0.192 0.229 --
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 2.2505 2.2965 -- 111 2282 0.2605 0.311 -- 86.0
X Ray Diffraction 2.2965 2.3464 -- 139 2472 0.2474 0.2855 -- 94.0
X Ray Diffraction 2.3464 2.401 -- 161 2580 0.2413 0.3094 -- 98.0
X Ray Diffraction 2.401 2.461 -- 129 2613 0.2519 0.316 -- 98.0
X Ray Diffraction 2.461 2.5275 -- 155 2626 0.2291 0.2863 -- 99.0
X Ray Diffraction 2.5275 2.6019 -- 147 2663 0.2261 0.2981 -- 100.0
X Ray Diffraction 2.6019 2.6859 -- 142 2644 0.2232 0.2947 -- 100.0
X Ray Diffraction 2.6859 2.7819 -- 148 2679 0.2107 0.2665 -- 100.0
X Ray Diffraction 2.7819 2.8933 -- 116 2692 0.2108 0.2385 -- 100.0
X Ray Diffraction 2.8933 3.0249 -- 142 2667 0.2004 0.2532 -- 100.0
X Ray Diffraction 3.0249 3.1844 -- 147 2676 0.2011 0.269 -- 100.0
X Ray Diffraction 3.1844 3.3838 -- 151 2703 0.1988 0.2453 -- 100.0
X Ray Diffraction 3.3838 3.645 -- 149 2681 0.1923 0.1994 -- 100.0
X Ray Diffraction 3.645 4.0117 -- 135 2706 0.1628 0.2064 -- 100.0
X Ray Diffraction 4.0117 4.5918 -- 137 2742 0.1483 0.1755 -- 100.0
X Ray Diffraction 4.5918 5.7838 -- 143 2782 0.1626 0.1794 -- 100.0
X Ray Diffraction 5.7838 49.3888 -- 157 2894 0.2013 0.2112 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 59.43
Anisotropic B[1][1] 9.7107
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -5.5523
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.1584
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.008
f_dihedral_angle_d 13.269
f_angle_d 0.863
f_plane_restr 0.003
f_chiral_restr 0.052
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5983
Nucleic Acid Atoms 0
Heterogen Atoms 144
Solvent Atoms 382

Software

Software
Software Name Purpose
SCALEPACK data scaling
PHASER phasing
PHENIX refinement version: 1.7.1_743
PDB_EXTRACT data extraction version: 3.11
DENZO data reduction