X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 277.0
Details 18% PEG 3350, 0.15M DL-malic acid, 0.1M HEPES-NaOH, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 115.58 α = 90
b = 43.82 β = 128.96
c = 77.64 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 345 mm plate mirror 2010-07-07
CCD MARMOSAIC 300 mm CCD Si(111) Double Crystal Monochrometer 2010-11-15
Diffraction Radiation
Monochromator Protocol
MAR MIRRORS SINGLE WAVELENGTH
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.5418 -- --
SYNCHROTRON APS BEAMLINE 23-ID-B 1.2808 APS 23-ID-B

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 40 94.8 0.125 -- -- 9.8 40028 37958 0.0 2.0 28.2
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)
2.0 2.09 97.1 0.483 -- 2.64 3.5 1976

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
MIR 2.0 38.76 2.0 0.0 40082 37958 3669 94.7 0.201 0.197 0.197 0.235 RANDOM
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 2.0 2.09 3800 373 4781 0.283 0.286 0.015 75.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 31.3
Anisotropic B[1][1] -1.1
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 2.8
Anisotropic B[2][2] 4.12
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.03
RMS Deviations
Key Refinement Restraint Deviation
c_bond_d 0.005
c_improper_angle_d 0.69
c_angle_deg 1.1
c_dihedral_angle_d 22.1
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.22
Luzzati Sigma A (Observed) 0.21
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.27
Luzzati Sigma A (R-Free Set) 0.22
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2001
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 169

Software

Software
Software Name Purpose
DENZO data reduction
SOLVE phasing
CNS refinement version: 1.3
SCALEPACK data scaling