X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6.4
Details 100MM NA-CACODYLATE, PH 6.4, 12.5% PEG2000 MME, 20% GLYCEROL, 3% PEG200

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 171.4 α = 90
b = 171.4 β = 90
c = 85.7 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
AREA DETECTOR MARRESEARCH -- 1998-08-15
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I711 -- MAX_II I711

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
2.7 30 98.9 -- 0.059 -- 5.9 -- 39633 -- -- 60.4
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)
2.7 2.8 98.0 -- 0.406 2.3 3.7 --

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
MAD 2.7 40.0 -- 0.0 -- 38894 1532 98.3 -- 0.232 0.232 0.281 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 2.7 2.87 -- 0 6334 0.353 -- -- 96.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 64.4
Anisotropic B[1][1] -16.58
Anisotropic B[1][2] 2.21
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -16.58
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 33.15
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 7.88
c_mcangle_it 10.64
c_bond_d 0.008
c_improper_angle_d 0.84
c_dihedral_angle_d 26.3
c_angle_deg 2.3
c_scbond_it 12.03
c_scangle_it 14.39
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.38
Luzzati Sigma A (Observed) 0.57
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.47
Luzzati Sigma A (R-Free Set) 0.53
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5512
Nucleic Acid Atoms 0
Heterogen Atoms 268
Solvent Atoms 52

Software

Software
Software Name Purpose
XDS data scaling
XSCALE data scaling
SOLVE phasing
SHARP phasing
CNS refinement version: 0.4
XDS data reduction