X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 298.0
Details 50 MM TRIS-HCL, 16% PEG350, 180 MM CALCIUM CHLORIDE, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.85 α = 90
b = 118.4 β = 90
c = 127.97 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 300 mm plate -- 2012-12-10
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418 -- --

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
2.55 50 97.4 -- -- -- -- 39756 39756 0.0 2.4 --
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)
2.55 2.59 86.2 -- -- -- -- --

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 2.55 35.947 -- 1.34 39756 39755 1994 97.41 -- 0.1972 0.1953 0.2326 --
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 2.5489 2.6126 -- 132 2383 0.2799 0.3268 -- 87.0
X Ray Diffraction 2.6126 2.6832 -- 153 2548 0.2666 0.2777 -- 94.0
X Ray Diffraction 2.6832 2.7622 -- 149 2677 0.2549 0.3398 -- 98.0
X Ray Diffraction 2.7622 2.8513 -- 142 2706 0.2513 0.2913 -- 99.0
X Ray Diffraction 2.8513 2.9532 -- 140 2738 0.2453 0.2852 -- 99.0
X Ray Diffraction 2.9532 3.0713 -- 138 2700 0.2478 0.3263 -- 99.0
X Ray Diffraction 3.0713 3.211 -- 128 2761 0.2367 0.2835 -- 99.0
X Ray Diffraction 3.211 3.3802 -- 141 2725 0.2248 0.2598 -- 99.0
X Ray Diffraction 3.3802 3.5918 -- 142 2711 0.2048 0.2523 -- 99.0
X Ray Diffraction 3.5918 3.8688 -- 154 2730 0.1883 0.2403 -- 98.0
X Ray Diffraction 3.8688 4.2576 -- 145 2734 0.1632 0.1737 -- 98.0
X Ray Diffraction 4.2576 4.8724 -- 141 2735 0.1449 0.1905 -- 99.0
X Ray Diffraction 4.8724 6.1338 -- 167 2754 0.1735 0.1876 -- 98.0
X Ray Diffraction 6.1338 35.9506 -- 122 2859 0.1829 0.2221 -- 96.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.003
f_chiral_restr 0.046
f_dihedral_angle_d 11.075
f_angle_d 0.652
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7098
Nucleic Acid Atoms 652
Heterogen Atoms 42
Solvent Atoms 169

Software

Computing
Computing Package Purpose
HKL-2000 Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHENIX (phenix.refine: 1.8.1_1168) Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHENIX version: (phenix.refine: 1.8.1_1168) model building
HKL-2000 data collection